BLASTP 2.0.10 [Aug-26-1999]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= PAB0424 (rpoA1) DE:DNA-directed RNA polymerase, subunit A'
(rpoA1)
(907 letters)
Database: ./suso.pep; /banques/blast2/nr.pep
598,487 sequences; 189,106,746 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
pir||B75182 DNA-directed RNA polymerase, chain A' (rpoa1) PAB042... 1848 0.0
pir||H71031 probable DNA-directed RNA polymerase subunit A' - Py... 1814 0.0
sp|P31813|RPA1_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 1664 0.0
gi|11499472 DNA-directed RNA polymerase, subunit A' (rpoA1) [Arc... 1146 0.0
sp|O27125|RPA1_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 1142 0.0
sp|P41556|RPA1_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 1053 0.0
sp|P09846|RPA1_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 1025 0.0
sp|Q03585|RPA1_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 1023 0.0
gb|AAK40566.1| DNA-directed RNA polymerase, subunit A' (rpoA1) [... 1006 0.0
sp|P11512|RPA1_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 993 0.0
pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [va... 992 0.0
pir||D72571 probable DNA-directed RNA polymerase subunit A' APE1... 902 0.0
gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A;... 827 0.0
sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 827 0.0
pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - H... 823 0.0
pir||A69138 DNA-dependent RNA polymerase, subunit A' - Methanoba... 768 0.0
sp|P36594|RPB1_SCHPO DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 726 0.0
emb|CAA21466.2| (AL031986) DNA-directed RNA polymerase (EC 2.7.7... 715 0.0
dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [As... 714 0.0
pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest c... 705 0.0
sp|P18616|RPB1_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 704 0.0
sp|P31635|RPB0_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 700 0.0
pir||T31435 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 689 0.0
pir||I38186 RNA polymerase II largest subunit - human >gi|825713... 686 0.0
dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cric... 686 0.0
gi|6677795 RNA polymerase II 1 [Mus musculus] >gi|90464|pir||A28... 686 0.0
sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 686 0.0
gi|4505939 polymerase (RNA) II (DNA directed) polypeptide A (220... 686 0.0
gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus m... 686 0.0
pir||T31436 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 685 0.0
emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit ... 681 0.0
gi|6320061 RNA polymerase II large subunit; Rpo21p [Saccharomyce... 681 0.0
gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melan... 677 0.0
pir||T29959 DNA-directed RNA polymerase II large subunit ama-1 -... 677 0.0
sp|P16356|RPB1_CAEEL DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 675 0.0
sp|P04052|RPB1_DROME DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 675 0.0
emb|CAB42800.1| (Y18876) largest subunit of the RNA polymerase I... 670 0.0
emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase I... 670 0.0
emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase I... 670 0.0
gi|5902062 polymerase (RNA) III (DNA directed) (155kD) [Homo sap... 656 0.0
gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acant... 653 0.0
sp|O94666|RPC1_SCHPO DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 642 0.0
gi|6324690 RNA polymerase III large subunit; Rpo31p [Saccharomyc... 638 0.0
pir||T43217 RNA polymerase (EC 2.7.7.-) II, largest chain - Porp... 621 e-176
pir||T34157 hypothetical protein C42D4.8 - Caenorhabditis elegan... 621 e-176
pir||T43026 probable DNA-directed RNA polymerase (EC 2.7.7.6) II... 619 e-176
pir||T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest ... 617 e-175
pir||A64430 DNA-directed RNA polymerase (EC 2.7.7.6) subunit A' ... 616 e-175
sp|Q58445|RPA1_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 616 e-175
emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase I... 614 e-174
gb|AAA50227.1| (U10336) RNA polymerase II, largest subunit [Helo... 610 e-173
gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Cras... 605 e-172
gb|AAC14137.1| (AF058710) RNA polymerase II largest subunit [Dic... 605 e-172
gb|AAA50229.1| (U10338) RNA polymerase II, largest subunit [Ilya... 599 e-170
pir||T43260 RNA polymerase (EC 2.7.7.-) II - Trichomonas vaginal... 598 e-169
dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II larges... 593 e-168
gb|AAC83397.1| (U10331) RNA polymerase II, largest subunit [Arte... 586 e-166
pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypa... 578 e-164
gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Tryp... 578 e-164
gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Tryp... 578 e-163
pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypa... 578 e-163
gb|AAF36438.1|AF126254_1 (AF126254) RNA polymerase II largest su... 569 e-161
sp|P08968|RPC1_TRYBB DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 559 e-158
gb|AAA30233.1| (M27163) RNA polymerase III [Trypanosoma brucei] 559 e-158
sp|P17545|RPB1_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 555 e-157
sp|P17546|RPB2_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 554 e-156
gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leish... 544 e-153
gb|AAF48509.1| (AE003500) CG17209 gene product [Drosophila melan... 436 e-121
sp|P14248|RPB1_PLAFD DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 423 e-117
pir||T18492 hypothetical protein C0805w - malaria parasite (Plas... 423 e-117
sp|P28364|RPB1_EUPOC DNA-DIRECTED RNA POLYMERASE II LARGEST SUBU... 381 e-104
sp|O54889|RPA1_RAT DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT... 379 e-103
gi|6677793 RNA polymerase 1-4 (194 kDa subunit) [Mus musculus] >... 378 e-103
gb|AAF58234.1| (AE003814) RpI1 gene product [Drosophila melanoga... 376 e-103
pir||T06754 DNA-directed RNA polymerase I 190K chain homolog F15... 375 e-102
gi|7661686 DKFZP586M0122 protein [Homo sapiens] >gi|4096591|gb|A... 365 2e-99
sp|P91875|RPA1_DROME DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 364 3e-99
gb|AAA34890.1| (J03530) RNA polymerase A(I) large subunit [Sacch... 363 4e-99
gi|6324917 RNA polymerase I subunit 190 (alpha); Rpa190p [Saccha... 363 4e-99
sp|P27625|RPC1_PLAFA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 362 1e-98
pir||A45597 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 362 1e-98
sp|P15398|RPA1_SCHPO DNA-DIRECTED RNA POLYMERASE I 190 KDA POLYP... 360 3e-98
pir||JS0206 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chai... 358 2e-97
gi|9628206 RNA polymerase subunit 1 [African swine fever virus] ... 339 1e-91
pir||T19606 hypothetical protein Y48E1A.1 - Caenorhabditis elega... 327 4e-88
gb|AAA28863.1| (M11798) large subunit of RNA polymerase II [Dros... 327 4e-88
emb|CAA40431.1| (X57145) A subunit [Halococcus morrhuae] 326 7e-88
sp|P15349|RPA1_HALMO DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|... 326 7e-88
pir||S73104 DNA-directed RNA polymerase (EC 2.7.7.6) III large c... 321 2e-86
pir||T03179 probable DNA-directed RNA polymerase (EC 2.7.7.6) la... 319 8e-86
gb|AAC49712.1| (U90210) RNA polymerase II largest subunit [Spiro... 315 1e-84
sp|P25202|RPC1_GIALA DNA-DIRECTED RNA POLYMERASE III LARGEST SUB... 305 2e-81
pir||S22812 DNA-directed RNA polymerase (EC 2.7.7.6) III largest... 305 2e-81
sp|P16355|RPA1_TRYBB DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 299 1e-79
pir||A34374 DNA-directed RNA polymerase (EC 2.7.7.6) I largest c... 299 1e-79
gb|AAA92868.1| (L34213) DNA-dependent RNA polymerase largest sub... 298 2e-79
sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 286 8e-76
pir||T09641 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 286 8e-76
dbj|BAA88487.1| (AB025334) RNA polymerase III largest subunit [L... 283 5e-75
pir||T10908 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 283 7e-75
sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 283 7e-75
sp|P95405|RPOC_OENOE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 283 7e-75
sp|P96178|RPOC_WEIPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 282 9e-75
dbj|BAA82753.1| (AB018418) largest subunit of the DNA-dependent ... 282 2e-74
dbj|BAA88486.1| (AB025333) RNA polymerase III largest subunit [E... 281 3e-74
sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 280 3e-74
pir||T09645 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 280 3e-74
emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus a... 280 5e-74
sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 280 5e-74
gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus s... 279 1e-73
sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 279 1e-73
pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subti... 279 1e-73
sp|P96177|RPOC_WEIHE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 277 3e-73
dbj|BAA88485.1| (AB025332) RNA polymerase II largest subunit [La... 277 4e-73
pir||T10432 DNA-directed RNA polymerase (EC 2.7.7.6) - Pediococc... 275 1e-72
sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 275 1e-72
dbj|BAA88484.1| (AB025331) RNA polymerase II largest subunit [Ep... 270 5e-71
pir||F81686 DNA-directed RNA polymerase, beta' chain TC0588 [imp... 269 9e-71
sp|O84316|RPOC_CHLTR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 269 1e-70
sp|P95816|RPOC_STRPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 267 3e-70
sp|P43739|RPOC_HAEIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 266 6e-70
pir||G83112 DNA-directed RNA polymerase beta* chain PA4269 [impo... 266 8e-70
gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subun... 265 1e-69
sp|P00577|RPOC_ECOLI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 265 2e-69
prf||0808241A polymerase beta',RNA [Escherichia coli] 265 2e-69
gb|AAF33515.1| (AF170176) 99% identity over 1407 amino acids wit... 262 1e-68
sp|P57145|RPOC_BUCAI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 262 1e-68
sp|P94899|RPOC_LEUPS DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 262 1e-68
prf||1008145A polymerase beta',RNA [Escherichia coli] 261 2e-68
sp|Q9Z999|RPOC_CHLPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 261 2e-68
pir||E81548 DNA-directed RNA polymerase, beta' chain CP0693 [imp... 261 2e-68
dbj|BAA98292.1| (AP002545) RNA polymerase beta' [Chlamydophila p... 261 2e-68
dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanel... 261 3e-68
sp|P94892|RPOC_LEUME DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 257 5e-67
pir||D82533 RNA polymerase beta' subunit XF2632 [imported] - Xyl... 256 1e-66
emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconost... 254 4e-66
sp|O67763|RPOC_AQUAE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 253 7e-66
pir||F81233 DNA-directed RNA polymerase, beta' chain NMB0133 [im... 249 8e-65
pir||C82007 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain... 249 1e-64
prf||1605164A RNA polymerase beta' [Pseudomonas putida] 248 2e-64
gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli] 245 2e-63
prf||0805230A rpoC gene EcoRID fragment [Escherichia coli] 245 2e-63
sp|P19176|RPOC_PSEPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 244 3e-63
pir||F64669 DNA-directed RNA polymerase, beta subunit - Helicoba... 241 2e-62
pir||B71846 dna-directed RNA polymerase, beta chain - Helicobact... 241 2e-62
emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' cha... 237 4e-61
sp|O51349|RPOC_BORBU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 237 5e-61
gb|AAA62413.1| (M81388) DNA-directed RNA polymerase I largest su... 233 9e-60
pir||F75461 DNA-directed RNA polymerase, beta' subunit - Deinoco... 224 3e-57
sp|P75271|RPOC_MYCPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 222 1e-56
sp|P47582|RPOC_MYCGE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TR... 213 9e-54
emb|CAA70579.1| (Y09428) DNA directed RNA polymerase beta' chain... 212 2e-53
gi|9633877 gp068R [Rabbit fibroma virus] >gi|6578596|gb|AAF17950... 204 4e-51
dbj|BAA88785.1| (AB015885) similar to vaccinia J6R [Yaba monkey ... 204 4e-51
gi|9633704 m68R [Myxoma virus] >gi|6523923|gb|AAF14956.1|AF17072... 203 6e-51
gi|11467689 RNA polymerase b'-chain [Guillardia theta] >gi|60941... 203 1e-50
sp|P07392|RPO1_VACCV DNA-DIRECTED RNA POLYMERASE 147 KD POLYPEPT... 197 6e-49
pir||T37366 RNA polymerase subunit rpo147 - vaccinia virus (stra... 196 1e-48
gi|9791022 J6R; putative [Vaccinia virus] >gi|133379|sp|P20504|R... 196 1e-48
gi|9633278 M6R protein [variola minor virus] >gi|7519933|pir||A7... 195 2e-48
gi|9627604 L6R [Variola virus] >gi|417701|sp|P33053|RPO1_VARV DN... 194 3e-48
gi|11466501 RNA polymerase subunit beta' [Reclinomonas americana... 190 6e-47
gi|9634807 ORF FPV137 RNA polymerase subunit, RPO147 [Fowlpox vi... 185 1e-45
gi|11467567 RNA polymerase beta'-chain [Odontella sinensis] >gi|... 185 2e-45
pir||T28156 DNA-directed RNA polymerase homolog - malaria parasi... 180 5e-44
pir||G69137 DNA-dependent RNA polymerase, subunit A' - Methanoba... 179 1e-43
gb|AAF75815.1|AC011000_18 (AC011000) Contains similarity to DNA-... 161 5e-38
sp|P12116|RPOC_TOBAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN 155 3e-36
gi|11465945 RNA polymerase beta' subunit [Nicotiana tabacum] >gi... 155 3e-36
pir||A05032 rpoC protein homolog rpoC - common tobacco chloroplast 153 8e-36
prf||1211235Q rpoC-like ORF 548 [Nicotiana tabacum] 153 8e-36
sp|P28363|RPA1_EUPOC DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUN... 151 3e-35
gb|AAB51210.1| (U73451) large subunit RNA polymerase II [Cruznem... 139 1e-31
gb|AAB40622.1| (U61763) RNA polymerase II large subunit [Zeldia ... 137 5e-31
gb|AAB51213.1| (U73448) large subunit RNA polymerase II [unident... 137 5e-31
pir||S04198 DNA-directed RNA polymerase (EC 2.7.7.6) II large ch... 137 6e-31
gi|9629011 MC079R [Molluscum contagiosum virus subtype 1] >gi|74... 136 1e-30
gb|AAB51211.1| (U73454) large subunit RNA polymerase II [Mesorha... 136 1e-30
gb|AAC42119.1| (L38927) DNA-dependent RNA polymerase 147 kDa sub... 135 2e-30
emb|CAA31845.1| (X13490) Crp22 [Crithidia fasciculata] 135 2e-30
gb|AAB40621.1| (U61762) RNA polymerase II large subunit [Aduncos... 135 2e-30
gb|AAB51212.1| (U73456) large subunit RNA polymerase II [Terator... 132 2e-29
dbj|BAA10999.1| (D64127) RNA polymerase beta' subunit [Bacillus ... 124 4e-27
pir||S14183 DNA-directed RNA polymerase (EC 2.7.7.6) largest cha... 122 2e-26
gb|AAD09356.1| (U33823) DNA-directed RNA polymerase I largest su... 105 3e-21
gi|11431655 polymerase (RNA) III (DNA directed) (155kD) [Homo sa... 83 1e-14
gb|AAF79162.1|AF249985_1 (AF249985) RNA polymerase III large sub... 80 8e-14
gb|AAF79163.1|AF249986_1 (AF249986) RNA polymerase III large sub... 80 8e-14
gi|11465716 DNA-directed RNA polymerase beta [Porphyra purpurea]... 78 3e-13
gi|11467790 beta'' subunit of RNA polymerase [Nephroselmis oliva... 74 6e-12
>pir||B75182 DNA-directed RNA polymerase, chain A' (rpoa1) PAB0424 - Pyrococcus
abyssi (strain Orsay) >gi|5458047|emb|CAB49537.1|
(AJ248284) DNA-directed RNA polymerase, subunit A'
(rpoA1) [Pyrococcus abyssi]
Length = 907
Score = 1848 bits (4735), Expect = 0.0
Identities = 907/907 (100%), Positives = 907/907 (100%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC
Sbjct: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL
Sbjct: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
Query: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR
Sbjct: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
Query: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD
Sbjct: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP
Sbjct: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT
Sbjct: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD
Sbjct: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE
Sbjct: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL
Sbjct: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV
Sbjct: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV
Sbjct: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
Query: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES
Sbjct: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
Query: 721 KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY 780
KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY
Sbjct: 721 KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY 780
Query: 781 RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY
Sbjct: 781 RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
Query: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIK
Sbjct: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
Query: 901 MRANNKG 907
MRANNKG
Sbjct: 901 MRANNKG 907
>pir||H71031 probable DNA-directed RNA polymerase subunit A' - Pyrococcus
horikoshii >gi|3257973|dbj|BAA30656.1| (AP000006) 907aa
long hypothetical DNA-directed RNA polymerase subunit A'
[Pyrococcus horikoshii]
Length = 907
Score = 1814 bits (4647), Expect = 0.0
Identities = 884/906 (97%), Positives = 901/906 (98%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M SVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC
Sbjct: 1 MHSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL
Sbjct: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
Query: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR
Sbjct: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
Query: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVT RPSITLETGIRAEDD
Sbjct: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTVRPSITLETGIRAEDD 240
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LTHKLVDIIRINNRL+QNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP
Sbjct: 241 LTHKLVDIIRINNRLRQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT
Sbjct: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN+ENLA+MIDIGWTVERHL+DGD
Sbjct: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNKENLAKMIDIGWTVERHLVDGD 420
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
IVLFNRQPSLHRMSIMAHRVRVMPY+TFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE
Sbjct: 421 IVLFNRQPSLHRMSIMAHRVRVMPYKTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
A+ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL
Sbjct: 481 AKILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDE E+CEALEKLIEEKL+PDPEEV
Sbjct: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEEEKCEALEKLIEEKLIPDPEEV 600
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV
Sbjct: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
Query: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
ITHKGFTTGIDDEDLPEEARDRI+EIIREAEERVQ+LIEAYKRGELEPLPGK+LEETLES
Sbjct: 661 ITHKGFTTGIDDEDLPEEARDRIREIIREAEERVQRLIEAYKRGELEPLPGKSLEETLES 720
Query: 721 KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY 780
KIMAVLAEARDNAGS+AEKYLGM+NH VIMAKTGARGKILNITQMAALLGQQSIRG+RLY
Sbjct: 721 KIMAVLAEARDNAGSVAEKYLGMNNHAVIMAKTGARGKILNITQMAALLGQQSIRGRRLY 780
Query: 781 RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
RGF+GRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY
Sbjct: 781 RGFKGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
Query: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVI+RTLIK
Sbjct: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIVRTLIK 900
Query: 901 MRANNK 906
MR+N K
Sbjct: 901 MRSNGK 906
>sp|P31813|RPA1_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|280353|pir||S25564
DNA-directed RNA polymerase (EC 2.7.7.6) chain A' -
Thermococcus celer >gi|48141|emb|CAA47723.1| (X67313)
Subunit A' of DNA-dependent RNA polymerase
[Thermococcus celer]
Length = 905
Score = 1664 bits (4262), Expect = 0.0
Identities = 789/902 (87%), Positives = 855/902 (94%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
MQS+KKVIGSI+FGILSPQEIRKMSA E+TVPDTYD+DGYPIEGG+MDKR+GVIDPGLRC
Sbjct: 1 MQSIKKVIGSIDFGILSPQEIRKMSAAEITVPDTYDEDGYPIEGGLMDKRLGVIDPGLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
ETCGA+AGECPGHFGH+ELARPVIHVGFAKTIHR+LESTCRECGRIKLTDEEIEEY K
Sbjct: 61 ETCGARAGECPGHFGHVELARPVIHVGFAKTIHRVLESTCRECGRIKLTDEEIEEYFHKF 120
Query: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
E+ NR+ ++++KEIHKKA+ERMVCPHCG+PQ+PIKFE+PT+YWELRKDE+GNEYKHR
Sbjct: 121 EVTGNRKKAKDRLIKEIHKKAKERMVCPHCGSPQFPIKFERPTVYWELRKDEEGNEYKHR 180
Query: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
MMP+E+RDRLEKIPD+DLPL+GL EK+RPEWMVLTVLPVPPVT RPSITLE+GIRAEDD
Sbjct: 181 MMPSEVRDRLEKIPDRDLPLIGLDAEKARPEWMVLTVLPVPPVTMRPSITLESGIRAEDD 240
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LTHKLVDIIRINNRLK NIEAGAPQLIIEDLWDLLQYHVTTYINNETSG+PPAKHKSGRP
Sbjct: 241 LTHKLVDIIRINNRLKSNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGIPPAKHKSGRP 300
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
LKTL+QRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP+ IAMELTVPEKVT
Sbjct: 301 LKTLSQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPMAIAMELTVPEKVT 360
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
EFN EKLRKMVLNGP+KYPGANYVIDPEGRRIR+ME+N E +A +DIGWTVERHLLDGD
Sbjct: 361 EFNFEKLRKMVLNGPEKYPGANYVIDPEGRRIRLMENNLETVAEKLDIGWTVERHLLDGD 420
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
+VLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL+VCPPYNADFDGDEMNLHVPQTEEAQAE
Sbjct: 421 VVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLSVCPPYNADFDGDEMNLHVPQTEEAQAE 480
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
A+ILMEVQNHIISPRYGGP+I GIQDHISGGYLLTREGAYF R EVEQMLMFAGVD+ L
Sbjct: 481 AKILMEVQNHIISPRYGGPLIAGIQDHISGGYLLTREGAYFERTEVEQMLMFAGVDVDRL 540
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
PEPDK ENG LWSGKTIFSLLLP DLT+WYRNKLCDEP RCEALEKLIEEKL+PD EEV
Sbjct: 541 PEPDKVENGVELWSGKTIFSLLLPKDLTIWYRNKLCDEPGRCEALEKLIEEKLIPDEEEV 600
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
R LAYDGF YI NGKLLSGAIDK AYGREDG +LD+IVREYGVERARQFLDQVTKL IWV
Sbjct: 601 RALAYDGFTYILNGKLLSGAIDKTAYGREDGKLLDIIVREYGVERARQFLDQVTKLAIWV 660
Query: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
ITHKGFTT IDDEDLP EA DRI+EIIREAEERV +LIEAY+ GELEP+PGKTLEETLES
Sbjct: 661 ITHKGFTTAIDDEDLPTEALDRIREIIREAEERVNRLIEAYRNGELEPIPGKTLEETLES 720
Query: 721 KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY 780
KIMA LAEARDNAG +AE+YLGM NH VIMAKTGARGKILNITQMAA+LGQQSIRGKRLY
Sbjct: 721 KIMAALAEARDNAGKVAERYLGMSNHAVIMAKTGARGKILNITQMAAMLGQQSIRGKRLY 780
Query: 781 RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
RG+R RVL+HFKPGDLGARA+GFV+NSYKSGL+PQEYFFHAMGGREGLVDTAVRTAQSGY
Sbjct: 781 RGYRERVLTHFKPGDLGARARGFVINSYKSGLTPQEYFFHAMGGREGLVDTAVRTAQSGY 840
Query: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
MQRRLINALQDLKV+YDGTVRDPTG+IVQFRYGEDG+DPM+SW GKT+DV+RV++RTL+K
Sbjct: 841 MQRRLINALQDLKVEYDGTVRDPTGIIVQFRYGEDGIDPMRSWKGKTIDVNRVVLRTLLK 900
Query: 901 MR 902
+R
Sbjct: 901 LR 902
>gi|11499472 DNA-directed RNA polymerase, subunit A' (rpoA1) [Archaeoglobus
fulgidus] >gi|7434740|pir||G69485 DNA-directed RNA
polymerase, subunit A' (rpoA1) homolog - Archaeoglobus
fulgidus >gi|2648656|gb|AAB89365.1| (AE000972)
DNA-directed RNA polymerase, subunit A' (rpoA1)
[Archaeoglobus fulgidus]
Length = 867
Score = 1146 bits (2931), Expect = 0.0
Identities = 563/898 (62%), Positives = 698/898 (77%), Gaps = 40/898 (4%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
V K I +I+F +LSPQEIR+MS V++ P+TYDDDG+PI+GG+MD R+GVIDPGLRC+TC
Sbjct: 2 VPKRISAIKFEVLSPQEIRRMSVVKIITPETYDDDGFPIDGGLMDTRLGVIDPGLRCKTC 61
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
G KAGECPGHFGH+ELA PVIHVG+AK I R+L TC ECGRI L DE ++++ ++E
Sbjct: 62 GGKAGECPGHFGHVELAAPVIHVGYAKMIARLLNGTCSECGRILLKDERRDKFIAEIERR 121
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
K +++KE+ + + CPHCGA Q +KF+KPT ++ +HR+ P
Sbjct: 122 KELNQSYEEVVKEVFRLTKAAKKCPHCGAEQLEVKFDKPTFFYL---------GEHRLTP 172
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
++R+ LEKIPD DLP G++P+ +RPEW VLTVLPVPPVT RPSI LETG R+EDDLTH
Sbjct: 173 KDVREWLEKIPDDDLPAFGINPKATRPEWFVLTVLPVPPVTVRPSIILETGQRSEDDLTH 232
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIRIN R +N EAGAPQ I+EDLW+LLQYHVTTYI+NE SG+PPA+H+SGRPLKT
Sbjct: 233 KLVDIIRINQRFMENKEAGAPQQILEDLWELLQYHVTTYIDNEVSGIPPARHRSGRPLKT 292
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFRG+LSGKRVNFSARTVISPDP +SINEVGVP +IA ELTVP VT N
Sbjct: 293 LAQRLKGKEGRFRGSLSGKRVNFSARTVISPDPCLSINEVGVPREIAEELTVPIYVTPQN 352
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVL 423
I+ R+ VL ++P ANY++ P+GRRIR++ESN+E LA ++ GW VER L+DGDIVL
Sbjct: 353 IDMAREFVLR--SEHPKANYIVRPDGRRIRVIESNKEELAEKLEPGWIVERQLMDGDIVL 410
Query: 424 FNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARI 483
FNRQPSLHRMSIMAH VRV+PY+TFRLN AVCPPYNADFDGDEMNLHVPQ+ EAQAEA+I
Sbjct: 411 FNRQPSLHRMSIMAHYVRVLPYKTFRLNPAVCPPYNADFDGDEMNLHVPQSLEAQAEAKI 470
Query: 484 LMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEP 543
LM VQ HI+SPR+GGPIIGGI DHISG YLLTR FTREE ++L +DI E+P
Sbjct: 471 LMAVQEHILSPRFGGPIIGGIHDHISGLYLLTRGEKKFTREEAMELL--RSLDISEIPVK 528
Query: 544 DKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKL 603
D+Y +GK IFS +LP D+T+ ++ ++C E C+ E
Sbjct: 529 DEY-------TGKEIFSFILP-DITLEFKAEICQGCEECKGAE----------------C 564
Query: 604 AYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITH 663
YD +V I+NGKLL G ID+KA G GII+D I R+YG E A++F+D +T+L I +I+
Sbjct: 565 EYDAYVIIENGKLLKGTIDEKAVGAFKGIIIDEIARKYGKEMAKKFIDDMTQLAIRIISK 624
Query: 664 KGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIM 723
GFT GIDDED+P EA ++I+E+++EAE V +LIEAY+RG+LEP+PG+++EETLE +IM
Sbjct: 625 LGFTVGIDDEDIPPEAAEQIEEVLKEAENEVNRLIEAYRRGDLEPMPGRSIEETLEMRIM 684
Query: 724 AVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRG- 782
VL ARD AG IA+++LGMDN VIMA +GARG +LN+TQMAA +GQQS+RG+R+ RG
Sbjct: 685 QVLGRARDRAGKIAQRHLGMDNAAVIMAVSGARGSMLNLTQMAACIGQQSVRGERISRGY 744
Query: 783 -FRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
+ R LSHFKPGDLGA A+GFV +SYK GLSP E+FFHA GGREGLVDTAVRT+QSGY+
Sbjct: 745 TYTNRTLSHFKPGDLGAEARGFVRSSYKKGLSPVEFFFHAAGGREGLVDTAVRTSQSGYL 804
Query: 842 QRRLINALQDLKVDYDGTVRDPT-GVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTL 898
QRR+INALQDLKV+YDGTVR+ T G +VQFRYGEDGVDPM+S+ GK VDV R+I +
Sbjct: 805 QRRMINALQDLKVEYDGTVREQTSGALVQFRYGEDGVDPMRSFRGKPVDVRRIIREVI 862
>sp|O27125|RPA1_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|7434741|pir||G69006
DNA-directed RNA polymerase (EC 2.7.7.6) chain A' -
Methanobacterium thermoautotrophicum (strain Delta H)
>gi|2622150|gb|AAB85542.1| (AE000876) DNA-dependent RNA
polymerase, subunit A' [Methanobacterium
thermoautotrophicum]
Length = 870
Score = 1142 bits (2922), Expect = 0.0
Identities = 572/903 (63%), Positives = 695/903 (76%), Gaps = 35/903 (3%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M+ + K I I FG++SP++IRKMS ++ PDTYD+DGYPIE G+MD R+GVIDP LRC
Sbjct: 1 MRGILKKISQINFGLMSPEDIRKMSVTQIVTPDTYDEDGYPIENGLMDPRLGVIDPSLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
TCGAK GECPGHFG I LARPVIHVGFA TIH+IL STCR+CGR+ LT+ EIEEY +++
Sbjct: 61 RTCGAKGGECPGHFGSINLARPVIHVGFADTIHKILRSTCRKCGRVLLTETEIEEYRQRI 120
Query: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
A + + I+KEI+ +AR R CPHC Q IK +KP E +YK
Sbjct: 121 LDAMEKEESLTPIIKEIYAEAR-RDKCPHCEEEQEEIKLDKPVSIVE-------GDYK-- 170
Query: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
+ P+E+R+RLE+I D D +LG++PE +RPEWMVLTVLPVPPVT RPSITLETG R+EDD
Sbjct: 171 LTPSEVRERLERISDDDALILGVNPEVARPEWMVLTVLPVPPVTVRPSITLETGERSEDD 230
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LTHKLVDI+RIN RLK+N+EAGAPQLI+EDLW+LLQYHVTTY +NE SGVPPA+H+SGRP
Sbjct: 231 LTHKLVDILRINQRLKENMEAGAPQLIVEDLWELLQYHVTTYFDNEASGVPPARHRSGRP 290
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
LKTLAQRLKGKEGRFR NLSGKRVNFSARTVISPDP ISINEVGVP IA E+TVP VT
Sbjct: 291 LKTLAQRLKGKEGRFRSNLSGKRVNFSARTVISPDPNISINEVGVPEIIAREVTVPVYVT 350
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
E+NI+++R+ + NGPD +PGANYVI P+GR+IRI +E + + G+ VERHL DGD
Sbjct: 351 EWNIDRMREYIENGPDVHPGANYVIRPDGRKIRIYNETKEVVLENLKPGYIVERHLKDGD 410
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
IVLFNRQPSLHRMS+MAH+VRV+PY+TFRLNL VCPPYNADFDGDEMN+HV QTEE++AE
Sbjct: 411 IVLFNRQPSLHRMSMMAHQVRVLPYKTFRLNLCVCPPYNADFDGDEMNMHVFQTEESRAE 470
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
A+ LM VQ HI+SPR+GGPIIGGI DHISG YLLTR+ A F+ E+V Q+L AG L
Sbjct: 471 AKTLMRVQEHILSPRFGGPIIGGIHDHISGAYLLTRKSAVFSEEKVFQILKKAG-----L 525
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
P PD G+ W+GK IFS++LPDDL + YR ++C + E C +E
Sbjct: 526 PLPD--SRGRD-WTGKEIFSMVLPDDLNMVYRAEVCRKCEECLEME-------------- 568
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
D +V I+NG+L+SG ID+KAYG G ILD IV+EYG + AR+FLD TKL I
Sbjct: 569 --CENDAYVVIENGQLISGVIDEKAYGAFAGKILDHIVKEYGTDAAREFLDSATKLAIAG 626
Query: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
I H GFTT +DE++PEEAR+RI+ +R AE RV +LIEAY+ GELEPLPG++LEETLE
Sbjct: 627 IMHAGFTTSTNDEEIPEEARERIEAHLRNAEARVDQLIEAYENGELEPLPGRSLEETLEM 686
Query: 721 KIMAVLAEARDNAGSIAEKYLGMD-NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRL 779
KIM VL EARD +G IAE Y MD NH VIMA TGARG +LN+TQ+ A +GQQS+RG R+
Sbjct: 687 KIMQVLGEARDKSGEIAESYFDMDENHAVIMALTGARGSMLNLTQITACVGQQSVRGGRI 746
Query: 780 YRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSG 839
RG+ R L HFK G+LGA+++GFV +SYK GL P E+FFHAMGGREGLVDTA+RTAQSG
Sbjct: 747 SRGYDNRTLPHFKKGELGAKSRGFVHSSYKEGLDPIEFFFHAMGGREGLVDTAIRTAQSG 806
Query: 840 YMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLI 899
YMQRRL+NALQDL VD +G V D GVI+Q R+GEDGVDP KS GK VD+D+++ +
Sbjct: 807 YMQRRLVNALQDLTVDENGRVVDNRGVIIQNRFGEDGVDPAKSDYGKIVDLDKLVEEIRL 866
Query: 900 KMR 902
K +
Sbjct: 867 KSK 869
>sp|P41556|RPA1_METVA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|629376|pir||S47162
DNA-directed RNA polymerase (EC 2.7.7.6) - Methanococcus
vannielii >gi|505292|emb|CAA51728.1| (X73293)
DNA-directed RNA polymerase [Methanococcus vannielii]
Length = 889
Score = 1053 bits (2694), Expect = 0.0
Identities = 514/905 (56%), Positives = 669/905 (73%), Gaps = 32/905 (3%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
V K IG I FG+LSP++IR MS ++ DTYDDDGYPI+GG+MD R+GVIDPGL C++C
Sbjct: 6 VPKEIGDITFGLLSPEQIRTMSVAKIVTADTYDDDGYPIDGGLMDTRLGVIDPGLVCKSC 65
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
+ G CPGHFGHIEL++ VIH+GFAK I+++L++ C CG++ +T+ + +EY++K+
Sbjct: 66 SGRVGTCPGHFGHIELSKSVIHIGFAKDIYKLLKAVCPHCGKVTVTEIKRDEYLEKMLKL 125
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ + + ++ K+A + VCP CG +Y IK++KPT Y +L Q ++
Sbjct: 126 EEDGGDPWTLSDDLLKEAAKSSVCPSCGEVKYDIKYDKPTTYHQLDGKSQ-----KQLTS 180
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+E+R+ LEKIP++D LLG++ +RPE+MVLTVLPVPPVT RPSITLE+G R+EDDLTH
Sbjct: 181 SEVREILEKIPNEDCKLLGINSRVARPEYMVLTVLPVPPVTVRPSITLESGERSEDDLTH 240
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIRIN RL++NI GAP LIIEDLWDLLQYH+ TY +NE G+PPA+H+SGRPL+T
Sbjct: 241 KLVDIIRINQRLEENINGGAPNLIIEDLWDLLQYHINTYFDNEAPGIPPARHRSGRPLRT 300
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFR NL+GKRVNFSARTVISPDP +SINEVG+P IA ELTVPEKVT +N
Sbjct: 301 LAQRLKGKEGRFRHNLAGKRVNFSARTVISPDPRLSINEVGIPELIAKELTVPEKVTPYN 360
Query: 364 IEKLRKMVLNGPDKYPGANYVIDP--------EGRRIRIMESNRENLARMIDIGWTVERH 415
IE++RK++ NG DK+PG NYVI E +I+I ++N++ I G VERH
Sbjct: 361 IERIRKLIENGSDKHPGVNYVIKKVKTKDGKEEEYKIKITDTNKKMWVENIVDGMVVERH 420
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L DGD+VL+NRQPSLHRMSIMAH+V+V+PYRTFR NL VCPPYNADFDGDEMN+HVPQ+E
Sbjct: 421 LGDGDVVLYNRQPSLHRMSIMAHKVKVLPYRTFRHNLCVCPPYNADFDGDEMNVHVPQSE 480
Query: 476 EAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGV 535
EA+AEA LM V+ HIISPRYGGPIIG I D +SG Y+LT F ++E +L +G
Sbjct: 481 EARAEAETLMLVEKHIISPRYGGPIIGAIHDFVSGAYVLTSSN--FIKDEALTLLKSSGF 538
Query: 536 DIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMP 595
EL EPD ENG +SGK++FS LP L + Y+ K+C + +C+ E
Sbjct: 539 G-SELGEPDFVENGIEYYSGKSLFSKTLPKGLNLQYKAKVCKKCVQCKREE--------- 588
Query: 596 DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTK 655
D FV I+NG+L+ G IDK +G E G++L+ IV+++G E AR FLD TK
Sbjct: 589 -------CENDAFVIIRNGRLVQGVIDKNGFGAETGVVLNTIVKDFGSEDARTFLDSATK 641
Query: 656 LTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLE 715
+++ + +GFTTGIDDED+P EA I++++ +AE VQ+++E Y+ G L+PLPG+ +E
Sbjct: 642 MSVKSMMLRGFTTGIDDEDIPSEAIQEIQDLLDKAESDVQEIVERYEGGTLDPLPGRGIE 701
Query: 716 ETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIR 775
E+ E+ IM +L +ARD+ G +AEKYL +NH +MA+TGARG +LNIT MAA +GQQS+R
Sbjct: 702 ESREAYIMQILGKARDDTGKVAEKYLSKENHAALMARTGARGSLLNITMMAASVGQQSVR 761
Query: 776 GKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRT 835
G R++RG+RGR L HF G L A++ GFV + YK GL+P EYFFHAMGGREGLVD AVRT
Sbjct: 762 GGRVFRGYRGRTLPHFGEGSLDAKSHGFVRSCYKKGLAPTEYFFHAMGGREGLVDQAVRT 821
Query: 836 AQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIM 895
AQSGYMQRRL+NALQD+K +YDGTVRD G+IVQF YGED VDP K+ GK VD+D+V
Sbjct: 822 AQSGYMQRRLVNALQDIKAEYDGTVRDSRGIIVQFNYGEDLVDPSKADHGKGVDLDKVFT 881
Query: 896 RTLIK 900
+ + K
Sbjct: 882 KVISK 886
>sp|P09846|RPA1_METTW DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|80918|pir||S02196
DNA-directed RNA polymerase (EC 2.7.7.6) chain A -
Methanobacterium thermoautotrophicum (strain Winter)
>gi|809727|emb|CAA30838.1| (X08038) RNA polymerase
subunit A? (AA 1-865) [Methanobacterium
thermoautotrophicum]
Length = 865
Score = 1025 bits (2621), Expect = 0.0
Identities = 525/901 (58%), Positives = 659/901 (72%), Gaps = 40/901 (4%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M+ + K I I FG++SP++IRKMS ++ PDTYD+DGYPIE +MD R+GVI LRC
Sbjct: 1 MRGILKKISQINFGLMSPEDIRKMSVAQIVTPDTYDEDGYPIENELMDPRLGVIGSSLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKL 120
+CGAK GECPGHFG I LARPVIHVGFA TIH+IL S CR+C RI LT+ EI++Y +++
Sbjct: 61 RSCGAKGGECPGHFGSINLARPVIHVGFADTIHKILSSICRKCSRILLTETEIQDYRQRI 120
Query: 121 ELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR 180
A R + I+KEI+ +AR R CPHC Q IK +KP E +YK
Sbjct: 121 LEAMEREESLTPIIKEIYAEAR-RDRCPHCEEEQEEIKLDKPVSIVE-------GDYK-- 170
Query: 181 MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDD 240
+ P+E+R+RLE+I D D LLG++PE +RPEWMVLTVLPVPPVT RPSITLETG R+EDD
Sbjct: 171 LTPSEVRERLERITDNDSLLLGVNPEVARPEWMVLTVLPVPPVTVRPSITLETGERSEDD 230
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LTHKLVDI+RIN RLK+N+EAGAPQLI+EDLW+LLQYHVTTY +NE SGVPPA+H+SGRP
Sbjct: 231 LTHKLVDILRINQRLKENMEAGAPQLIVEDLWELLQYHVTTYFDNEASGVPPARHRSGRP 290
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
LKTLAQRLKGKEGRFR NLSGKRVNFSARTV+SPDP +S+NEVGVP IA E+TVP VT
Sbjct: 291 LKTLAQRLKGKEGRFRSNLSGKRVNFSARTVVSPDPNVSVNEVGVPELIAKEVTVPVYVT 350
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGD 420
E+NI+++++ + NGPD +PGANYVI P+GR+IR ++ + + G+ VERHL DGD
Sbjct: 351 EWNIDRMKEHIENGPDVHPGANYVIRPDGRKIRAYNETKDVVLENLKPGYIVERHLKDGD 410
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
IVLFNRQPSLHRMS+MAH VRV+PY+TFRLNL VCPPYNADFDGDEMN+HV QTEE++AE
Sbjct: 411 IVLFNRQPSLHRMSMMAHEVRVLPYKTFRLNLCVCPPYNADFDGDEMNMHVFQTEESRAE 470
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
A+ LM VQ+HI+SPR+ +D SG Y + ++ + + D +E
Sbjct: 471 AKTLMRVQDHILSPRF--------RDLSSGVYTTISQEHTSSQGKRLFSVRSRPPDPQEG 522
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
P G+ W+ K IFS++LPDDL + Y ++C + + C L D E
Sbjct: 523 RAPPPDREGRE-WTVKEIFSMVLPDDLNMVYLAEICRKCDEC----------LEMDWEN- 570
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWV 660
D +V I+NG+L++G ID+KAYG G ILD IV+EYG + A++FLD TKL I
Sbjct: 571 -----DAYVVIENGQLITGVIDEKAYGAFAGKILDQIVKEYGSDAAKEFLDSATKLAIAG 625
Query: 661 ITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLES 720
I H GFTT +DE++PEEA++RI+ +R AE RV +LIEAY+ GELEPLPG++LEETLE
Sbjct: 626 IMHAGFTTSTNDEEIPEEAKERIEAHLRNAEARVDQLIEAYENGELEPLPGRSLEETLEM 685
Query: 721 KIMAVLAEARDNAGSIAEKYLGMD-NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRL 779
KIM VL EA+D +G IAE Y MD NH VIMA TGARG +LN+TQ+ A +GQQS+ G R+
Sbjct: 686 KIMQVLGEAKDKSGEIAESYFDMDENHAVIMALTGARGAMLNLTQITACVGQQSVHGGRI 745
Query: 780 YRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSG 839
RG+ R L HFK G+LGA+++GFV +SYK E+ MGGREGLVDTA+RTAQSG
Sbjct: 746 TRGYDNRTLPHFKKGELGAKSRGFVHSSYKEDSILLEF----MGGREGLVDTAIRTAQSG 801
Query: 840 YMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLI 899
YMQRRL+NALQDL VD +G V D GVI+Q R+GEDGVDP KS GK VD+D+++ +
Sbjct: 802 YMQRRLVNALQDLTVDENGRVVDNRGVIIQTRFGEDGVDPAKSDYGKIVDLDKLVQEIRL 861
Query: 900 K 900
K
Sbjct: 862 K 862
>sp|Q03585|RPA1_THEAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|280357|pir||S26723
DNA-directed RNA polymerase (EC 2.7.7.6) chain A' -
Thermoplasma acidophilum >gi|48092|emb|CAA48281.1|
(X68198) DNA-directed RNA polymerase [Thermoplasma
acidophilum] >gi|10639563|emb|CAC11535.1| (AL445064)
probable DNA-directed RNA polymerase, chain A
[Thermoplasma acidophilum]
Length = 885
Score = 1023 bits (2617), Expect = 0.0
Identities = 508/905 (56%), Positives = 662/905 (73%), Gaps = 37/905 (4%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M + K I SI+F +LSP EIRK+S V+V DTYDDDGYPIE G+MD MGVI+PGLRC
Sbjct: 1 MMGISKRISSIKFALLSPDEIRKLSQVKVITADTYDDDGYPIEHGLMDLHMGVIEPGLRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYM--- 117
TCG K ECPGHFGHIELA PV+HVGF K I L++TCR CGRIKLTD+EI Y+
Sbjct: 61 ATCGGKVDECPGHFGHIELAMPVVHVGFVKEIKMFLDATCRSCGRIKLTDDEIRTYLPEI 120
Query: 118 KKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEY 177
+K++ ++ + K+ A +RMVCPHCGA Q I +KPT + E+G
Sbjct: 121 QKMDFETGDPEDIEILTKKYVDLASQRMVCPHCGAQQSKIILDKPTTF-----REEGTNV 175
Query: 178 KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRA 237
K + P EIR+RLE+IPD DL G +P+ +RPEWMVLTVLPVPP+ RPSITLETG R+
Sbjct: 176 K--ITPKEIRERLERIPDDDLIFFGFNPKTARPEWMVLTVLPVPPINVRPSITLETGERS 233
Query: 238 EDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKS 297
EDDLTHKLVDIIRI+ RL+++ + G+PQLIIEDLWDLLQ+HVTTY +N+T G+PPA+H+S
Sbjct: 234 EDDLTHKLVDIIRISQRLRESRDNGSPQLIIEDLWDLLQFHVTTYFDNQTPGIPPARHRS 293
Query: 298 GRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPE 357
GR LKTL QRLKGKEGRFR NLSGKRV+FS+RTVISP+P +S+NEVGVP + A ELTVP
Sbjct: 294 GRALKTLVQRLKGKEGRFRSNLSGKRVSFSSRTVISPEPYLSVNEVGVPERAARELTVPV 353
Query: 358 KVTEFNIEKLRKMVLNGPDK-------YPGANYVIDPEGRRIRIMESNRENLARMIDIGW 410
V +FNI+++R+++ G + G NYVI P+GRRI+I + N A IDIGW
Sbjct: 354 IVNQFNIDEMRELIKRGRNPRDQFGRYVTGVNYVIRPDGRRIKITDQNAAENADRIDIGW 413
Query: 411 TVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLH 470
TVER L++GDIVLFNRQPSLHRMS+M H VR++P +TFR NLAVC PYNADFDGDEMNLH
Sbjct: 414 TVERQLMEGDIVLFNRQPSLHRMSMMGHTVRILPGQTFRFNLAVCTPYNADFDGDEMNLH 473
Query: 471 VPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQML 530
V Q EEA+AEARI+M+VQ I+SPR+GGPIIGGI DH++ +LLT +T EE+ ++
Sbjct: 474 VIQKEEARAEARIIMKVQEQIMSPRFGGPIIGGIHDHVTALFLLTHNNPRYTHEEMVHIM 533
Query: 531 MFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCD-EPERCEALEKLI 589
+ D+ LPE + ENG+ + G+ IFS +LP L V +R+KLC ERCE +
Sbjct: 534 AYLEPDL--LPEA-RIENGEKYYYGRDIFSTILPKGLNVRFRSKLCSGSSERCEFED--- 587
Query: 590 EEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQF 649
DP D +V I +GK++ G ID+ A G I+D I R++G + A +F
Sbjct: 588 ------DPS-------DTYVEIVDGKMIHGTIDEAAVSPFSGAIIDKIFRKFGSQEAARF 634
Query: 650 LDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPL 709
+D++T+L + IT++GF+TGI D D+PE A RI+E++ +AE+R+ KLIE ++RGEL+P
Sbjct: 635 IDRMTRLAVGFITYRGFSTGISDYDIPESAVARIEELVAQAEDRINKLIETFRRGELQPA 694
Query: 710 PGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALL 769
PG+++E+TLE +I++ RD +G IA YLG+ +VIMA++GAR +LNI+++A ++
Sbjct: 695 PGRSVEDTLEMEILSEAGVVRDESGKIASSYLGLKVPSVIMARSGARATMLNISEVAGIV 754
Query: 770 GQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLV 829
GQQS+RG RL RG+ R L HFK GD+GA A+GFV +SY +GLSP EYFFH++GGREGLV
Sbjct: 755 GQQSVRGGRLNRGYYNRTLPHFKRGDIGADARGFVRSSYMTGLSPTEYFFHSIGGREGLV 814
Query: 830 DTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVD 889
DTAVRT++SGYMQRRLINA +DLKVD V+D G ++Q RYGEDG+DP +S GK VD
Sbjct: 815 DTAVRTSRSGYMQRRLINAFEDLKVDDSREVKDTVGSLIQIRYGEDGIDPTRSARGKAVD 874
Query: 890 VDRVI 894
++ ++
Sbjct: 875 MNYIL 879
>gb|AAK40566.1| DNA-directed RNA polymerase, subunit A' (rpoA1) [Sulfolobus
solfataricus]
Length = 880
Score = 1006 bits (2573), Expect = 0.0
Identities = 509/897 (56%), Positives = 643/897 (70%), Gaps = 26/897 (2%)
Query: 5 KKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCG 64
+K I I+FGILSP EIRKMS + PD YD+DG PIEG VMD R+GVI+PG +C TCG
Sbjct: 3 EKNIKGIKFGILSPDEIRKMSVTAIITPDVYDEDGTPIEGSVMDPRLGVIEPGQKCPTCG 62
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
G CPGHFGHIEL RPVIHVG K I+ L++TCR CGR+K++++EIE+Y + K
Sbjct: 63 NTLGNCPGHFGHIELVRPVIHVGLVKHIYEFLKATCRRCGRVKISEDEIEKYSRIYNAIK 122
Query: 125 NR-RSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
R S ++ + + K A + VCPHC QY IK EKP ++E RK+ ++ P
Sbjct: 123 KRWPSAARRLTEYVKKTAMKAQVCPHCNEKQYKIKLEKPYNFYEERKEGVA-----KLTP 177
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
++IR+RLEKIPD D+ +LG P SRPEWM+LTVLPVPP+T RPSI +E+GIRAEDDLTH
Sbjct: 178 SDIRERLEKIPDSDVEILGYDPTTSRPEWMILTVLPVPPITIRPSIMIESGIRAEDDLTH 237
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDI+RIN RLK++I+AGAPQLIIEDLWDLLQYHV TY +NE G+PP+KH+SGRPL+T
Sbjct: 238 KLVDIVRINERLKESIDAGAPQLIIEDLWDLLQYHVATYFDNEIPGLPPSKHRSGRPLRT 297
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFRGNLSGKRV+FS+RTVISPDP ISI+EVGVP IA LTVPE++T +N
Sbjct: 298 LAQRLKGKEGRFRGNLSGKRVDFSSRTVISPDPNISIDEVGVPEIIAKTLTVPERITPWN 357
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRI-MESNRENLARMIDIGWTVERHLLDGDIV 422
IEKLR+ V+NGPDK+PGANYVI P+GRRI + +R+ LA + G+ +ERHL+DGDIV
Sbjct: 358 IEKLRQFVINGPDKWPGANYVIRPDGRRIDLRYVKDRKELASTLAPGYIIERHLIDGDIV 417
Query: 423 LFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAR 482
LFNRQPSLHR+S+MAHRVRV+ TFRLNL VCPPYNADFDGDEMNLHVPQ+EEA AEA+
Sbjct: 418 LFNRQPSLHRISMMAHRVRVLKGLTFRLNLLVCPPYNADFDGDEMNLHVPQSEEAIAEAK 477
Query: 483 ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPE 542
+M V +II+PRYGGPIIG QD+ISG YLLT + T+EE +Q+L A V I +L E
Sbjct: 478 EIMLVHKNIITPRYGGPIIGAAQDYISGAYLLTVKTTLLTKEEAQQILGVADVKI-DLGE 536
Query: 543 PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
P + ++GK + S LP D + + P C+
Sbjct: 537 P-AILAPREYYTGKQVISAFLPKDFNFHGQANVSSGPRLCKN----------------ED 579
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYG-REDGIILDLIVREYGVERARQFLDQVTKLTIWVI 661
+D +V I+NG LL G DKKA G ++ IL +++EY E + +D + ++ I +
Sbjct: 580 CPHDSYVVIKNGILLEGVFDKKAIGNQQPESILHWLIKEYSDEYGKWLMDNLFRVFIRFV 639
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
+GFT ++D L ++ + I I A+ V LI+ YK GELEP+PG+TLEE+LE+
Sbjct: 640 ELQGFTMRLEDVSLGDDVKKEIYNEIDRAKVEVDNLIQKYKNGELEPIPGRTLEESLENY 699
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
I+ L + R AG IA KYL N +MA+TGARG +LNITQMAA+LGQQS+RG+R+ R
Sbjct: 700 ILDTLDKLRSTAGDIASKYLDPFNFAYVMARTGARGSVLNITQMAAMLGQQSVRGERIKR 759
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+ R L HFKP D+ A+GF+ +S+++GL P E FFHA GGREGLVDTAVRT+QSGYM
Sbjct: 760 GYMTRTLPHFKPYDISPEARGFIYSSFRTGLKPTELFFHAAGGREGLVDTAVRTSQSGYM 819
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTL 898
QRRLINAL DL+ +YDGTVR G +VQ YG+DGV PM S GKTVDV+R+ R +
Sbjct: 820 QRRLINALSDLRAEYDGTVRSLYGEVVQVAYGDDGVFPMYSAHGKTVDVNRIFERVV 876
>sp|P11512|RPA1_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|81107|pir||S04717
DNA-directed RNA polymerase (EC 2.7.7.6) chain A -
Sulfolobus acidocaldarius >gi|46670|emb|CAA32925.1|
(X14818) RNA polymerase subunit A (AA 1-880) [Sulfolobus
acidocaldarius]
Length = 880
Score = 993 bits (2538), Expect = 0.0
Identities = 508/897 (56%), Positives = 644/897 (71%), Gaps = 26/897 (2%)
Query: 5 KKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCG 64
+K+I ++FG+LSP EIR+MS + + YD+DG PIEGGVMD ++GVI+PG +C CG
Sbjct: 3 EKIIRGVKFGVLSPNEIRQMSVTAIITSEVYDEDGTPIEGGVMDPKLGVIEPGEKCPVCG 62
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
CPGHFGHIEL +PVIH+G+ K I+ L STC CGRIK+ ++++E Y + K
Sbjct: 63 NTLAGCPGHFGHIELIKPVIHIGYVKHIYDFLRSTCWRCGRIKIKEQDLERYKRIYNAIK 122
Query: 125 NR-RSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
R S ++++ I K + + + CPHCG Q+ IK EKP + +E+ N ++ P
Sbjct: 123 LRWPSAARRLVEYIKKISIKNLECPHCGEKQFKIKLEKPYNF-----NEERNGSIVKLSP 177
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+EIRDRLE+IPD D+ LLG P+ SRPEWM+LTVLPVPP+T RPSIT+E+GIRAEDDLTH
Sbjct: 178 SEIRDRLERIPDSDVELLGYDPKSSRPEWMILTVLPVPPITIRPSITIESGIRAEDDLTH 237
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIR+N RLK++IEAGAPQLIIEDLWDLLQYHV TY +NE G+PPAKH+SGRPL+T
Sbjct: 238 KLVDIIRLNERLKESIEAGAPQLIIEDLWDLLQYHVATYFDNEIPGLPPAKHRSGRPLRT 297
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFRGNLSGKRV+FSARTVISPDP +SI+EVG+P IA LTVPE+VT N
Sbjct: 298 LAQRLKGKEGRFRGNLSGKRVDFSARTVISPDPNLSIDEVGIPYTIARMLTVPERVTNIN 357
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRI-MESNRENLARMIDIGWTVERHLLDGDIV 422
IE++R+ ++NGPDK+PGANYVI P+GRRI + +R+ LA I G+ VERHL+DGD+V
Sbjct: 358 IERIRQYIINGPDKWPGANYVIKPDGRRIDLRYVKDRKELASSITAGYVVERHLVDGDVV 417
Query: 423 LFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAR 482
LFNRQPSLHR+S+MAH+VRV+P RTFRLNL CPPYNADFDGDEMNLHVPQ+EEA AEAR
Sbjct: 418 LFNRQPSLHRISMMAHKVRVLPGRTFRLNLLDCPPYNADFDGDEMNLHVPQSEEAIAEAR 477
Query: 483 ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPE 542
LM V +II+PRYGGPIIGG QD+ISG YLL+ + T EEV +L + EL E
Sbjct: 478 ELMLVHKNIITPRYGGPIIGGGQDYISGAYLLSVKTTLLTVEEVATILGVTDF-VGELGE 536
Query: 543 PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
P KP ++GK + SL LP D + P C ++++ P
Sbjct: 537 P-AILAPKPYYTGKQVISLFLPKDFNFHGPANISKGPRAC-------KDEICP------- 581
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYG-REDGIILDLIVREYGVERARQFLDQVTKLTIWVI 661
+D F+ I+NG LL G DKKA G ++ +L +REYG E + +D V K+ I +
Sbjct: 582 --HDSFIVIKNGLLLEGVFDKKAIGNQQPESMLHWSIREYGTEYGKWLMDNVFKMFIRFL 639
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
+GFT ++D +P+EA++ I I+E +V + I + G+LEP+PG+T+EE+LES
Sbjct: 640 EMRGFTMTLEDITIPDEAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESY 699
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
I+ L + R AG IA KYL N+ IMA TGARG LNITQM ALLGQQS+RG+R+ R
Sbjct: 700 ILDTLDKLRKVAGEIATKYLDPFNNVYIMAITGARGSELNITQMTALLGQQSVRGERIRR 759
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+R R LS FK GD+ A+GFV NS+ GLSP E FFHA GGREGLVDTAV+T+QSGYM
Sbjct: 760 GYRERTLSLFKYGDIAPEARGFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTSQSGYM 819
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTL 898
QRRLINAL DL+++YDGTVR G IVQ YG+D V PM S K+V+V+RVI R +
Sbjct: 820 QRRLINALSDLRIEYDGTVRSLYGDIVQVVYGDDAVHPMYSAHSKSVNVNRVIERVI 876
>pir||B33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A [validated] -
Sulfolobus acidocaldarius
Length = 880
Score = 992 bits (2537), Expect = 0.0
Identities = 508/897 (56%), Positives = 644/897 (71%), Gaps = 26/897 (2%)
Query: 5 KKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCG 64
+K+I ++FG+LSP EIR+MS + + YD+DG PIEGGVMD ++GVI+PG +C CG
Sbjct: 3 EKIIRGVKFGVLSPNEIRQMSVTAIITSEVYDEDGTPIEGGVMDPKLGVIEPGEKCPVCG 62
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
CPGHFGHIEL +PVIH+G+ K I+ L STC CGRIK+ ++++E Y + K
Sbjct: 63 NTLAGCPGHFGHIELIKPVIHIGYVKHIYDFLRSTCWRCGRIKIKEQDLERYKRIYNAIK 122
Query: 125 NR-RSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
R S ++++ I K + + + CPHCG Q+ IK EKP + +E+ N ++ P
Sbjct: 123 LRWPSAARRLVEYIKKISIKNLECPHCGEKQFKIKLEKPYNF-----NEERNGSIVKLSP 177
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+EIRDRLE+IPD D+ LLG P+ SRPEWM+LTVLPVPP+T RPSIT+E+GIRAEDDLTH
Sbjct: 178 SEIRDRLERIPDSDVELLGYDPKSSRPEWMILTVLPVPPITIRPSITIESGIRAEDDLTH 237
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIR+N RLK++IEAGAPQLIIEDLWDLLQYHV TY +NE G+PPAKH+SGRPL+T
Sbjct: 238 KLVDIIRLNERLKESIEAGAPQLIIEDLWDLLQYHVATYFDNEIPGLPPAKHRSGRPLRT 297
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFRG+LSGKRV+FSARTVISPDP +SI+EVG+P IA LTVPE+VT N
Sbjct: 298 LAQRLKGKEGRFRGHLSGKRVDFSARTVISPDPNLSIDEVGIPYTIARMLTVPERVTNIN 357
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRI-MESNRENLARMIDIGWTVERHLLDGDIV 422
IE++R+ ++NGPDK+PGANYVI P+GRRI + +R+ LA I G+ VERHL+DGD+V
Sbjct: 358 IERIRQYIINGPDKWPGANYVIKPDGRRIDLRYVKDRKELASSITAGYVVERHLVDGDVV 417
Query: 423 LFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAR 482
LFNRQPSLHR+S+MAH+VRV+P RTFRLNL CPPYNADFDGDEMNLHVPQ+EEA AEAR
Sbjct: 418 LFNRQPSLHRISMMAHKVRVLPGRTFRLNLLDCPPYNADFDGDEMNLHVPQSEEAIAEAR 477
Query: 483 ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPE 542
LM V +II+PRYGGPIIGG QD+ISG YLL+ + T EEV +L + EL E
Sbjct: 478 ELMLVHKNIITPRYGGPIIGGGQDYISGAYLLSVKTTLLTVEEVATILGVTDF-VGELGE 536
Query: 543 PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
P KP ++GK + SL LP D + P C ++++ P
Sbjct: 537 P-AILAPKPYYTGKQVISLFLPKDFHFHGPANISKGPRAC-------KDEICP------- 581
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYG-REDGIILDLIVREYGVERARQFLDQVTKLTIWVI 661
+D F+ I+NG LL G DKKA G ++ L +REYG E + +D V K+ I +
Sbjct: 582 --HDSFIVIKNGLLLEGVFDKKAIGNQQPESNLHWSIREYGTEYGKWLMDNVFKMFIRFL 639
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
H+GFT ++D +P+EA++ I I+E +V + I + G+LEP+PG+T+EE+LES
Sbjct: 640 EHRGFTMTLEDITIPDEAQNEITTKIKEGYSQVDEYIRKFNEGQLEPIPGRTIEESLESY 699
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
I+ L + R AG IA KYL N+ IMA TGARG LNITQM ALLGQQS+RG+R+ R
Sbjct: 700 ILDTLDKLRKVAGEIATKYLDPFNNVYIMAITGARGSELNITQMTALLGQQSVRGERIRR 759
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+R R LS FK GD+ A+GFV NS+ GLSP E FFHA GGREGLVDTAV+T+QSGYM
Sbjct: 760 GYRERTLSLFKYGDIAPEARGFVKNSFMRGLSPYEMFFHAAGGREGLVDTAVKTSQSGYM 819
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTL 898
QRRLINAL DL+++YDGTVR G IVQ YG+D V PM S K+V+V+RVI R +
Sbjct: 820 QRRLINALSDLRIEYDGTVRSLYGDIVQVVYGDDAVHPMYSAHSKSVNVNRVIERVI 876
>pir||D72571 probable DNA-directed RNA polymerase subunit A' APE1853 - Aeropyrum
pernix (strain K1) >gi|5105544|dbj|BAA80857.1|
(AP000062) 895aa long hypothetical DNA-directed RNA
polymerase subunit A' [Aeropyrum pernix]
Length = 895
Score = 902 bits (2306), Expect = 0.0
Identities = 470/895 (52%), Positives = 619/895 (68%), Gaps = 30/895 (3%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
++ I FG+LSP EIR+++ V V D Y+ DG P+ GG+ D G I+PG RC CG
Sbjct: 17 LLDKILFGVLSPHEIRQLAKVTVVRGDLYEADGTPVSGGLRDPHFGAIEPGERCPVCGNS 76
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNR 126
ECPGHFG IELARPV+ + +++IL++TCR CGRI L +E+I+ Y + +
Sbjct: 77 REECPGHFGKIELARPVLIPHYTDYVYKILQATCRVCGRITLPEEKIKYYRLIFRRLRGK 136
Query: 127 RSEVNKILKE-IHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
++ K + K+A + CPHCG PQY + + +P ++E K +G+ ++ P+E
Sbjct: 137 WPQLAKTFATMVVKEAAQATQCPHCGKPQYKVVYIRPFHFYE--KKPEGDV---KLTPSE 191
Query: 186 IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKL 245
IR+RLEK ++ +LG+HPE+SRPEWMV TVL VPP+ RPSITLETG+R+EDDLTH L
Sbjct: 192 IRERLEKT-GSEIEILGVHPERSRPEWMVATVLIVPPLAVRPSITLETGLRSEDDLTHAL 250
Query: 246 VDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLA 305
+I+R N +L+ I AP+ +IE+ W +LQ V YI+NE G H+ R LKTLA
Sbjct: 251 AEIVRQNEKLRNVIVTNAPETLIEENWMVLQEMVAAYIDNELPGARRLTHRRKRYLKTLA 310
Query: 306 QRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIE 365
QRLKGK+GR RGNLSGKRVN+SARTVISPDP ISINEVGVP +IA LT+ +VT +N+E
Sbjct: 311 QRLKGKDGRIRGNLSGKRVNYSARTVISPDPYISINEVGVPEEIAKTLTIAMRVTPYNLE 370
Query: 366 KLRKMVLNGPDKYPGANYVIDPEGRR---IRIMESNRENLARMIDIGWTVERHLLDGDIV 422
+ R+ VLNGPDK+PGA +V R+ +R + + E LA ++ G VERHL++GDIV
Sbjct: 371 EARRYVLNGPDKWPGALFVYKASERKKYDLRFFK-DYEKLAESLEPGDVVERHLINGDIV 429
Query: 423 LFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAR 482
LFNRQPSLHRMSIM H VRVMP +TFRLNL VCPPYNADFDGDEMNLHVP+ EEAQAEAR
Sbjct: 430 LFNRQPSLHRMSIMGHIVRVMPGKTFRLNLLVCPPYNADFDGDEMNLHVPRLEEAQAEAR 489
Query: 483 ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPE 542
+M V+ HI++PRYGGPIIGG QD++SG YLLT + FT+EEVE++L AG +LPE
Sbjct: 490 EIMLVEKHILTPRYGGPIIGGRQDYVSGAYLLTVKTRLFTKEEVERLLSVAGYK-GDLPE 548
Query: 543 PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
P + +PLW+GK + S+ LP+DL+ ++K C +E+
Sbjct: 549 PAILKP-EPLWTGKQLASIFLPEDLSFKGKSKTNAGDLACS--------------DEL-- 591
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYGRED-GIILDLIVREYGVERARQFLDQVTKLTIWVI 661
+D ++ I NGKLL G +DKKA G E+ +L +I EYG +ARQ LD ++ I ++
Sbjct: 592 CLHDSYIVITNGKLLEGVLDKKAIGAEEPNNLLHIIALEYGNSKARQLLDSFYRMFIRML 651
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
+G T + D DLP+ A+ I+E+IRE + RV +IE Y++G LEP+PG++LEE+LE K
Sbjct: 652 ELRGLTISLHDIDLPDRAKQEIEELIREYKGRVYSIIEEYRKGTLEPIPGRSLEESLEIK 711
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
IM VL E R +A L N +MA+TGARG +NI+QMAA+LGQQ++RG+R+ R
Sbjct: 712 IMEVLDELRKRVQEVASNNLDPFNDVFVMARTGARGSDVNISQMAAMLGQQAVRGRRIRR 771
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G R RVL+HFK D+ A GFV +S++ GL P E FFHA GREGLVDTAV+T+QSGYM
Sbjct: 772 GLRNRVLAHFKENDIEPEAWGFVRSSFRKGLRPTEVFFHAAAGREGLVDTAVKTSQSGYM 831
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMR 896
QRRLINALQD+ V YDGTVRD G ++Q +YGEDGVDPMK++ GK VDV R+I R
Sbjct: 832 QRRLINALQDIVVTYDGTVRDLYGNLIQLKYGEDGVDPMKTYHGKPVDVKRIIQR 886
>gb|AAG20692.1| (AE005138) DNA-directed RNA polymerase subunit A; RpoA
[Halobacterium sp. NRC-1]
Length = 926
Score = 827 bits (2114), Expect = 0.0
Identities = 414/717 (57%), Positives = 520/717 (71%), Gaps = 33/717 (4%)
Query: 176 EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGI 235
E +++MP++IRD E IP +DL LG++ ++SRPEWM+LTVLPVPPVTARPSITL+ G
Sbjct: 197 EDMNKLMPSDIRDWFEDIPGEDLEALGVNSDRSRPEWMILTVLPVPPVTARPSITLDNGQ 256
Query: 236 RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKH 295
R+EDDLTHKLVDIIRIN R +N EAGAPQLIIEDLW+LLQYHVTT+++NE SG PPA+H
Sbjct: 257 RSEDDLTHKLVDIIRINQRFMENREAGAPQLIIEDLWELLQYHVTTFMDNEISGTPPARH 316
Query: 296 KSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTV 355
+SGRPLKTL+QRLKGKEGRFRG+LSGKRVNFSARTVISPDP +S+NEVGVP ++A E+T
Sbjct: 317 RSGRPLKTLSQRLKGKEGRFRGSLSGKRVNFSARTVISPDPTLSLNEVGVPDRVATEMTQ 376
Query: 356 PEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERH 415
V E N+E+ R+ V NGP+ +PGANYV P+GRR+R+ E E LA ++ GW V+RH
Sbjct: 377 TMVVNEQNLERARRYVRNGPEGHPGANYVTRPDGRRVRVTEKVCEELAERVEPGWEVQRH 436
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L+DGDI++FNRQPSLHRMSIMAH V VMPY+TFRLN VCPPYNADFDGDEMN+H Q E
Sbjct: 437 LIDGDIIIFNRQPSLHRMSIMAHEVVVMPYKTFRLNTVVCPPYNADFDGDEMNMHALQNE 496
Query: 476 EAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGV 535
EA+AEAR+LM VQ I+SPR+G IIG IQDHISG YLLT + F + +L +
Sbjct: 497 EARAEARVLMRVQEQILSPRFGENIIGAIQDHISGTYLLTNDNPRFNETQASDLLRQTRI 556
Query: 536 DIKELP-EPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLM 594
D ELP E+G W+G IFS LLPDDL++ + D
Sbjct: 557 D--ELPAAAGTDEDGDQYWTGHQIFSELLPDDLSLEFTGTTGDT---------------- 598
Query: 595 PDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVT 654
V I++G+LL G I G I+D I + +G RAR F+++V
Sbjct: 599 --------------VVIEDGQLLEGTIADDEVGEYGSEIVDTITKVHGNTRARIFINEVA 644
Query: 655 KLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTL 714
L + I H GF+ GIDDE + EAR+RI E I+ A +RVQ+LIE Y+ G+LE LPG+T+
Sbjct: 645 SLAMRSIMHFGFSIGIDDETVSTEARERIDEAIQSAYDRVQELIETYENGDLESLPGRTV 704
Query: 715 EETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+ETLE KIM L +ARD+AG +AE+ DN V+MA +GARG +LN+TQMA +GQQ++
Sbjct: 705 DETLEMKIMQTLGKARDSAGDVAEENFDEDNPAVVMANSGARGSMLNLTQMAGCVGQQAV 764
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
RG+R+ RG+ R LSHF P DL + A GFV NSY SGL+P+E+FFHAMGGREGLVDTAVR
Sbjct: 765 RGERINRGYEDRTLSHFAPNDLSSEAHGFVENSYTSGLTPKEFFFHAMGGREGLVDTAVR 824
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVD 891
T++SGY+QRRLINAL +L+ YDGTVRD + IVQF +GEDG P++ + VD+D
Sbjct: 825 TSKSGYLQRRLINALSELETQYDGTVRDTSDTIVQFEFGEDGTSPVQVSSNEEVDID 881
Score = 159 bits (397), Expect = 2e-37
Identities = 74/163 (45%), Positives = 109/163 (66%), Gaps = 8/163 (4%)
Query: 45 GVMDKRMGVIDPGLRCETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECG 104
G+MD R+GVIDPGL C+TCG ++G C GHFGHIELA PVIHVGF+K I R+L TCREC
Sbjct: 2 GLMDPRLGVIDPGLECKTCGQRSGGCNGHFGHIELAAPVIHVGFSKLIRRLLRGTCRECA 61
Query: 105 RIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI 164
+ LT+EE +EY + L+ ++ R +V+ ++ ++AR++ CPHCG QY +K EKPT
Sbjct: 62 SLLLTEEEKDEYRENLDRTRSLRQDVSDVMTAAIREARKKDHCPHCGEVQYDVKHEKPTT 121
Query: 165 YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEK 207
Y+E+++ ++Y R+ + PD+D G+ P++
Sbjct: 122 YYEVQQ-VLASDYSERIAAS-------MQPDEDEDDAGVSPQE 156
>sp|P15350|RPA1_HALHA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|43542|emb|CAA40426.1|
(X57144) RNA polymerase subunit A [Halobacterium
halobium]
Length = 971
Score = 827 bits (2113), Expect = 0.0
Identities = 414/717 (57%), Positives = 520/717 (71%), Gaps = 33/717 (4%)
Query: 176 EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGI 235
E +++MP++IRD E IP +DL LG++ ++SRPEWM+LTVLPVPPVTARPSITL+ G
Sbjct: 242 EDMNKLMPSDIRDWFEDIPGEDLEALGVNSDRSRPEWMILTVLPVPPVTARPSITLDNGQ 301
Query: 236 RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKH 295
R+EDDLTHKLVDIIRIN R +N EAGAPQLIIEDLW+LLQYHVTT+++NE SG PPA+H
Sbjct: 302 RSEDDLTHKLVDIIRINQRFMENREAGAPQLIIEDLWELLQYHVTTFMDNEISGTPPARH 361
Query: 296 KSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTV 355
+SGRPLKTL+QRLKGKEGRFRG+LSGKRVNFSARTVISPDP +S+NEVGVP ++A E+T
Sbjct: 362 RSGRPLKTLSQRLKGKEGRFRGSLSGKRVNFSARTVISPDPTLSLNEVGVPDRVATEMTQ 421
Query: 356 PEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERH 415
V E N+E+ R+ V NGP+ +PGANYV P+GRR+R+ E E LA ++ GW V+RH
Sbjct: 422 TMVVNEQNLERARRYVRNGPEGHPGANYVTRPDGRRVRVTEKVCEELAERVEPGWEVQRH 481
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L+DGDI++FNRQPSLHRMSIMAH V VMPY+TFRLN VCPPYNADFDGDEMN+H Q E
Sbjct: 482 LIDGDIIIFNRQPSLHRMSIMAHEVVVMPYKTFRLNTVVCPPYNADFDGDEMNMHALQNE 541
Query: 476 EAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGV 535
EA+AEAR+LM VQ I+SPR+G IIG IQDHISG YLLT + F + +L +
Sbjct: 542 EARAEARVLMRVQEQILSPRFGENIIGAIQDHISGTYLLTNDNPRFNETQASDLLRQTRI 601
Query: 536 DIKELP-EPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLM 594
D ELP E+G W+G IFS LLPDDL++ + D
Sbjct: 602 D--ELPAAAGTDEDGDQYWTGHQIFSELLPDDLSLEFTGTTGDT---------------- 643
Query: 595 PDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVT 654
V I++G+LL G I G I+D I + +G RAR F+++V
Sbjct: 644 --------------VVIEDGQLLEGTIADDEVGEYGSEIVDTITKVHGNTRARIFINEVA 689
Query: 655 KLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTL 714
L + I H GF+ GIDDE + EAR+RI E I+ A +RVQ+LIE Y+ G+LE LPG+T+
Sbjct: 690 SLAMRSIMHFGFSIGIDDETVSTEARERIDEAIQSAIDRVQELIETYENGDLESLPGRTV 749
Query: 715 EETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+ETLE KIM L +ARD+AG +AE+ DN V+MA +GARG +LN+TQMA +GQQ++
Sbjct: 750 DETLEMKIMQTLGKARDSAGDVAEENFDEDNPAVVMANSGARGSMLNLTQMAGCVGQQAV 809
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
RG+R+ RG+ R LSHF P DL + A GFV NSY SGL+P+E+FFHAMGGREGLVDTAVR
Sbjct: 810 RGERINRGYEDRTLSHFAPNDLSSEAHGFVENSYTSGLTPKEFFFHAMGGREGLVDTAVR 869
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVD 891
T++SGY+QRRLINAL +L+ YDGTVRD + IVQF +GEDG P++ + VD+D
Sbjct: 870 TSKSGYLQRRLINALSELETQYDGTVRDTSDTIVQFEFGEDGTSPVQVSSNEEVDID 926
Score = 206 bits (518), Expect = 1e-51
Identities = 96/202 (47%), Positives = 137/202 (67%), Gaps = 8/202 (3%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K IG I FG++ P+E R MSA +V DTYDDDG+PI+ G+MD R+GVIDPGL C+TCG
Sbjct: 8 KEIGEISFGLMDPEEYRDMSATKVITADTYDDDGFPIDMGLMDPRLGVIDPGLECKTCGQ 67
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
++G C GHFGHIELA PVIHVGF+K I R+L TCREC + LT+EE +EY + L+ ++
Sbjct: 68 RSGGCNGHFGHIELAAPVIHVGFSKLIRRLLRGTCRECASLLLTEEEKDEYRENLDRTRS 127
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
R +V+ ++ ++AR++ CPHCG QY +K EKPT Y+E+++ ++Y R+ +
Sbjct: 128 LRQDVSDVMTAAIREARKKDHCPHCGEVQYDVKHEKPTTYYEVQQ-VLASDYSERIAAS- 185
Query: 186 IRDRLEKIPDKDLPLLGLHPEK 207
PD+D G+ P++
Sbjct: 186 ------MQPDEDEDDAGVSPQE 201
>pir||A33926 DNA-directed RNA polymerase (EC 2.7.7.6) chain A - Halobacterium
salinarum
Length = 972
Score = 823 bits (2104), Expect = 0.0
Identities = 412/714 (57%), Positives = 518/714 (71%), Gaps = 33/714 (4%)
Query: 179 HRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAE 238
+++MP++IRD E IP +DL LG++ ++SRPEWM+LTVLPVPPVTARPSITL+ G R+E
Sbjct: 246 NKLMPSDIRDWFEDIPGEDLEALGVNSDRSRPEWMILTVLPVPPVTARPSITLDNGQRSE 305
Query: 239 DDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSG 298
DDLTHKLVDIIRIN R +N EAGAPQLIIEDLW+LLQYHVTT+++NE SG PPA+H+SG
Sbjct: 306 DDLTHKLVDIIRINQRFMENREAGAPQLIIEDLWELLQYHVTTFMDNEISGTPPARHRSG 365
Query: 299 RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEK 358
RPLKTL+QRLKGKEGRFRG+LSGKRVNFSARTVISPDP +S+NEVGVP ++A E+T
Sbjct: 366 RPLKTLSQRLKGKEGRFRGSLSGKRVNFSARTVISPDPTLSLNEVGVPDRVATEMTQTMV 425
Query: 359 VTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLD 418
V E N+E+ R+ V NGP+ +PGANYV P+GRR+R+ E E LA ++ GW V+RHL+D
Sbjct: 426 VNEQNLERARRYVRNGPEGHPGANYVTRPDGRRVRVTEKVCEELAERVEPGWEVQRHLID 485
Query: 419 GDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQ 478
GDI++FNRQPSLHRMSIMAH V VMPY+TFRLN VCPPYNAD DGDEMN+H Q EEA+
Sbjct: 486 GDIIIFNRQPSLHRMSIMAHEVVVMPYKTFRLNTVVCPPYNADEDGDEMNMHALQNEEAR 545
Query: 479 AEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIK 538
AEAR+LM VQ I+SPR+G IIG IQDHISG YLLT + F + +L +D
Sbjct: 546 AEARVLMRVQEQILSPRFGENIIGAIQDHISGTYLLTNDNPRFNETQASDLLRQTRID-- 603
Query: 539 ELP-EPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDP 597
ELP E+G W+G IFS LLPDDL++ + D
Sbjct: 604 ELPAAAGTDEDGDQYWTGHQIFSELLPDDLSLEFTGTTGDT------------------- 644
Query: 598 EEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLT 657
V I++G+LL G I G I+D I + +G RAR F+++V L
Sbjct: 645 -----------VVIEDGQLLEGTIADDEVGEYGSEIVDTITKVHGNTRARIFINEVASLA 693
Query: 658 IWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEET 717
+ I H GF+ GIDDE + EAR+RI E I+ A +RVQ+LIE Y+ G+LE LPG+T++ET
Sbjct: 694 MRSINHFGFSIGIDDETVSTEARERIDEAIQSAIDRVQELIETYENGDLESLPGRTVDET 753
Query: 718 LESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGK 777
LE KIM L +ARD+AG +AE+ DN V+MA +GARG +LN+TQMA +GQQ++RG+
Sbjct: 754 LEMKIMQTLGKARDSAGDVAEENFDEDNPAVVMANSGARGSMLNLTQMAGCVGQQAVRGE 813
Query: 778 RLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQ 837
R+ RG+ R LSHF P DL + A GFV NSY SGL+P+E+FFHAMGGREGLVDTAVRT++
Sbjct: 814 RINRGYEDRTLSHFAPNDLSSEAHGFVENSYTSGLTPKEFFFHAMGGREGLVDTAVRTSK 873
Query: 838 SGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVD 891
SGY+QRRLINAL +L+ YDGTVRD + IVQF +GEDG P++ + VD+D
Sbjct: 874 SGYLQRRLINALSELETQYDGTVRDTSDTIVQFEFGEDGTSPVQVSSNEEVDID 927
Score = 207 bits (522), Expect = 4e-52
Identities = 97/196 (49%), Positives = 133/196 (67%), Gaps = 5/196 (2%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K IG I FG++ P+E R MSA +V DTYDDDG+PI+ G+MD R+GVIDPGL C+TCG
Sbjct: 8 KEIGEISFGLMDPEEYRDMSATKVITADTYDDDGFPIDMGLMDPRLGVIDPGLECKTCGQ 67
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
++G C GHFGHIELA PVIHVGF+K I R+L TCREC + LT+EE +EY + L+ ++
Sbjct: 68 RSGGCNGHFGHIELAAPVIHVGFSKLIRRLLRGTCRECASLLLTEEEKDEYRENLDRTRS 127
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHR----M 181
R +V+ ++ ++AR++ CPHCG QY +K EKPT Y+E+++ ++Y R M
Sbjct: 128 LRQDVSDVMTAAIREARKKDHCPHCGEVQYDVKHEKPTTYYEVQQ-VLASDYSERIAASM 186
Query: 182 MPTEIRDRLEKIPDKD 197
P E D P +D
Sbjct: 187 QPDEDEDDAGVSPQED 202
>pir||A69138 DNA-dependent RNA polymerase, subunit A' - Methanobacterium
thermoautotrophicum (strain Delta H)
>gi|2621352|gb|AAB84805.1| (AE000815) DNA-dependent RNA
polymerase, subunit A' [Methanobacterium
thermoautotrophicum]
Length = 664
Score = 768 bits (1961), Expect = 0.0
Identities = 396/679 (58%), Positives = 489/679 (71%), Gaps = 34/679 (5%)
Query: 226 RPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINN 285
RPSITL+ G R+EDDLTHKLVDI+RIN RLK+N+EAGAPQLI+EDLW+LLQYHVTTY +N
Sbjct: 2 RPSITLKNGERSEDDLTHKLVDILRINQRLKENMEAGAPQLIVEDLWELLQYHVTTYFDN 61
Query: 286 ETSGVPPAKHKSGRPLKTLAQRLKGKEG---------RFRGNLSGKRVNFSARTVISPDP 336
E SGV PA+ +SGR L TL QRLK K+G RFRGNLSGKRVNFSARTVISPDP
Sbjct: 62 EASGVTPARQRSGRQLLTLMQRLKSKKGMFSSELSKGRFRGNLSGKRVNFSARTVISPDP 121
Query: 337 MISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIME 396
ISINEVGVP IA E+TVP VTE+NI+++R+ + NGPD +PGANYVI P+GRRIRI
Sbjct: 122 NISINEVGVPEIIAREVTVPVYVTEWNIDRMREYIENGPDVHPGANYVIRPDGRRIRISS 181
Query: 397 SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCP 456
N E + + G+ VERHL DGDIVLFNRQPSLHRMS+MAHR RV+PY+TFRLNL VCP
Sbjct: 182 KNTETVIENLKPGYVVERHLKDGDIVLFNRQPSLHRMSLMAHRARVLPYKTFRLNLCVCP 241
Query: 457 PYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTR 516
PYNADFDGDEMN+HV QTEE++AEA+ LM VQ H+ISPR+GGPIIG I D ISG YLLTR
Sbjct: 242 PYNADFDGDEMNIHVLQTEESRAEAKTLMLVQEHMISPRFGGPIIGSINDQISGLYLLTR 301
Query: 517 EGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLC 576
+ A F EEV Q+L AG+ + WSGK IFSL+LPDDL++ YR +C
Sbjct: 302 KFAEFEEEEVFQLLRSAGISLP--------SRRGTKWSGKEIFSLILPDDLSMTYRADVC 353
Query: 577 DEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDL 636
+ C IE+ YD +V I+NG+L SG IDKK G G +L
Sbjct: 354 RRCQEC------IED----------GCEYDAYVVIENGRLESGVIDKKTCGAFSGRLLGH 397
Query: 637 IVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQK 696
I+REYG + AR+FL+ ++L I V+ GFTT I D D+PEEAR I ++ +RV+
Sbjct: 398 IIREYGTDEAREFLESASRLAIAVLMRTGFTTSIMDFDVPEEARQMIDSVLGMVMDRVEG 457
Query: 697 LIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD-NHTVIMAKTGA 755
L E + G +EP+ + E+ E IM VLA AR+ G IA KYLG+D N ++ +TG
Sbjct: 458 LTEDKEDGRVEPVQVMSSEKNFEITIMKVLAGARERGGEIARKYLGVDGNQGYMITRTGL 517
Query: 756 RGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQ 815
+ +LN TQ+ A LGQQS+RG+R+ RG+ R L HF+ G+LGA+++GFV +SY+ GL P
Sbjct: 518 KCSLLNFTQITACLGQQSVRGERISRGYDNRTLPHFRKGELGAKSRGFVQSSYREGLDPI 577
Query: 816 EYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGED 875
E+FFHAMGGR+ LVDTAVRTAQSGYMQRRLINALQDL VD DG VRD G ++Q YGED
Sbjct: 578 EFFFHAMGGRDALVDTAVRTAQSGYMQRRLINALQDLTVDEDGRVRDSCGNVIQILYGED 637
Query: 876 GVDPMKSWGGKTVDVDRVI 894
GV P + G+ VD+++++
Sbjct: 638 GVSPWRGKNGEIVDLEQLV 656
>sp|P36594|RPB1_SCHPO DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RNA POLYMERASE II
SUBUNIT 1) >gi|283079|pir||S26849 DNA-directed RNA
polymerase (EC 2.7.7.6) II largest chain - fission yeast
(Schizosaccharomyces pombe) >gi|5055|emb|CAA39916.1|
(X56564) RNA polymerase II large subunit
[Schizosaccharomyces pombe] >gi|6018696|emb|CAB57941.1|
(AL121795) DNA-directed RNA polymerase II largest
subunit [Schizosaccharomyces pombe]
Length = 1752
Score = 726 bits (1855), Expect = 0.0
Identities = 379/896 (42%), Positives = 543/896 (60%), Gaps = 56/896 (6%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRMGVIDPGLRCETCGAK 66
+ ++FGILSP+EIR MS ++ P+T D+ G P GG++D R+G ID +C+TCG
Sbjct: 16 VEEVQFGILSPEEIRSMSVAKIEFPETMDESGQRPRVGGLLDPRLGTIDRQFKCQTCGET 75
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNR 126
+CPGHFGHIELA+PV H+GF I +ILE C CG++K I+ K +
Sbjct: 76 MADCPGHFGHIELAKPVFHIGFLSKIKKILECVCWNCGKLK-----IDSSNPKFNDTQRY 130
Query: 127 RSEVNKILKEIHKKARERMVCPH----------------------CGAPQYPIKFEKPTI 164
R N+ L + + +MVC CGA Q I+ + +
Sbjct: 131 RDPKNR-LNAVWNVCKTKMVCDTGLSAGSDNFDLSNPSANMGHGGCGAAQPTIRKDGLRL 189
Query: 165 Y--WELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
+ W+ KDE K + P E+ I +DL LGL+ + +RP+WM++TVLPVPP
Sbjct: 190 WGSWKRGKDESDLPEKRLLSPLEVHTIFTHISSEDLAHLGLNEQYARPDWMIITVLPVPP 249
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
+ RPSI+++ R EDDLTHKL DII+ N +++ + GAP I+ + LLQ+HV TY
Sbjct: 250 PSVRPSISVDGTSRGEDDLTHKLSDIIKANANVRRCEQEGAPAHIVSEYEQLLQFHVATY 309
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
++NE +G P A KSGRPLK++ RLKGKEGR RGNL GKRV+FSARTVI+ DP +S++E
Sbjct: 310 MDNEIAGQPQALQKSGRPLKSIRARLKGKEGRLRGNLMGKRVDFSARTVITGDPNLSLDE 369
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENL 402
+GVP IA LT PE VT +NI +L+++V NGPD++PGA Y+I G RI + R
Sbjct: 370 LGVPRSIAKTLTYPETVTPYNIYQLQELVRNGPDEHPGAKYIIRDTGERIDLRYHKRAGD 429
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
+ GW VERH+ DGD+V+FNRQPSLH+MS+M HR+RVMPY TFRLNL+V PYNADF
Sbjct: 430 IPL-RYGWRVERHIRDGDVVIFNRQPSLHKMSMMGHRIRVMPYSTFRLNLSVTSPYNADF 488
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFT 522
DGDEMN+HVPQ+EE +AE + + V I+SP+ P++G +QD ++G + + T
Sbjct: 489 DGDEMNMHVPQSEETRAEIQEITMVPKQIVSPQSNKPVMGIVQDTLAGVRKFSLRDNFLT 548
Query: 523 REEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERC 582
R V ++++ D + P K LW+GK I SL++P + +
Sbjct: 549 RNAVMNIMLWVP-DWDGILPPPVILKPKVLWTGKQILSLIIPKGINL------------- 594
Query: 583 EALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYG 642
+ D ++ D + I+NG+++ G +DKK G G ++ I +E G
Sbjct: 595 ----------IRDDDKQSLSNPTDSGMLIENGEIIYGVVDKKTVGASQGGLVHTIWKEKG 644
Query: 643 VERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
E + F + + ++ + + H GF+ GI D + + ++EA +V + I+ +
Sbjct: 645 PEICKGFFNGIQRVVNYWLLHNGFSIGIGDTIADADTMKEVTRTVKEARRQVAECIQDAQ 704
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
L+P PG TL E+ E+K+ +L +ARDNAG AE L N+ M G++G +NI
Sbjct: 705 HNRLKPEPGMTLRESFEAKVSRILNQARDNAGRSAEHSLKDSNNVKQMVAAGSKGSFINI 764
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+QM+A +GQQ + GKR+ GF+ R L HF D ++GF+ NSY GL+PQE+FFHAM
Sbjct: 765 SQMSACVGQQIVEGKRIPFGFKYRTLPHFPKDDDSPESRGFIENSYLRGLTPQEFFFHAM 824
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
GREGL+DTAV+TA++GY+QRRL+ A++D+ V YDGTVR+ G I+QF YGEDG+D
Sbjct: 825 AGREGLIDTAVKTAETGYIQRRLVKAMEDVMVRYDGTVRNAMGDIIQFAYGEDGLD 880
>emb|CAA21466.2| (AL031986) DNA-directed RNA polymerase (EC 2.7.7.6) II largest
chain [Arabidopsis thaliana] >gi|7270532|emb|CAB81489.1|
(AL161588) DNA-directed RNA polymerase (EC 2.7.7.6) II
largest chain [Arabidopsis thaliana]
Length = 1840
Score = 715 bits (1826), Expect = 0.0
Identities = 383/899 (42%), Positives = 546/899 (60%), Gaps = 53/899 (5%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
++FGILSP EIR+MS + V +T + G P GG+ D R+G ID ++CETC A EC
Sbjct: 18 VQFGILSPDEIRQMSVIHVEHSET-TEKGKPKVGGLSDTRLGTIDRKVKCETCMANMAEC 76
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEV 130
PGHFG++ELA+P+ HVGF KT+ I+ C C +I L DE ++ KN ++ +
Sbjct: 77 PGHFGYLELAKPMYHVGFMKTVLSIMRCVCFNCSKI-LADEVCRSLFRQAMKIKNPKNRL 135
Query: 131 NKILKEIHKKAR------------------ERMVCPHCGAPQYPIKFEKPTIYWELRKDE 172
KIL K + + CGA Q + E + E +
Sbjct: 136 KKILDACKNKTKCDGGDDIDDVQSHSTDEPVKKSRGGCGAQQPKLTIEGMKMIAEYKIQR 195
Query: 173 QGN----------EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
+ N E K + + L++I D D LLG +P+ +RP+WM+L VLP+PP
Sbjct: 196 KKNDEPDQLPEPAERKQTLGADRVLSVLKRISDADCQLLGFNPKFARPDWMILEVLPIPP 255
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RPS+ ++ R+EDDLTH+L IIR N LK+ + GAP II + LLQ+H+ TY
Sbjct: 256 PPVRPSVMMDATSRSEDDLTHQLAMIIRHNENLKRQEKNGAPAHIISEFTQLLQFHIATY 315
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
+NE G P A KSGRP+K++ RLK KEGR RGNL GKRV+FSARTVI+PDP I+I+E
Sbjct: 316 FDNELPGQPRATQKSGRPIKSICSRLKAKEGRIRGNLMGKRVDFSARTVITPDPTINIDE 375
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYP---GANYVIDPEGRRIRIMESNR 399
+GVP IA+ LT PE VT +NIE+L+++V GP P GA Y+I +G+R+ + +
Sbjct: 376 LGVPWSIALNLTYPETVTPYNIERLKELVDYGPHPPPGKTGAKYIIRDDGQRLDLRYLKK 435
Query: 400 ENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYN 459
+ + +++G+ VERHL DGD VLFNRQPSLH+MSIM HR+R+MPY TFRLNL+V PYN
Sbjct: 436 SS-DQHLELGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYN 494
Query: 460 ADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGA 519
ADFDGDEMN+HVPQ+ E +AE LM V I+SP+ P++G +QD + G +T+
Sbjct: 495 ADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLLGCRKITKRDT 554
Query: 520 YFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEP 579
+ ++ LM+ ++P P +PLW+GK +F+L++P + + + +
Sbjct: 555 FIEKDVFMNTLMWWEDFDGKVPAP-AILKPRPLWTGKQVFNLIIPKQINLLRYSAWHADT 613
Query: 580 ERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
E + P +VR I+ G+LL+G + KK G +G ++ +I
Sbjct: 614 E---------TGFITPGDTQVR---------IERGELLAGTLCKKTLGTSNGSLVHVIWE 655
Query: 640 EYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIE 699
E G + AR+FL L + + GFT GI D ++I E I A+ V+ LI
Sbjct: 656 EVGPDAARKFLGHTQWLVNYWLLQNGFTIGIGDTIADSSTMEKINETISNAKTAVKDLIR 715
Query: 700 AYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKI 759
++ EL+P PG+T+ +T E+++ VL +ARD+AGS A+K L N+ M G++G
Sbjct: 716 QFQGKELDPEPGRTMRDTFENRVNQVLNKARDDAGSSAQKSLAETNNLKAMVTAGSKGSF 775
Query: 760 LNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFF 819
+NI+QM A +GQQ++ GKR+ GF GR L HF D G ++GFV NSY GL+PQE+FF
Sbjct: 776 INISQMTACVGQQNVEGKRIPFGFDGRTLPHFTKDDYGPESRGFVENSYLRGLTPQEFFF 835
Query: 820 HAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
HAMGGREGL+DTAV+T+++GY+QRRL+ A++D+ V YDGTVR+ G ++QF YGEDG+D
Sbjct: 836 HAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYDGTVRNSLGDVIQFLYGEDGMD 894
>dbj|BAB12227.1| (AB017184) RNA polymerase II largest subunit [Aspergillus oryzae]
Length = 1748
Score = 714 bits (1823), Expect = 0.0
Identities = 387/902 (42%), Positives = 546/902 (59%), Gaps = 50/902 (5%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRMGVIDPGLRCETCG 64
+ I I+FG+ SP+EI++MS V V P+T D+ P G+ D R+G ID CETC
Sbjct: 14 RTIKEIQFGLFSPEEIKRMSVVHVEYPETMDEQRQRPRTKGLNDPRLGTIDRQWNCETCE 73
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA- 123
ECPGHFGHIELA PV H+GF I ++LE+ C CG+IK + ++++ L +
Sbjct: 74 EGQKECPGHFGHIELATPVFHIGFLTKIKKLLETVCHNCGKIKANTSD-SKFLEALRMRD 132
Query: 124 -KNRRSEVNKILKEI--------------HKKARERMVCPH--CGAPQYPIKFEKPTIY- 165
K R + ++ K+I + K + H CG Q I+ E T+
Sbjct: 133 PKRRFDHIWRLSKDITICEADPPPDEDEPYAKESSKPTRMHGGCGNAQPTIRKEGITLVG 192
Query: 166 -WELRK---DEQGNEY--KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLP 219
W+ K DE + K + P + I +D+ ++GL + +RPEWMVLTVLP
Sbjct: 193 TWKPSKSMMDEMDMQQPEKKTITPQMALNIFRNISHEDVRIMGLSNDYARPEWMVLTVLP 252
Query: 220 VPPVTARPSITL---ETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQ 276
VPP RPS+ + +G R EDDLT+KL +I+R N +++ + GAP+ ++ + LLQ
Sbjct: 253 VPPPPVRPSVLVGGSTSGQRGEDDLTYKLAEIVRANQNVQRCEQEGAPEHVVREFESLLQ 312
Query: 277 YHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDP 336
YHV TY++N+ +G P A KS RP+K + RLKGKEGR R NL GKRV+FSARTVI+ DP
Sbjct: 313 YHVATYMDNDIAGQPKAMQKSNRPVKAIRSRLKGKEGRLRQNLMGKRVDFSARTVITGDP 372
Query: 337 MISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIME 396
+S++EVGVP IA LT PE VT +NI+KL+++V NGP+++PGA Y++ G RI +
Sbjct: 373 NLSLDEVGVPKSIARTLTYPEVVTPYNIDKLQQLVSNGPNEHPGARYIVRDNGERIDLRH 432
Query: 397 SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCP 456
+ R +++ GW VERH++DGD++LFNRQPSLH+ S+M HRVRVMPY TFRLNL+V
Sbjct: 433 AKRAGGQQLL-YGWKVERHVMDGDVILFNRQPSLHKESMMGHRVRVMPYSTFRLNLSVTT 491
Query: 457 PYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTR 516
PYNADFDGDEMNLHVPQ+EE++AE L V +I+SP+ GP++G +QD + G Y + R
Sbjct: 492 PYNADFDGDEMNLHVPQSEESRAELLQLALVPMNIVSPQRNGPLMGIVQDTLCGIYKICR 551
Query: 517 EGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLC 576
+ T+E+V ++M+ D + P +P W+GK I S+ LP L +
Sbjct: 552 RDTFLTKEQVMNLMMWVP-DWDGVIPPPAILKPRPRWTGKQIISMALPSGLNLL------ 604
Query: 577 DEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDL 636
R + + EK P DG + I G+L+ G KK G G ++
Sbjct: 605 ----RVDKDNSALSEKFAP--------LNDGGLLIHGGQLMYGMFSKKTVGASGGGVIHT 652
Query: 637 IVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQK 696
I EYG A F + + + + H GF+ GI D RI+ +RE ++ V+
Sbjct: 653 IFNEYGPGTAVAFFNGAQAIVNYWLLHNGFSIGIGDTIPDAVTIQRIENCVRERKKEVET 712
Query: 697 LIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGAR 756
+ + LEPLPG + ET ESK+ L ARD AGS EK L N+ + MA++G++
Sbjct: 713 ITASATDNTLEPLPGMNVRETFESKVSRALNNARDEAGSETEKSLKDLNNAIQMARSGSK 772
Query: 757 GKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQE 816
G +NI+QM A++GQQS+ GKR+ GF+ R L HF D ++GFV NSY GL+P E
Sbjct: 773 GSTINISQMTAVVGQQSVEGKRIPFGFKYRTLPHFTKDDYSPESRGFVENSYLRGLTPTE 832
Query: 817 YFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDG 876
+FFHAM GREGL+DTAV+TA++GY+QR+L+ AL+++ V YDGTVR+ G I+QF YGEDG
Sbjct: 833 FFFHAMAGREGLIDTAVKTAETGYIQRKLVKALEEVMVKYDGTVRNSLGDIIQFIYGEDG 892
Query: 877 VD 878
+D
Sbjct: 893 LD 894
>pir||JDMU1 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Arabidopsis thaliana
Length = 1834
Score = 705 bits (1800), Expect = 0.0
Identities = 378/896 (42%), Positives = 541/896 (60%), Gaps = 53/896 (5%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
++FGILSP EIR+MS + V +T + G P GG+ D R+G ID ++CETC A EC
Sbjct: 18 VQFGILSPDEIRQMSVIHVEHSET-TEKGKPKVGGLSDTRLGTIDRKVKCETCMANMAEC 76
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEV 130
PGHFG++ELA+P+ HVGF KT+ I+ C C +I L DE ++ KN ++ +
Sbjct: 77 PGHFGYLELAKPMYHVGFMKTVLSIMRCVCFNCSKI-LADEVCRSLFRQAMKIKNPKNRL 135
Query: 131 NKILKEIHKKAR------------------ERMVCPHCGAPQYPIKFEKPTIYWELRKDE 172
KIL K + + CGA Q + E + E +
Sbjct: 136 KKILDACKNKTKCDGGDDIDDVQSHSTDEPVKKSRGGCGAQQPKLTIEGMKMIAEYKIQR 195
Query: 173 QGN----------EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
+ N E K + + L++I D D LLG +P+ +RP+WM+L VLP+PP
Sbjct: 196 KKNDEPDQLPEPAERKQTLGADRVLSVLKRISDADCQLLGFNPKFARPDWMILEVLPIPP 255
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RPS+ ++ R+EDDLTH+L IIR N LK+ + GAP II + LLQ+H+ TY
Sbjct: 256 PPVRPSVMMDATSRSEDDLTHQLAMIIRHNENLKRQEKNGAPAHIISEFTQLLQFHIATY 315
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
+NE G P A KSGRP+K++ RLK KEGR RGNL GKRV+FSARTVI+PDP I+I+E
Sbjct: 316 FDNELPGQPRATQKSGRPIKSICSRLKAKEGRIRGNLMGKRVDFSARTVITPDPTINIDE 375
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENL 402
+GVP IA+ LT PE VT +NIE+L ++V + Y+I +G+R+ + + +
Sbjct: 376 LGVPWSIALNLTYPETVTPYNIERLVRLVF---ISFSETKYIIRDDGQRLDLRYLKKSS- 431
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
+ +++G+ VERHL DGD VLFNRQPSLH+MSIM HR+R+MPY TFRLNL+V PYNADF
Sbjct: 432 DQHLELGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYNADF 491
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFT 522
DGDEMN+HVPQ+ E +AE LM V I+SP+ P++G +QD + G +T+ +
Sbjct: 492 DGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLLGCRKITKRDTFIE 551
Query: 523 REEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERC 582
++ LM+ ++P P +PLW+GK +F+L++P + + + + E
Sbjct: 552 KDVFMNTLMWWEDFDGKVPAP-AILKPRPLWTGKQVFNLIIPKQINLLRYSAWHADTE-- 608
Query: 583 EALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYG 642
+ P +VR I+ G+LL+G + KK G +G ++ +I E G
Sbjct: 609 -------TGFITPGDTQVR---------IERGELLAGTLCKKTLGTSNGSLVHVIWEEVG 652
Query: 643 VERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
+ AR+FL L + + GFT GI D ++I E I A+ V+ LI ++
Sbjct: 653 PDAARKFLGHTQWLVNYWLLQNGFTIGIGDTIADSSTMEKINETISNAKTAVKDLIRQFQ 712
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
EL+P PG+T+ +T E+++ VL +ARD+AGS A+K L N+ M G++G +NI
Sbjct: 713 GKELDPEPGRTMRDTFENRVNQVLNKARDDAGSSAQKSLAETNNLKAMVTAGSKGSFINI 772
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+QM A +GQQ++ GKR+ GF GR L HF D G ++GFV NSY GL+PQE+FFHAM
Sbjct: 773 SQMTACVGQQNVEGKRIPFGFDGRTLPHFTKDDYGPESRGFVENSYLRGLTPQEFFFHAM 832
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
GGREGL+DTAV+T+++GY+QRRL+ A++D+ V YDGTVR+ G ++QF YGEDG+D
Sbjct: 833 GGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYDGTVRNSLGDVIQFLYGEDGMD 888
>sp|P18616|RPB1_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (VERSION 1)
>gi|16505|emb|CAA37130.1| (X52954) RNA polymerase II
[Arabidopsis thaliana]
Length = 1841
Score = 704 bits (1797), Expect = 0.0
Identities = 379/898 (42%), Positives = 543/898 (60%), Gaps = 57/898 (6%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
++FGILSP EIR+MS + V +T + G P GG+ D R+G ID ++CETC A EC
Sbjct: 18 VQFGILSPDEIRQMSVIHVEHSET-TEKGKPKVGGLSDTRLGTIDRKVKCETCMANMAEC 76
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEV 130
PGHFG++ELA+P+ HVGF KT+ I+ C C +I L DE ++ KN ++ +
Sbjct: 77 PGHFGYLELAKPMYHVGFMKTVLSIMRCVCFNCSKI-LADEVCRSLFRQAMKIKNPKNRL 135
Query: 131 NKILKEIHKKAR------------------ERMVCPHCGAPQYPIKFEKPTIYWELRKDE 172
KIL K + + CGA Q + E + E +
Sbjct: 136 KKILDACKNKTKCDGGDDIDDVQSHSTDEPVKKSRGGCGAQQPKLTIEGMKMIAEYKIQR 195
Query: 173 QGN----------EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
+ N E K + + L++I D D LLG +P+ +RP+WM+L VLP+PP
Sbjct: 196 KKNDEPDQLPEPAERKQTLGADRVLSVLKRISDADCQLLGFNPKFARPDWMILEVLPIPP 255
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RPS+ ++ R+EDDLTH+L IIR N LK+ + GAP II + LLQ+H+ TY
Sbjct: 256 PPVRPSVMMDATSRSEDDLTHQLAMIIRHNENLKRQEKNGAPAHIISEFTQLLQFHIATY 315
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
+NE G P A KSGRP+K++ RLK KEGR RGNL GKRV+FSARTVI+PDP I+I+E
Sbjct: 316 FDNELPGQPRATQKSGRPIKSICSRLKAKEGRIRGNLMGKRVDFSARTVITPDPTINIDE 375
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRR--IRIMESNRE 400
+GVP IA+ LT PE VT +NIE+L ++V + Y+I +G+R +R ++ + +
Sbjct: 376 LGVPWSIALNLTYPETVTPYNIERLVRLVF---ISFSETKYIIRDDGQRSDLRYLKKSSD 432
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
+ +++G+ VERHL DGD VLFNRQPSLH+MSIM HR+R+MPY TFRLNL+V PYNA
Sbjct: 433 ---QHLELGYKVERHLQDGDFVLFNRQPSLHKMSIMGHRIRIMPYSTFRLNLSVTSPYNA 489
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGDEMN+HVPQ+ E +AE LM V I+SP+ P++G +QD + G +T+ +
Sbjct: 490 DFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPVMGIVQDTLLGCRKITKRDTF 549
Query: 521 FTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
++ LM+ ++P P +PLW+GK +F+L++P + + + + E
Sbjct: 550 IEKDVFMNTLMWWEDFDGKVPAP-AILKPRPLWTGKQVFNLIIPKQINLLRYSAWHADTE 608
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVRE 640
+ P +VR I+ G+LL+G + KK G +G ++ +I E
Sbjct: 609 ---------TGFITPGDTQVR---------IERGELLAGTLCKKTLGTSNGSLVHVIWEE 650
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
G + AR+FL L + + GFT GI D ++I E I A+ V+ LI
Sbjct: 651 VGPDAARKFLGHTQWLVNYWLLQNGFTIGIGDTIADSSTMEKINETISNAKTAVKDLIRQ 710
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKIL 760
++ EL+P PG+T+ +T E+++ VL +ARD+AGS A+K L N+ M G++G +
Sbjct: 711 FQGKELDPEPGRTMRDTFENRVDQVLNKARDDAGSSAQKSLAETNNLKAMVTAGSKGSFI 770
Query: 761 NITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFH 820
NI+QM A +GQQ++ GKR+ GF GR L HF D G ++GFV NSY GL+PQE+FFH
Sbjct: 771 NISQMTACVGQQNVEGKRIPFGFDGRTLPHFTKDDYGPESRGFVENSYLRGLTPQEFFFH 830
Query: 821 AMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
AMGGREGL+DTAV+T+++GY+QRRL+ A++D+ V YDGTVR+ G ++QF YGEDG+D
Sbjct: 831 AMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYDGTVRNSLGDVIQFLYGEDGMD 888
>sp|P31635|RPB0_ARATH DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (VERSION 2)
>gi|279535|pir||JDMU2 DNA-directed RNA polymerase (EC
2.7.7.6) II largest chain (version 2) - Arabidopsis
thaliana >gi|16494|emb|CAA36735.1| (X52494) DNA-directed
RNA polymerase [Arabidopsis thaliana]
Length = 1860
Score = 700 bits (1786), Expect = 0.0
Identities = 385/918 (41%), Positives = 550/918 (58%), Gaps = 71/918 (7%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
++FGILSP EIR+MS + V +T + G P GG+ D R+G ID ++CETC A EC
Sbjct: 18 VQFGILSPDEIRQMSVIHVEHSET-TEKGKPKVGGLSDTRLGTIDRKVKCETCMANMAEC 76
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIE------EYMKKLELAK 124
PGHFG++ELA+P+ HVGF KT+ I+ C C +I L DE ++ K L+ K
Sbjct: 77 PGHFGYLELAKPMYHVGFMKTVLSIMRCVCFNCSKI-LADEAMKIKNPKNRLKKILDACK 135
Query: 125 NR-RSEVNKILKEIHKKARERMVCPH---CGAPQYPIKFEKPTIYWELRKDEQGN----- 175
N+ + + + ++ + + V CGA Q + E + E + ++ N
Sbjct: 136 NKTKCDGGDDIDDVQSHSTDEPVKKSRGGCGAQQPKLTIEGMKMIAEYKNSKEENDEPDQ 195
Query: 176 -----EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT 230
E K + + L++I D D LLG +P+ +RP+WM+L VLP+PP RPS+
Sbjct: 196 LPEPAERKQTLGADRVLSVLKRISDADCQLLGFNPKFARPDWMILEVLPIPPPPVRPSVM 255
Query: 231 LETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGV 290
++ R+EDDLTH+L IIR N LK+ + GAP+ II LLQ+H+ TY +NE G
Sbjct: 256 MDATSRSEDDLTHQLAMIIRHNENLKRQEKNGAPRHIISRFTQLLQFHIATYFDNELPGQ 315
Query: 291 PPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIA 350
P A KSGRP+K++ RLK KEGR RGNL GKRV+FSARTVI+PDP I+I+E+GVP IA
Sbjct: 316 PRATQKSGRPIKSICSRLKAKEGRIRGNLMGKRVDFSARTVITPDPTINIDELGVPWSIA 375
Query: 351 MELTVPEKVTEFNIEKLRKMVLNGPDKYPG---ANYVIDPEGRRIRI------------- 394
+ LT PE VT +NIE+L+++V GP PG A Y+I +G+R+ +
Sbjct: 376 LNLTYPETVTPYNIERLKELVDYGPHPPPGKTGAKYIIRDDGQRLDLRYLKKSSDQHLEL 435
Query: 395 ----------MESNRENLARMIDI---GWT-VERHLLDGDIVLFNRQPSLHRMSIMAHRV 440
+ S + L + I W+ VERHL DGD VLFNRQPSLH+MSIM HR+
Sbjct: 436 GYRYVLLSYSIHSTHKRLFLEVVIFMLSWSQVERHLQDGDFVLFNRQPSLHKMSIMGHRI 495
Query: 441 RVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPI 500
R+MPY TFRLNL+V PYNADFDGDEMN+HVPQ+ E +AE LM V I+SP+ P+
Sbjct: 496 RIMPYSTFRLNLSVTSPYNADFDGDEMNMHVPQSFETRAEVLELMMVPKCIVSPQANRPV 555
Query: 501 IGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFS 560
+G +QD + G +T+ + ++ LM+ ++P P +PLW+GK +F+
Sbjct: 556 MGIVQDTLLGCRKITKRDTFIEKDVFMNTLMWWEDFDGKVPAP-AILKPRPLWTGKQVFN 614
Query: 561 LLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGA 620
L++P + + + + E + P +VR I+ G+LL+G
Sbjct: 615 LIIPKQINLLRYSAWHADTE---------TGFITPGDTQVR---------IERGELLAGT 656
Query: 621 IDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
+ KK G +G ++ +I E G + AR+FL L + + GFT GI D
Sbjct: 657 LCKKTLGTSNGSLVHVIWEEVGPDAARKFLGHTQWLVNYWLLQNGFTIGIGDTIADSSTM 716
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
++I E I A+ V+ LI ++ EL+P PG+T+ +T E+++ VL +ARD+AGS A+K
Sbjct: 717 EKINETISNAKTAVKDLIRQFQGKELDPEPGRTMRDTFENRVNQVLNKARDDAGSSAQKS 776
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N+ M G++G +NI+QM A +GQQ++ GKR+ GF GR L HF D G +
Sbjct: 777 LAETNNLKAMVTAGSKGSFINISQMTACVGQQNVEGKRIPFGFDGRTLPHFTKDDYGPES 836
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
+GFV NSY GL+PQE+FFHAMGGREGL+DTAV+T+++GY+QRRL+ A++D+ V YDGTV
Sbjct: 837 RGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIMVKYDGTV 896
Query: 861 RDPTGVIVQFRYGEDGVD 878
R+ G ++QF YGEDG+D
Sbjct: 897 RNSLGDVIQFLYGEDGMD 914
>pir||T31435 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Vairimorpha necatrix >gi|4001824|gb|AAD12604.1|
(AF060234) largest subunit of RNA polymerase II; RPO21
[Vairimorpha necatrix]
Length = 1605
Score = 689 bits (1758), Expect = 0.0
Identities = 378/905 (41%), Positives = 545/905 (59%), Gaps = 64/905 (7%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
V K I SI+FG+ SP+EIRK S V++ P+T ++ G+P GG++D +MG + C +C
Sbjct: 6 VTKRISSIQFGLFSPEEIRKSSVVQIIHPETMEN-GFPKSGGLIDLKMGTTERAFLCSSC 64
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
CPGHFGHIEL +P+ HVG+ I +ILE C C R+K++ + ++ K L
Sbjct: 65 EKDNFSCPGHFGHIELTKPMFHVGYMTKIKKILECVCFYCSRLKISTKNLK---KDLNFV 121
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
N + EI + CG Q IK E ++ K E+ ++ K +
Sbjct: 122 WNISKTKSVCEGEIGENG-----FTGCGNKQPVIKKEGMSLI-AFMKGEEESDGKVILNG 175
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+ + L+KI ++D LG + ++PEW++LTVL VPP + RPSI +E +RAEDDLTH
Sbjct: 176 ERVHNILKKIVNEDAVFLGFDQKFTKPEWLILTVLLVPPPSVRPSIVMEGMLRAEDDLTH 235
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KL DI++ N LK+ GAP ++ D LLQ+H+ T I+N+ SG P A KSGRPLK+
Sbjct: 236 KLADIVKANTYLKKYELEGAPGHVVRDYEQLLQFHIATMIDNDISGQPQALQKSGRPLKS 295
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
++ RLKGKEGR RGNL GKRV+FSAR+VI+PDP IS+ EVGVP +IA T PE +T FN
Sbjct: 296 ISARLKGKEGRVRGNLMGKRVDFSARSVITPDPNISVEEVGVPSEIAKIHTFPEIITPFN 355
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVL 423
I++L K+V NGP++YPGANYVI +G+RI + NR ++ ++ G+ VERH+ DGD+VL
Sbjct: 356 IDRLTKLVSNGPNEYPGANYVIRNDGQRIDL-NFNRGDIK--LEEGYVVERHMQDGDVVL 412
Query: 424 FNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARI 483
FNRQPSLH+MS+MAH VRVM +TFRLNL+ PYNADFDGDEMNLH+PQ+ ++AE
Sbjct: 413 FNRQPSLHKMSMMAHFVRVMEGKTFRLNLSCVSPYNADFDGDEMNLHMPQSYNSKAELEE 472
Query: 484 LMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEP 543
L V ++SP+ P++G +QD ++ L T ++F R E Q+L ++ E +
Sbjct: 473 LCLVSKQVLSPQSNKPVMGIVQDSLTALRLFTLRDSFFDRRETMQLLYSVNINNYEFTDS 532
Query: 544 --------DKYENG---------------------KPLWSGKTIFSLLLPDDLTVWYRNK 574
D + N K LW+GK I S +LP+ + Y K
Sbjct: 533 SKLIMTHDDSFGNNLHTEESSNIMKILNFPAISYPKKLWTGKQILSYILPNTI---YNGK 589
Query: 575 LCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIIL 634
+ E D E V D +V I+NG++LSG IDKKA G G ++
Sbjct: 590 SNEHNEE--------------DLENVE----DSYVIIRNGEILSGIIDKKAVGSTQGGLI 631
Query: 635 DLIVREYGVERARQFLDQVTKL-TIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEER 693
+I ++G +R F D K+ ++ T F+ GI D +E +++ I A+E+
Sbjct: 632 HIIANDFGPDRVTCFFDDAQKMMNLYFATINAFSIGIGDAIADKETMSQVQRSIETAKEQ 691
Query: 694 VQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKT 753
V ++I ++ +LE LPG ++ E+ ES++ +L + RD +G+ A K L N+ M
Sbjct: 692 VNEIIVKAQKNKLERLPGMSMRESFESQVNYILNKPRDISGASASKSLSFCNNMRTMVLA 751
Query: 754 GARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLS 813
G++G +NI+Q+ A LGQQ++ GKR+ GF R L HF D +++GFV NSY G++
Sbjct: 752 GSKGSFINISQVTACLGQQNVEGKRIPFGFNYRSLPHFSKADYSGKSRGFVENSYVKGIT 811
Query: 814 PQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYG 873
P+E+FFHAMGGREGL+D A++TA++GY+QRRL+ A++D V D +VR G I Q+ YG
Sbjct: 812 PEEFFFHAMGGREGLIDIAIKTAETGYIQRRLVKAMEDATVTLDRSVRGADGFIYQYEYG 871
Query: 874 EDGVD 878
EDG D
Sbjct: 872 EDGFD 876
>pir||I38186 RNA polymerase II largest subunit - human
>gi|825713|emb|CAA52862.1| (X74874) RNA polymerase II
largest subunit [Homo sapiens]
Length = 1970
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>dbj|BAA22376.1| (D87293) RNA polymerase II largest subunit [Cricetulus griseus]
Length = 1970
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>gi|6677795 RNA polymerase II 1 [Mus musculus] >gi|90464|pir||A28490
DNA-directed RNA polymerase (EC 2.7.7.6) II largest
chain - mouse >gi|200794|gb|AAA40071.1| (M12130) RNA
polymerase II [Mus musculus]
Length = 1932
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>sp|P08775|RPB1_MOUSE DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (RPB1)
Length = 1970
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>gi|4505939 polymerase (RNA) II (DNA directed) polypeptide A (220kD) [Homo
sapiens] >gi|11428046|ref|XP_008659.1| polymerase (RNA)
II (DNA directed) polypeptide A (220kD) [Homo sapiens]
>gi|133326|sp|P24928|RPB1_HUMAN DNA-DIRECTED RNA
POLYMERASE II LARGEST SUBUNIT (RPB1)
>gi|105878|pir||S21054 DNA-directed RNA polymerase (EC
2.7.7.6) II largest chain - human
>gi|36124|emb|CAA45125.1| (X63564) RNA polymerase II
largest subunit [Homo sapiens]
>gi|2443336|dbj|BAA22377.1| (D87294) RNA polymerase II
largest subunit [Cricetulus griseus]
Length = 1970
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>gb|AAB58418.1| (U37500) RNA polymerase II largest subunit [Mus musculus]
Length = 1966
Score = 686 bits (1752), Expect = 0.0
Identities = 369/907 (40%), Positives = 545/907 (59%), Gaps = 61/907 (6%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ I ++FG+LSP E+++MS E + P+T + G P GG+MD R GVI+ RC+TC
Sbjct: 16 RTIKRVQFGVLSPDELKRMSVTEGGIKYPET-TEGGRPKLGGLMDPRQGVIERTGRCQTC 74
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
ECPGHFGHIELA+PV HVGF ++L C C ++ + K ++
Sbjct: 75 AGNMTECPGHFGHIELAKPVFHVGFLVKTMKVLRCVCFFCSKLLVDSNN----PKIKDIL 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCP---------------------------HCGAPQYP 156
+ + K L ++ + + +C CG Q
Sbjct: 131 AKSKGQPKKRLTHVYDLCKGKNICEGGEEMDNKFGVEQPEGDEDLTKEKGHGGCGRYQPR 190
Query: 157 IKFEKPTIYWELRK-DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
I+ +Y E + +E E K + P + + ++I D++ +LG+ P +RPEWM++
Sbjct: 191 IRRSGLELYAEWKHVNEDSQEKKILLSPERVHEIFKRISDEECFVLGMEPRYARPEWMIV 250
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
TVLPVPP++ RP++ ++ R +DDLTHKL DI++INN+L++N + GA +I + LL
Sbjct: 251 TVLPVPPLSVRPAVVMQGSARNQDDLTHKLADIVKINNQLRRNEQNGAAAHVIAEDVKLL 310
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q+HV T ++NE G+P A KSGRPLK+L QRLKGKEGR RGNL GKRV+FSARTVI+PD
Sbjct: 311 QFHVATMVDNELPGLPRAMQKSGRPLKSLKQRLKGKEGRVRGNLMGKRVDFSARTVITPD 370
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P +SI++VGVP IA +T E VT FNI++L+++V G +YPGA Y+I G RI +
Sbjct: 371 PNLSIDQVGVPRSIAANMTFAEIVTPFNIDRLQELVRRGNSQYPGAKYIIRDNGDRIDLR 430
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ + + G+ VERH+ DGDIV+FNRQP+LH+MS+M HRVR++P+ TFRLNL+V
Sbjct: 431 FHPKPSDLH-LQTGYKVERHMCDGDIVIFNRQPTLHKMSMMGHRVRILPWSTFRLNLSVT 489
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
PYNADFDGDEMNLH+PQ+ E +AE + L V I++P+ P++G +QD ++ T
Sbjct: 490 TPYNADFDGDEMNLHLPQSLETRAEIQELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFT 549
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ + R EV +LMF ++P+P +PLW+GK IFSL++P +
Sbjct: 550 KRDVFLERGEVMNLLMFLSTWDGKVPQP-AILKPRPLWTGKQIFSLIIPGHINC------ 602
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDG 631
+ PD E+ + D V ++NG+L+ G + KK+ G G
Sbjct: 603 ------------IRTHSTHPDDEDSGPYKHISPGDTKVVVENGELIMGILCKKSLGTSAG 650
Query: 632 IILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + E G + R F + T + W++ +G T GI D + I+ I++A
Sbjct: 651 SLVHISYLEMGHDITRLFYSNIQTVINNWLLI-EGHTIGIGDSIADSKTYQDIQNTIKKA 709
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ V ++IE ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M
Sbjct: 710 KQDVIEVIEKAHNNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSM 769
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
+GA+G +NI+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +
Sbjct: 770 VVSGAKGSKINISQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLA 829
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI +++ + V YD TVR+ +VQ
Sbjct: 830 GLTPTEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDATVRNSINQVVQL 889
Query: 871 RYGEDGV 877
RYGEDG+
Sbjct: 890 RYGEDGL 896
>pir||T31436 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain - Nosema
locustae >gi|4092885|gb|AAD12605.1| (AF061288) RNA
polymerase II largest subunit [Nosema locustae]
Length = 1553
Score = 685 bits (1749), Expect = 0.0
Identities = 381/877 (43%), Positives = 541/877 (61%), Gaps = 56/877 (6%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+KK + +I+FG+ SP+EIR S + P+T ++ G P E G++D RMG + C TC
Sbjct: 7 IKKRVKAIQFGLFSPEEIRASSVALIRYPETLEN-GVPKESGLIDLRMGTTERDYLCATC 65
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
C GHFGHIEL +P+ HVGF I ++LE C C ++++ K +
Sbjct: 66 NQDNYVCAGHFGHIELVKPMFHVGFISRIKKVLECVCFYCSKVRINKN-------KTTIT 118
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
K + ++N I + +MVC C Q IK E +++ + K E+ NE K +
Sbjct: 119 KESKHKLNFIWGI----CKNKMVCEDCNNRQPVIKKEGLSLFAYM-KGEENNEGKVMLNG 173
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+ + +KI ++DL LG + + SRPE+M+L+VL V P RPSI +E +R EDDLT+
Sbjct: 174 ERVYNIFKKINNEDLEFLGFNIKYSRPEYMILSVLLVAPPAVRPSIVMEGTLRGEDDLTY 233
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
K DII+ N LK+ E GAP II D L+Q+HV T I+NE SG P A K+GRPLK
Sbjct: 234 KYSDIIKSNQNLKKYEEEGAPAHIIRDYEQLVQFHVATLIDNEISGQPQALQKNGRPLKA 293
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
++ RLKGKEGR RGNL GKRV+FSAR+VI+ DP IS+ E+GVP+++AM T PE+VT FN
Sbjct: 294 ISARLKGKEGRLRGNLMGKRVDFSARSVITADPNISLEELGVPMKVAMIHTFPERVTSFN 353
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVL 423
+ KLRK+V NGP+KYPGANY+I +G+RI + S + + ++ G+ VERH+L+GD+VL
Sbjct: 354 LNKLRKLVSNGPNKYPGANYLIRRDGQRIDLNFSRGDVI---LEEGYVVERHMLNGDLVL 410
Query: 424 FNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARI 483
FNRQPSLH+MS+MAH+V+VM TFRLNL+ PYNADFDGDEMNLH+PQ+ ++AE
Sbjct: 411 FNRQPSLHKMSMMAHKVKVMDGLTFRLNLSATAPYNADFDGDEMNLHMPQSYNSKAELSE 470
Query: 484 LMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEP 543
LM V HIISP+ P++G IQD + G LT +G + REE ++ + + + +P
Sbjct: 471 LMLVSKHIISPQSNKPVMGIIQDTLLGVCRLTSKGVFIKREEFCNLVYASNLVARANIKP 530
Query: 544 DKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKL 603
K L++GK +FSL LP ++R+K
Sbjct: 531 -AIARPKILYTGKQLFSLTLPK--LNFFRDK----------------------------- 558
Query: 604 AYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKL-TIWVIT 662
V I +G LL+G I KK+ G G ++ +I +YG E +F+D + KL + ++
Sbjct: 559 -----VVIMDGVLLNGVICKKSVGTAQGSLIHIIANDYGHEEITRFIDSLQKLISTYLTL 613
Query: 663 HKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLI-EAYKRGELEPLPGKTLEETLESK 721
F+ GI D E I I +A+ V++LI ++ +RG LE LPG L+ETLESK
Sbjct: 614 ISTFSVGIGDTISSPETMAHISRAIGDAKAEVKQLIYDSRRRGSLEKLPGMNLQETLESK 673
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
I L +ARD +G+ A + L N M K G++G +NI+Q+ + +GQQ+I KR+
Sbjct: 674 INLALNKARDISGTRAVESLNHLNGLKQMLKAGSKGSYINISQITSCVGQQNIESKRIPF 733
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
GFR R L HF D G ++GFV NSY SGL+P+E+FFHAMGGREGL+DTA +TA++GY+
Sbjct: 734 GFRQRTLPHFVKNDYGPESRGFVTNSYLSGLNPEEFFFHAMGGREGLIDTACKTAETGYI 793
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
QRR++ A++D +++YDG+VR + + QF YGED D
Sbjct: 794 QRRIVKAMEDARIEYDGSVRG-SSTVYQFMYGEDNFD 829
>emb|CAA26904.1| (X03128) put. RNA polymerase II largest subunit [Saccharomyces
cerevisiae]
Length = 1726
Score = 681 bits (1737), Expect = 0.0
Identities = 378/894 (42%), Positives = 529/894 (58%), Gaps = 52/894 (5%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIE-GGVMDKRMGVIDPGLRCETCG 64
+ + ++FG+ SP+E+R +S ++ P+T D+ + GG+ D R+G ID L+C+TC
Sbjct: 12 RTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQ 71
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
ECPGHFGHI+LA+PV HVGF I ++ E C CG++ L +E E M++ K
Sbjct: 72 EGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLL--DEHNELMRQALAIK 129
Query: 125 NRRSEVNKILKEIHKKARERMVCPH----------------CGAPQYPIKFEKPTIYWEL 168
+ + K I + +MVC CG Q I+ + +
Sbjct: 130 DSK----KRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLKLVGSW 185
Query: 169 RKDE---QGNEYKHRMMPTE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVT 224
+KD +E + R++ TE I + + I KD LG + SRPEWM+LT LPVPP
Sbjct: 186 KKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPP 245
Query: 225 ARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYIN 284
RPSI+ R EDDLT KL DI++ N L+ GAP IE+ LLQ+HV TY++
Sbjct: 246 VRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHVATYMD 305
Query: 285 NETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
N+ +G P A KSGRP+K++ RLKGKEGR RGNL GKRV+FSARTVIS DP + +++VG
Sbjct: 306 NDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVG 365
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLAR 404
VP IA LT PE VT +NI++L ++V NGP+++PGA YVI G RI + S R +
Sbjct: 366 VPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQ 425
Query: 405 MIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
+ GW VERH++D D VLFNRQPSLH+MS+MAHRV+V+PY TFRLNL+V PYNADFDG
Sbjct: 426 L-QYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDG 484
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
DEMNLHVPQ+EE +AE L V I+SP+ P +G +QD + G LT + +
Sbjct: 485 DEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELD 544
Query: 525 EVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEA 584
+V ML + +P P + KPLWSGK I S+ +P+ +
Sbjct: 545 QVLNMLYWVPDWDGVIPTPAIIKP-KPLWSGKQILSVAIPNGIH---------------- 587
Query: 585 LEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE 644
L++ E + P+ D + I +G+++ G ++KK G +G ++ ++ RE G +
Sbjct: 588 LQRFDEGTTLLSPK-------DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQ 640
Query: 645 RARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
+ + K+ + + H GF+TGI D I E I EA+++V + + +
Sbjct: 641 VCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQAN 700
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQ 764
L G TL E+ E ++ L EARD AG +AE L N+ M G++G +NI Q
Sbjct: 701 LLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQ 760
Query: 765 MAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGG 824
M+A +GQQS+ GKR+ GF R L HF D +KGFV NSY GL+PQE+FFHAMGG
Sbjct: 761 MSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGG 820
Query: 825 REGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
REGL+DTAV+TA++GY+QRRL+ AL+D+ V YD T R+ G ++QF YGEDG+D
Sbjct: 821 REGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMD 874
>gi|6320061 RNA polymerase II large subunit; Rpo21p [Saccharomyces cerevisiae]
>gi|2507347|sp|P04050|RPB1_YEAST DNA-DIRECTED RNA
POLYMERASE II LARGEST SUBUNIT (B220)
>gi|2144431|pir||RNBY2L DNA-directed RNA polymerase (EC
2.7.7.6) II 215K chain - yeast (Saccharomyces
cerevisiae) >gi|1419221|emb|CAA65619.1| (X96876) RPB1
[Saccharomyces cerevisiae] >gi|1431217|emb|CAA98713.1|
(Z74188) ORF YDL140c [Saccharomyces cerevisiae]
Length = 1733
Score = 681 bits (1737), Expect = 0.0
Identities = 378/894 (42%), Positives = 529/894 (58%), Gaps = 52/894 (5%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIE-GGVMDKRMGVIDPGLRCETCG 64
+ + ++FG+ SP+E+R +S ++ P+T D+ + GG+ D R+G ID L+C+TC
Sbjct: 12 RTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQ 71
Query: 65 AKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
ECPGHFGHI+LA+PV HVGF I ++ E C CG++ L +E E M++ K
Sbjct: 72 EGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLL--DEHNELMRQALAIK 129
Query: 125 NRRSEVNKILKEIHKKARERMVCPH----------------CGAPQYPIKFEKPTIYWEL 168
+ + K I + +MVC CG Q I+ + +
Sbjct: 130 DSK----KRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLKLVGSW 185
Query: 169 RKDE---QGNEYKHRMMPTE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVT 224
+KD +E + R++ TE I + + I KD LG + SRPEWM+LT LPVPP
Sbjct: 186 KKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPP 245
Query: 225 ARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYIN 284
RPSI+ R EDDLT KL DI++ N L+ GAP IE+ LLQ+HV TY++
Sbjct: 246 VRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHVATYMD 305
Query: 285 NETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
N+ +G P A KSGRP+K++ RLKGKEGR RGNL GKRV+FSARTVIS DP + +++VG
Sbjct: 306 NDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVG 365
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLAR 404
VP IA LT PE VT +NI++L ++V NGP+++PGA YVI G RI + S R +
Sbjct: 366 VPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQ 425
Query: 405 MIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
+ GW VERH++D D VLFNRQPSLH+MS+MAHRV+V+PY TFRLNL+V PYNADFDG
Sbjct: 426 L-QYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDG 484
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
DEMNLHVPQ+EE +AE L V I+SP+ P +G +QD + G LT + +
Sbjct: 485 DEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELD 544
Query: 525 EVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEA 584
+V ML + +P P + KPLWSGK I S+ +P+ +
Sbjct: 545 QVLNMLYWVPDWDGVIPTPAIIKP-KPLWSGKQILSVAIPNGIH---------------- 587
Query: 585 LEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE 644
L++ E + P+ D + I +G+++ G ++KK G +G ++ ++ RE G +
Sbjct: 588 LQRFDEGTTLLSPK-------DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQ 640
Query: 645 RARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
+ + K+ + + H GF+TGI D I E I EA+++V + + +
Sbjct: 641 VCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQAN 700
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQ 764
L G TL E+ E ++ L EARD AG +AE L N+ M G++G +NI Q
Sbjct: 701 LLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQ 760
Query: 765 MAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGG 824
M+A +GQQS+ GKR+ GF R L HF D +KGFV NSY GL+PQE+FFHAMGG
Sbjct: 761 MSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGG 820
Query: 825 REGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
REGL+DTAV+TA++GY+QRRL+ AL+D+ V YD T R+ G ++QF YGEDG+D
Sbjct: 821 REGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMD 874
>gb|AAF48057.1| (AE003486) RpII215 gene product [Drosophila melanogaster]
Length = 1887
Score = 677 bits (1727), Expect = 0.0
Identities = 363/895 (40%), Positives = 541/895 (59%), Gaps = 51/895 (5%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ R
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVMKSRG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKP----T 163
+ K L ++ + + +C H G Y + T
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKENQQPDPNKKPGHGGCGHYQPSIRRTGLDLT 191
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ ++E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HQNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + +
Sbjct: 371 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL 430
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
+ G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFD
Sbjct: 431 HL-QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFD 489
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GDEMNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TR
Sbjct: 490 GDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITR 549
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E+V +LMF ++P+P + +PLW+GK IFSL++P ++ + R E E
Sbjct: 550 EQVMNLLMFLPTWDAKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM-IRTHSTHPDEEDE 607
Query: 584 ALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGV 643
K I D V +++G+L+ G + KK+ G G +L + E G
Sbjct: 608 GPYKWISPG-------------DTKVMVEHGELIMGILCKKSLGTSAGSLLHICFLELGH 654
Query: 644 ERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
+ A +F + T + W++ +G + GI D + + I++ I++A++ V +I+
Sbjct: 655 DIAGRFYGNIQTVINNWLL-FEGHSIGIGDTIADPQTYNEIQQAIKKAKDDVINVIQKAH 713
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
ELEP PG TL +T E+K+ +L +ARD G A+K L N+ M +G++G +NI
Sbjct: 714 NMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGSNINI 773
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHAM
Sbjct: 774 SQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAM 833
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 834 GGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 888
>pir||T29959 DNA-directed RNA polymerase II large subunit ama-1 - Caenorhabditis
elegans >gi|1255805|gb|AAA96158.1| (U53333) C. elegans
DNA-directed RNA polymerase II large subunit (ama-1)
(SP:P16356) [Caenorhabditis elegans]
Length = 1862
Score = 677 bits (1727), Expect = 0.0
Identities = 371/911 (40%), Positives = 540/911 (58%), Gaps = 62/911 (6%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCE 61
Q+ +++ ++FGIL P+EI++MS V P+ Y++ G P GG+MD R GVID RC
Sbjct: 9 QAPLRIVSRVQFGILGPEEIKRMSVAHVEFPEVYEN-GKPKLGGLMDPRQGVIDRRGRCM 67
Query: 62 TCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE 121
TC +CPGHFGH+ELA+PV H+GF +IL C CGR+ L D+ + LE
Sbjct: 68 TCAGNLTDCPGHFGHLELAKPVFHIGFLTKTLKILRCVCFYCGRL-LIDKSAP---RVLE 123
Query: 122 LAKNRRSEVNKILKEIHKKARERMVCPHC-----------------------GAPQYPIK 158
+ K + K L I+ + + VC G +Y
Sbjct: 124 ILKKTGTNSKKRLTMIYDLCKAKSVCEGAAEKEEGMPDDPDDPMNDGKKVAGGCGRYQPS 183
Query: 159 FEKPTI----YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMV 214
+ + I W+ +E E K + + + ++I D+D+ ++G+ P+ +RPEWM+
Sbjct: 184 YRRVGIDINAEWKKNVNEDTQERKIMLTAERVLEVFQQITDEDILVIGMDPQFARPEWMI 243
Query: 215 LTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDL 274
TVLPVPP+ RP++ + +DDLTHKL DII+ N +L++N GA ++ D L
Sbjct: 244 CTVLPVPPLAVRPAVVTFGSAKNQDDLTHKLSDIIKTNQQLQRNEANGAAAHVLTDDVRL 303
Query: 275 LQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISP 334
LQ+HV T ++N G+P A K GRPLK++ QRLKGKEGR RGNL GKRV+FSARTVI+
Sbjct: 304 LQFHVATLVDNCIPGLPTATQKGGRPLKSIKQRLKGKEGRIRGNLMGKRVDFSARTVITA 363
Query: 335 DPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRI 394
DP + I+ VGVP IA LT PE VT FN++KL+++V G +YPGA G R+ +
Sbjct: 364 DPNLPIDTVGVPRTIAQNLTFPEIVTPFNVDKLQELVNRGDTQYPGAK----ENGARVDL 419
Query: 395 MESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAV 454
R + G+ VERH+ DGDI++FNRQP+LH+MS+M HRV+++P+ TFR+NL+V
Sbjct: 420 RYHPRAADLHL-QPGYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFRMNLSV 478
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
PYNADFDGDEMNLH+PQ+ E +AE + V +I+P+ P++G +QD + ++
Sbjct: 479 TSPYNADFDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLCAVRMM 538
Query: 515 TREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNK 574
T+ + + +LM+ ++P+P + KPLW+GK +FSL++P ++ V
Sbjct: 539 TKRDVFIDWPFMMDLLMYLPTWDGKVPQPAILKP-KPLWTGKQVFSLIIPGNVNV----- 592
Query: 575 LCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRED 630
L PD E+ + D V I++G+LLSG + K G+
Sbjct: 593 -------------LRTHSTHPDSEDSGPYKWISPGDTKVIIEHGELLSGIVCSKTVGKSA 639
Query: 631 GIILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
G +L ++ E G E A F + T + W+I +G T GI D + I+ IR+
Sbjct: 640 GNLLHVVTLELGYEIAANFYSHIQTVINAWLI-REGHTIGIGDTIADQATYLDIQNTIRK 698
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVI 749
A++ V +IE +LEP PG TL +T E+K+ +L +ARD GS A+K L N+
Sbjct: 699 AKQDVVDVIEKAHNDDLEPTPGNTLRQTFENKVNQILNDARDRTGSSAQKSLSEFNNFKS 758
Query: 750 MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYK 809
M +G++G +NI+Q+ A +GQQ++ GKR+ GFR R L HF D G +KGFV NSY
Sbjct: 759 MVVSGSKGSKINISQVIACVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESKGFVENSYL 818
Query: 810 SGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQ 869
+GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ +VQ
Sbjct: 819 AGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSLAQMVQ 878
Query: 870 FRYGEDGVDPM 880
RYGEDG+D M
Sbjct: 879 LRYGEDGLDGM 889
>sp|P16356|RPB1_CAEEL DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|102468|pir||A34092 DNA-directed RNA polymerase (EC
2.7.7.6) II large chain - Caenorhabditis elegans
>gi|156405|gb|AAA28126.1| (M29235) RNA polymerase II
[Caenorhabditis elegans]
Length = 1859
Score = 675 bits (1724), Expect = 0.0
Identities = 374/911 (41%), Positives = 542/911 (59%), Gaps = 62/911 (6%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCE 61
Q+ +++ ++FGIL P+EI++MS V P+ Y++ G P GG+MD R GVID RC
Sbjct: 9 QAPLRIVSRVQFGILGPEEIKRMSVAHVEFPEVYEN-GKPKLGGLMDPRQGVIDRRGRCM 67
Query: 62 TCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE 121
TC +CPGHFGH+ELA+PV H+GF +IL C CGR+ L D+ + LE
Sbjct: 68 TCAGNLTDCPGHFGHLELAKPVFHIGFLTKTLKILRCVCFYCGRL-LIDKSAP---RVLE 123
Query: 122 LAKNRRSEVNKILKEIHKKARERMVCPH-------------------------CGAPQYP 156
+ K + K L I+ + + VC CG Q
Sbjct: 124 ILKKTGTNSKKRLTMIYDLCKAKSVCEGAAEKEEGMPDDPDDPMNDGKKVAGGCGRYQPS 183
Query: 157 IKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDR--LEKIPDKDLPLLGLHPEKSRPEWMV 214
+ I E +K+ + + ++M T RD ++I D+D+ ++G+ P+ +RPEWM+
Sbjct: 184 YRRVGIDINAEWKKNVNEDTQERKIMLTAERDLEVFQQITDEDILVIGMDPQFARPEWMI 243
Query: 215 LTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDL 274
TVLPVPP+ RP++ + +DDLTHKL DII+ N +L++N GA ++ D L
Sbjct: 244 CTVLPVPPLAVRPAVVTFGSAKNQDDLTHKLSDIIKTNQQLQRNEANGAAAHVLTDDVRL 303
Query: 275 LQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISP 334
LQ+HV T ++N G+P A K GRPLK++ QRLKGKEGR RGNL GKRV+FSARTVI+
Sbjct: 304 LQFHVATLVDNCIPGLPTATQKGGRPLKSIKQRLKGKEGRIRGNLMGKRVDFSARTVITA 363
Query: 335 DPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRI 394
DP + I+ VGVP IA LT PE VT FN++KL+++V G +YPGA G R+ +
Sbjct: 364 DPNLPIDTVGVPRTIAQNLTFPEIVTPFNVDKLQELVNRGDTQYPGAK----ENGARVDL 419
Query: 395 MESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAV 454
R + G+ VERH+ DGDI++FNRQP+LH+MS+M HRV+++P+ TFR+NL+V
Sbjct: 420 RYHPRAADLHL-QPGYRVERHMKDGDIIVFNRQPTLHKMSMMGHRVKILPWSTFRMNLSV 478
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
PYNADFDGDEMNLH+PQ+ E +AE + V +I+P+ P++G +QD + ++
Sbjct: 479 TSPYNADFDGDEMNLHLPQSLETRAEIEEIAMVPRQLITPQANKPVMGIVQDTLCAVRMM 538
Query: 515 TREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNK 574
T+ + + +LM+ ++P+P + KPLW+GK +FSL++P ++ V
Sbjct: 539 TKRDVFIDWPFMMDLLMYLPTWDGKVPQPAILKP-KPLWTGKQVFSLIIPGNVNV----- 592
Query: 575 LCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRED 630
L PD E+ + D V I++G+LLSG + K G+
Sbjct: 593 -------------LRTHSTHPDSEDSGPYKWISPGDTKVIIEHGELLSGIVCSKTVGKSA 639
Query: 631 GIILDLIVREYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
G +L ++ E G E A F + T + W+I +G T GI D + I+ IR+
Sbjct: 640 GNLLHVVTLELGYEIAANFYSHIQTVINAWLI-REGHTIGIGDTIADQATYLDIQNTIRK 698
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVI 749
A++ V +IE +LEP PG TL +T E+K+ +L +ARD GS A+K L N+
Sbjct: 699 AKQDVVDVIEKAHNDDLEPTPGNTLRQTFENKVNQILNDARDRTGSSAQKSLSEFNNFKS 758
Query: 750 MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYK 809
M +G++G +NI+Q+ A +GQQ++ GKR+ GFR R L HF D G +KGFV NSY
Sbjct: 759 MVVSGSKGSKINISQVIACVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESKGFVENSYL 818
Query: 810 SGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQ 869
+GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ +VQ
Sbjct: 819 AGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSLAQMVQ 878
Query: 870 FRYGEDGVDPM 880
RYGEDG+D M
Sbjct: 879 LRYGEDGLDGM 889
>sp|P04052|RPB1_DROME DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|279533|pir||RNFF2L DNA-directed RNA polymerase (EC
2.7.7.6) II 215K chain [validated] - fruit fly
(Drosophila melanogaster) >gi|158332|gb|AAA28868.1|
(M27431) RNA polymerase II [Drosophila melanogaster]
Length = 1896
Score = 675 bits (1722), Expect = 0.0
Identities = 362/895 (40%), Positives = 540/895 (59%), Gaps = 51/895 (5%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ R
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVMKSRG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKP----T 163
+ K L ++ + + +C H G Y + T
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKENQQPDPNKKPGHGGCGHYQPSIRRTGLDLT 191
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ ++E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HQNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + +
Sbjct: 371 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL 430
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
+ G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFD
Sbjct: 431 HL-QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFD 489
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GDEMNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TR
Sbjct: 490 GDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITR 549
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E+V +LMF ++P+P + +PLW+GK IFSL++P ++ + R E E
Sbjct: 550 EQVMNLLMFLPTWDAKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM-IRTHSTHPDEEDE 607
Query: 584 ALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGV 643
K I D V +++G+L+ G + KK+ G G +L + E G
Sbjct: 608 GPYKWISPG-------------DTKVMVEHGELIMGILCKKSLGTSAGSLLHICFLELGH 654
Query: 644 ERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
+ A +F + T + W++ +G + GI D + + I++ I++A++ V +I+
Sbjct: 655 DIAGRFYGNIQTVINNWLL-FEGHSIGIGDTIADPQTYNEIQQAIKKAKDDVINVIQKAH 713
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
ELEP PG TL +T E+K+ +L +A D G A+K L N+ M +G++G +NI
Sbjct: 714 NMELEPTPGNTLRQTFENKVNRILNDAHDKTGGSAKKSLTEYNNLKAMVVSGSKGSNINI 773
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHAM
Sbjct: 774 SQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAM 833
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 834 GGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 888
>emb|CAB42800.1| (Y18876) largest subunit of the RNA polymerase II complex
[Drosophila subobscura]
>gi|9587179|gb|AAF89193.1|AF272643_1 (AF272643) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587181|gb|AAF89194.1|AF272644_1 (AF272644) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587183|gb|AAF89195.1|AF272645_1 (AF272645) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587185|gb|AAF89196.1|AF272646_1 (AF272646) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587187|gb|AAF89197.1|AF272647_1 (AF272647) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587189|gb|AAF89198.1|AF272648_1 (AF272648) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587191|gb|AAF89199.1|AF272649_1 (AF272649) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587193|gb|AAF89200.1|AF272650_1 (AF272650) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587195|gb|AAF89201.1|AF272651_1 (AF272651) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587197|gb|AAF89202.1|AF272652_1 (AF272652) RNA
polymerase II largest subunit [Drosophila subobscura]
>gi|9587199|gb|AAF89203.1|AF272653_1 (AF272653) RNA
polymerase II largest subunit [Drosophila subobscura]
Length = 1889
Score = 670 bits (1709), Expect = 0.0
Identities = 360/899 (40%), Positives = 538/899 (59%), Gaps = 59/899 (6%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ +
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVVKSKG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKPTI--- 164
+ K L ++ + + +C H G Y + +
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKDNQQPDPNKKPGHGGCGHYQPSIRRTGLDLS 191
Query: 165 -YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ +E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HPNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + +
Sbjct: 371 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL 430
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
+ G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFD
Sbjct: 431 HL-QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFD 489
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GDEMNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TR
Sbjct: 490 GDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITR 549
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E+V +LMF ++P+P + +PLW+GK IFSL++P ++ +
Sbjct: 550 EQVMNLLMFLPTWDGKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM-------------- 594
Query: 584 ALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
+ PD E+ + D V +++G L+ G + KK G G +L +
Sbjct: 595 ----IRTHSTHPDEEDDGPYKWISPGDTKVMVEHGDLIMGILCKKTLGTSAGSLLHICFL 650
Query: 640 EYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLI 698
E G E A +F + T + W++ +G + GI D + + I+ I++A++ V +I
Sbjct: 651 ELGHEIAGRFYGNIQTVINNWLLL-EGHSIGIGDTIADPQTYNEIQMAIKKAKDDVINVI 709
Query: 699 EAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGK 758
+ ELEP PG TL +T E+K+ +L +ARD G A+K L N+ M +G++G
Sbjct: 710 QKAHNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGS 769
Query: 759 ILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYF 818
+NI+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++
Sbjct: 770 NINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFY 829
Query: 819 FHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
FHAMGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 830 FHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 888
>emb|CAB42795.1| (Y18878) largest subunit of the RNA polymerase II complex
[Drosophila guanche]
Length = 1889
Score = 670 bits (1709), Expect = 0.0
Identities = 360/899 (40%), Positives = 538/899 (59%), Gaps = 59/899 (6%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ +
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVVKSKG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKPTI--- 164
+ K L ++ + + +C H G Y + +
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKDNQQPDPNKKPGHGGCGHYQPSIRRTGLDLS 191
Query: 165 -YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ +E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HPNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + +
Sbjct: 371 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL 430
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
+ G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFD
Sbjct: 431 HL-QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFD 489
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GDEMNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TR
Sbjct: 490 GDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITR 549
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E+V +LMF ++P+P + +PLW+GK IFSL++P ++ +
Sbjct: 550 EQVMNLLMFLPTWDGKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM-------------- 594
Query: 584 ALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
+ PD E+ + D V +++G L+ G + KK G G +L +
Sbjct: 595 ----IRTHSTHPDEEDDGPYKWISPGDTKVMVEHGDLIMGILCKKTLGTSAGSLLHICFL 650
Query: 640 EYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLI 698
E G E A +F + T + W++ +G + GI D + + I+ I++A++ V +I
Sbjct: 651 ELGHEIAGRFYGNIQTVINNWLLL-EGHSIGIGDTIADPQTYNEIQMAIKKAKDDVINVI 709
Query: 699 EAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGK 758
+ ELEP PG TL +T E+K+ +L +ARD G A+K L N+ M +G++G
Sbjct: 710 QKAHNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGS 769
Query: 759 ILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYF 818
+NI+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++
Sbjct: 770 NINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFY 829
Query: 819 FHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
FHAMGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 830 FHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 888
>emb|CAB42796.1| (Y18877) largest subunit of the RNA polymerase II complex
[Drosophila madeirensis]
Length = 1889
Score = 670 bits (1709), Expect = 0.0
Identities = 360/899 (40%), Positives = 538/899 (59%), Gaps = 59/899 (6%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ +
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVVKSKG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKPTI--- 164
+ K L ++ + + +C H G Y + +
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKDNQQPDPNKKPGHGGCGHYQPSIRRTGLDLS 191
Query: 165 -YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ +E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HPNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 370
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + +
Sbjct: 371 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDL 430
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
+ G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFD
Sbjct: 431 HL-QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFD 489
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GDEMNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TR
Sbjct: 490 GDEMNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITR 549
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E+V +LMF ++P+P + +PLW+GK IFSL++P ++ +
Sbjct: 550 EQVMNLLMFLPTWDGKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM-------------- 594
Query: 584 ALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
+ PD E+ + D V +++G L+ G + KK G G +L +
Sbjct: 595 ----IRTHSTHPDEEDDGPYKWISPGDTKVMVEHGDLIMGILCKKTLGTSAGSLLHICFL 650
Query: 640 EYGVERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLI 698
E G E A +F + T + W++ +G + GI D + + I+ I++A++ V +I
Sbjct: 651 ELGHEIAGRFYGNIQTVINNWLLL-EGHSIGIGDTIADPQTYNEIQMAIKKAKDDVINVI 709
Query: 699 EAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGK 758
+ ELEP PG TL +T E+K+ +L +ARD G A+K L N+ M +G++G
Sbjct: 710 QKAHNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGS 769
Query: 759 ILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYF 818
+NI+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++
Sbjct: 770 NINISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFY 829
Query: 819 FHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
FHAMGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 830 FHAMGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 888
>gi|5902062 polymerase (RNA) III (DNA directed) (155kD) [Homo sapiens]
>gi|3122765|sp|O14802|RPC1_HUMAN DNA-DIRECTED RNA
POLYMERASE III LARGEST SUBUNIT (RPC155)
>gi|2460208|gb|AAB86536.1| (AF021351) RNA polymerase III
largest subunit [Homo sapiens]
Length = 1391
Score = 656 bits (1674), Expect = 0.0
Identities = 387/923 (41%), Positives = 550/923 (58%), Gaps = 71/923 (7%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGY--PIEGGVMDKRMGVIDPGLRCE 61
V K I FG+ SP+E+R+ + ++V + Y D P+ GV+D RMG + CE
Sbjct: 11 VAKKTSHICFGMKSPEEMRQQAHIQVVSKNLYSQDNQHAPLLYGVLDHRMGTSEKDRPCE 70
Query: 62 TCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE 121
TCG +C GH+G+I+L P HVG+ + + IL+ C+ C I L+ EE ++++ L+
Sbjct: 71 TCGKNLADCLGHYGYIDLELPCFHVGYFRAVIGILQMICKTCCHIMLSQEEKKQFLDYLK 130
Query: 122 LAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK--------FEK---------PTI 164
+ + K+I K R++ +C HCGA +K EK P +
Sbjct: 131 RPGLTYLQKRGLKKKISDKCRKKNICHHCGAFNGTVKKCGLLKIIHEKYKTNKKVVDPIV 190
Query: 165 YWELRKDEQGNEY-----------KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
L+ E E+ + + P + + ++IP +D+PLL ++PE +P +
Sbjct: 191 SNFLQSFETAIEHNKEVEPLLGRAQENLNPLVVLNLFKRIPAEDVPLLLMNPEAGKPSDL 250
Query: 214 VLTVLPVPPVTARPSIT--LETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAP-QLIIED 270
+LT L VPP+ RPS+ L++G EDDLT KL +II +N+ +K++ +GA Q+I+ED
Sbjct: 251 ILTRLLVPPLCFRPSVVSDLKSGTN-EDDLTMKLTEIIFLNDVIKKHRISGAKTQMIMED 309
Query: 271 LWDLLQYHVTTYINNETSGVP----PAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNF 326
WD LQ YIN+E SG+P P K G QRLKGK+GRFRGNLSGKRV+F
Sbjct: 310 -WDFLQLQCALYINSELSGIPLNMAPKKWTRG-----FVQRLKGKQGRFRGNLSGKRVDF 363
Query: 327 SARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVID 386
S RTVISPDP + I+EV VP+ +A LT PEKV + NI LRK+V NGP+ +PGAN++
Sbjct: 364 SGRTVISPDPNLRIDEVAVPVHVAKILTFPEKVNKANINFLRKLVQNGPEVHPGANFIQQ 423
Query: 387 PEGRRIRIME-SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPY 445
+ R ++ NRE +A+ + G VERHL+DGD+VLFNRQPSLH++SIMAH RV P+
Sbjct: 424 RHTQMKRFLKYGNREKMAQELKYGDIVERHLIDGDVVLFNRQPSLHKLSIMAHLARVKPH 483
Query: 446 RTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQ 505
RTFR N VC PYNADFDGDEMNLH+PQTEEA+AEA +LM + ++++PR G P+I IQ
Sbjct: 484 RTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGEPLIAAIQ 543
Query: 506 DHISGGYLLTREGAYFTREEVEQML--MFAGVDIK---ELPEPDKYENGKP--LWSGKTI 558
D ++G YLLT + +F R + Q++ + G D K LP P KP LW+GK I
Sbjct: 544 DFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPTIL---KPVTLWTGKQI 600
Query: 559 FSLLL-PDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLL 617
FS++L P D D P R K ++ E++ A D +V IQN +L+
Sbjct: 601 FSVILRPSD----------DNPVRANLRTK--GKQYCGKGEDL--CANDSYVTIQNSELM 646
Query: 618 SGAIDKKAYGR-EDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLP 676
SG++DK G I +++R++G A + ++ +L ++++GF+ GI D
Sbjct: 647 SGSMDKGTLGSGSKNNIFYILLRDWGQNEAADAMSRLARLAPVYLSNRGFSIGIGDVTPG 706
Query: 677 EEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSI 736
+ E++ ++ + IEA G+L+ PG T EETLE+ I+ L+ RD+AGS
Sbjct: 707 QGLLKAKYELLNAGYKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSA 766
Query: 737 AEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDL 796
+ L N + MA G++G +NI+QM A +GQQ+I G R+ GF R L HF+
Sbjct: 767 CLRELDKSNSPLTMALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSLPHFEKHSK 826
Query: 797 GARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDY 856
AKGFV NS+ SGL+P E+FFH M GREGLVDTAV+TA++GYMQRRL+ +L+DL Y
Sbjct: 827 LPAAKGFVANSFYSGLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDLCSQY 886
Query: 857 DGTVRDPTGVIVQFRYGEDGVDP 879
D TVR TG I+QF YG DG+DP
Sbjct: 887 DLTVRSSTGDIIQFIYGGDGLDP 909
>gb|AAC18417.1| (U90211) RNA polymerase II largest subunit [Acanthamoeba
castellanii]
Length = 1569
Score = 653 bits (1667), Expect = 0.0
Identities = 359/863 (41%), Positives = 526/863 (60%), Gaps = 66/863 (7%)
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGH+ELA+PV ++GF T+ +IL S C C ++ L DE E L+ K+R +
Sbjct: 1 ECPGHFGHLELAKPVFNIGFLTTVLKILRSVCFHCSKL-LVDEAQE-----LKNVKHRFA 54
Query: 129 EVNKILK-------------------EIHKKARERMVCPHCGAPQYPIKFEKP--TIYWE 167
V + K K ++ + H G + K K I E
Sbjct: 55 RVYTLAKTKTICEGGEDTGTDKEQGDSTDPKEKKEVKKSHGGCGNFQPKITKDGMKIMAE 114
Query: 168 LRK--DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTA 225
+ D+ E K + ++ L+ I D+D +G P+ +RP+WM++T++P+PP
Sbjct: 115 FKNVGDDPNVEKKQLLTAEKVHAILKLISDEDCLAMGFDPKWARPDWMIITIMPIPPPPV 174
Query: 226 RPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINN 285
RPSIT+++ R EDDLTHKL DII+ N L++ GA II +LLQYH+ T+I+N
Sbjct: 175 RPSITMDSAARGEDDLTHKLADIIKANANLRKQEANGAAAHIISQFQELLQYHIATFIDN 234
Query: 286 ETSGVPPAKHKSG-RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
E G P A +SG R LK+L QRL+GKEGR RGNL GKRV+FSARTVI+ DP ISI+EVG
Sbjct: 235 EIPGFPQATVRSGSRALKSLKQRLRGKEGRIRGNLMGKRVDFSARTVITGDPNISIDEVG 294
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLAR 404
VP IA+ LT PE VT FNI+K+ +++ NGP ++PGA Y+I +G+R+ + + + +
Sbjct: 295 VPRSIALNLTYPELVTPFNIDKMYELIRNGPTEHPGAKYIIRDDGQRLDLRFARKASDLH 354
Query: 405 MIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
+ + G+ VERH+ DGD+++FNRQPSLH+MS+M H+V++MPY TFRLNL+V PYNADFDG
Sbjct: 355 L-EYGYKVERHIQDGDVIIFNRQPSLHKMSMMGHKVKIMPYSTFRLNLSVTTPYNADFDG 413
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
DEMN+HVPQT A+AE LM V I++ + P+IG +QD + GG LLT+ + ++
Sbjct: 414 DEMNMHVPQTPGARAEVIELMMVPKQIVTAQSNKPVIGIVQDTLLGGCLLTQRDTFIEKD 473
Query: 525 EVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEA 584
+ +LM+ +P P + K LW+GK +FSL++P +
Sbjct: 474 VMMNILMWLESWDGTVPTPTILK-PKQLWTGKQVFSLIIPRNTNF--------------- 517
Query: 585 LEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE 644
+ D EE D V I+ G+L+SG ++KK G ++ +I E+G E
Sbjct: 518 --------VNADDEEPDMSFTDNKVLIEEGELVSGILNKKTLGTSHKSLVHVIWNEHGSE 569
Query: 645 RARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
+ FL+QV + + + H GF+ G+ D EE +I + IR+A++ V++ ++G
Sbjct: 570 VCKHFLNQVQHVVNYWLLHHGFSVGVGDTIADEETLAKITQTIRKAKDEVKERQLEAQQG 629
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQ 764
+LE PG+T+ E+ E I +L +ARD+AG+ A+K L N+ M G++G +NI+Q
Sbjct: 630 QLERQPGRTMMESFEFVINQILNKARDDAGNSAQKSLRRSNNFKAMVIAGSKGSAINISQ 689
Query: 765 MAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGG 824
+ A +GQQ++ GKR+ FR R L HF D G ++GFV NSY GL+PQE+FFHAMGG
Sbjct: 690 VLACVGQQNVEGKRIPFCFRDRTLPHFVKDDFGPESRGFVENSYLRGLTPQEFFFHAMGG 749
Query: 825 REGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWG 884
REGL+DTAV+TA++GY+QRRL+ AL+D+ V YD TVR+ G ++QF YGEDG+D
Sbjct: 750 REGLIDTAVKTAETGYIQRRLVKALEDVMVKYDYTVRNSLGDVIQFLYGEDGMD------ 803
Query: 885 GKTVDVDRVIMRTLIKMRANNKG 907
G+TV+ + L ++ +N+G
Sbjct: 804 GQTVET-----QPLDALKMSNEG 821
>sp|O94666|RPC1_SCHPO DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
>gi|7492545|pir||T40607 probable dna-directed rna
polymerase iii largest subunit - fission yeast
(Schizosaccharomyces pombe) >gi|4467280|emb|CAB37604.1|
(AL035570) putative dna-directed rna polymerase iii
largest subunit [Schizosaccharomyces pombe]
Length = 1405
Score = 642 bits (1639), Expect = 0.0
Identities = 370/927 (39%), Positives = 539/927 (57%), Gaps = 56/927 (6%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYD-DDGYPIEGGVMDKRMGVIDPGLRCET 62
+ K I ++FGI P+E K VEV+ D Y D P E G +D MG + + C T
Sbjct: 9 IPKRIKHLQFGINGPEEFVKDGTVEVSRRDLYTMTDRSPAEHGALDLHMGTSNKQINCAT 68
Query: 63 CGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE- 121
CG +C GHFG+++LA PV H+G+ K IL++ C++C + L+D+E +++K L
Sbjct: 69 CGESMADCMGHFGYVKLALPVFHIGYFKATLTILQNICKDCSSVLLSDQEKRQFLKDLRR 128
Query: 122 --LAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI-----YWELRKDEQG 174
+ RRS++ K + + KK R C C A Q +K P + +RK +
Sbjct: 129 PGIDNLRRSQICKRINDHCKKMRR---CSKCDAMQGVVKKAGPLKIIHERFRYVRKSQDD 185
Query: 175 NE-YKHR---------------------MMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEW 212
E ++H + P ++ + ++I D LLG+ PE RPE
Sbjct: 186 EENFRHSFDEALKTIPELKMHLSKAHDDLNPLKVLNLFKQITPVDCELLGMDPEHGRPEN 245
Query: 213 MVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLW 272
++ +P PPV RPS+ E G EDDLT K+ +II ++ ++ + G P + + W
Sbjct: 246 LLWRYVPAPPVCIRPSVAQE-GATTEDDLTVKITEIIWTSSLIRAALSKGTPISNLMEQW 304
Query: 273 DLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 332
+ +Q + YIN+E G+ P+ S +P++ QRLKGK+GRFRGNLSGKRV+FS RTVI
Sbjct: 305 EFMQLSIAMYINSEMPGLRPSDMPS-KPIRGFCQRLKGKQGRFRGNLSGKRVDFSGRTVI 363
Query: 333 SPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI 392
SPDP + I++V VP +IA LT PE+VT N + L+ + NGPD +PGANYVID E
Sbjct: 364 SPDPNLRIDQVAVPYRIAKILTFPERVTTQNKKHLQDCIRNGPDVHPGANYVIDRESGFK 423
Query: 393 RIME-SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLN 451
R + NR +A + IG VERHL D D+VLFNRQPSLH++SIMAH V+V P+RT R N
Sbjct: 424 RFLRFGNRNRIADDLKIGDIVERHLHDNDVVLFNRQPSLHKLSIMAHLVKVRPWRTLRFN 483
Query: 452 LAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGG 511
VC PYNADFDGDEMNLHVPQTEEA+ EA LM ++N+++SPR G PII QD I+
Sbjct: 484 ECVCGPYNADFDGDEMNLHVPQTEEAKTEALELMGIKNNLVSPRNGEPIIAATQDFITAA 543
Query: 512 YLLTREGAYFTREEVEQM---LMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLT 568
YLL+ + + R+ + + +M A I +LP P + + LW+GK +F++L+
Sbjct: 544 YLLSLKDTFLDRKSISNICCYMMDASTHI-DLPPPAIIKP-RCLWTGKQVFTVLMKP--- 598
Query: 569 VWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYG- 627
N+ +A + PE K DG++ I+N ++++G +DK G
Sbjct: 599 ----NRFSKVLVNLDAKTRSFSRIKSKTPEMCPK---DGYLMIRNSEIIAGVVDKSVVGD 651
Query: 628 -REDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
++D + +I+R+YG A + + +++K+ + ++GF+ GI+D + + + +
Sbjct: 652 GKKDSLFY-VILRDYGALEAAEAITRLSKMCARFLGNRGFSIGIEDVQPGKSLSSQKEIL 710
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNH 746
+ +A I Y +G LE PG E TLE+KI + L++ RD+ G I LG N
Sbjct: 711 VNKAYATSDDFIMQYAKGILECQPGMDQEATLEAKISSTLSKVRDDVGEICMDELGPANS 770
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
+IMA G++G +N++QM A +GQQ I GKR+ GF+ R L HF AKGFV N
Sbjct: 771 PLIMATCGSKGSKINVSQMVACVGQQIISGKRVPDGFQDRSLPHFHKNSKHPLAKGFVSN 830
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ SGL+P E+ FHA+ GREGLVDTAV+TA++GYM RRL+ +L+DL YDGTVR
Sbjct: 831 SFYSGLTPTEFLFHAISGREGLVDTAVKTAETGYMSRRLMKSLEDLSSAYDGTVRSSNSD 890
Query: 867 IVQFRYGEDGVDPMKSWG-GKTVDVDR 892
+VQF YG+DG+DP G G+ V+ R
Sbjct: 891 VVQFVYGDDGLDPTYMEGDGQAVEFKR 917
>gi|6324690 RNA polymerase III large subunit; Rpo31p [Saccharomyces cerevisiae]
>gi|133356|sp|P04051|RPC1_YEAST DNA-DIRECTED RNA
POLYMERASE III LARGEST SUBUNIT (C160)
>gi|66978|pir||RNBY3L DNA-directed RNA polymerase (EC
2.7.7.6) III 160K chain - yeast (Saccharomyces
cerevisiae) >gi|4400|emb|CAA26905.1| (X03129) RNA
polymerase III largest subunit [Saccharomyces
cerevisiae] >gi|1050828|emb|CAA62123.1| (X90518) ORF
O3254 [Saccharomyces cerevisiae]
>gi|1164961|emb|CAA64036.1| (X94335) YOR3254c
[Saccharomyces cerevisiae] >gi|1420309|emb|CAA99314.1|
(Z75024) ORF YOR116c [Saccharomyces cerevisiae]
Length = 1460
Score = 638 bits (1627), Expect = 0.0
Identities = 371/937 (39%), Positives = 542/937 (57%), Gaps = 77/937 (8%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYD--DDGYPIEGGVMDKRMGVIDPGLRCETC 63
K I +EF LS +I S VEV+ D +D D P G +D +MGV L C TC
Sbjct: 11 KRIKGLEFSALSAADIVAQSEVEVSTRDLFDLEKDRAPKANGALDPKMGVSSSSLECATC 70
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
C GHFGH++LA PV H+G+ K +IL+ C+ C I L++ + +++ +L
Sbjct: 71 HGNLASCHGHFGHLKLALPVFHIGYFKATIQILQGICKNCSAILLSETDKRQFLHELRRP 130
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGA------------PQYPIKFEKPTIYWELRKD 171
ILK+I + +++ C HCGA +K T W +K
Sbjct: 131 GVDNLRRMGILKKILDQCKKQRRCLHCGALNGVVKKAAAGAGSAALKIIHDTFRWVGKKS 190
Query: 172 EQGNE------------------YKHRMM----PTEIRDRLEKIPDKDLPLLGLHPE--K 207
+ Y R M P + + ++I D LLG+
Sbjct: 191 APEKDIWVGEWKEVLAHNPELERYVKRCMDDLNPLKTLNLFKQIKSADCELLGIDATVPS 250
Query: 208 SRPEWMVLTVLPVPPVTARPSITLETGIRA-EDDLTHKLVDIIRINNRLKQNIEAGAPQL 266
RPE + LP PPV RPS+ ++ + EDDLT KL +I+ ++ +K ++ G
Sbjct: 251 GRPETYIWRYLPAPPVCIRPSVMMQDSPASNEDDLTVKLTEIVWTSSLIKAGLDKGISIN 310
Query: 267 IIEDLWDLLQYHVTTYINNETSG---VPPAKHKSGR--PLKTLAQRLKGKEGRFRGNLSG 321
+ + WD LQ V YIN+++ +P + + G+ P++ QRLKGK+GRFRGNLSG
Sbjct: 311 NMMEHWDYLQLTVAMYINSDSVNPAMLPGSSNGGGKVKPIRGFCQRLKGKQGRFRGNLSG 370
Query: 322 KRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGA 381
KRV+FS RTVISPDP +SI+EV VP ++A LT PEKVT +N KL+++++NGP+ +PGA
Sbjct: 371 KRVDFSGRTVISPDPNLSIDEVAVPDRVAKVLTYPEKVTRYNRHKLQELIVNGPNVHPGA 430
Query: 382 NYVIDP-EGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRV 440
NY++ E R + +R LA+ + IG VERHL DGD+VLFNRQPSLHR+SI++H
Sbjct: 431 NYLLKRNEDARRNLRYGDRMKLAKNLQIGDVVERHLEDGDVVLFNRQPSLHRLSILSHYA 490
Query: 441 RVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPI 500
++ P+RTFRLN VC PYNADFDGDEMNLHVPQTEEA+AEA LM V+N++++P+ G PI
Sbjct: 491 KIRPWRTFRLNECVCTPYNADFDGDEMNLHVPQTEEARAEAINLMGVKNNLLTPKSGEPI 550
Query: 501 IGGIQDHISGGYLLTREGAYFTREEVEQML--MFAGVDIKELPEPDKYENGKP--LWSGK 556
I QD I+G YL++ + +++ R + Q+L M G++ ++P P KP LW+GK
Sbjct: 551 IAATQDFITGSYLISHKDSFYDRATLTQLLSMMSDGIEHFDIPPPAIM---KPYYLWTGK 607
Query: 557 TIFSLLL------PDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVY 610
+FSLL+ P + + +NK+ P+ K +P+ DGFV
Sbjct: 608 QVFSLLIKPNHNSPVVINLDAKNKVFVPPK----------SKSLPNEMSQN----DGFVI 653
Query: 611 IQNGKLLSGAIDKKAYGREDG---IILDLIVREYGVERARQFLDQVTKLTIWVITHKGFT 667
I+ ++LSG +DK G DG + I+R+YG + A ++++ KL + ++GF+
Sbjct: 654 IRGSQILSGVMDKSVLG--DGKKHSVFYTILRDYGPQEAANAMNRMAKLCARFLGNRGFS 711
Query: 668 TGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLA 727
GI+D ++ + + +E++ A + +LI + +GELE PG E+TLE+KI +L+
Sbjct: 712 IGINDVTPADDLKQKKEELVEIAYHKCDELITLFNKGELETQPGCNEEQTLEAKIGGLLS 771
Query: 728 EARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRV 787
+ R+ G + L N +IMA G++G LN++QM A++GQQ I G R+ GF+ R
Sbjct: 772 KVREEVGDVCINELDNWNAPLIMATCGSKGSTLNVSQMVAVVGQQIISGNRVPDGFQDRS 831
Query: 788 LSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLIN 847
L HF ++KGFV NS+ SGLSP E+ FHA+ GREGLVDTAV+TA++GYM RRL+
Sbjct: 832 LPHFPKNSKTPQSKGFVRNSFFSGLSPPEFLFHAISGREGLVDTAVKTAETGYMSRRLMK 891
Query: 848 ALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWG 884
+L+DL YD TVR IVQF YG DG+DP++ G
Sbjct: 892 SLEDLSCQYDNTVRTSANGIVQFTYGGDGLDPLEMEG 928
>pir||T43217 RNA polymerase (EC 2.7.7.-) II, largest chain - Porphyra yezoensis
(fragment) >gi|3169691|gb|AAC17924.1| (U90208) RNA
polymerase II largest subunit [Porphyra yezoensis]
Length = 1685
Score = 621 bits (1584), Expect = e-176
Identities = 342/826 (41%), Positives = 487/826 (58%), Gaps = 38/826 (4%)
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLT---DEEIEEYMKKLELAKN 125
ECPGHFG IELA+P+ H GF ++L C C R+ +T D +++ +K + ++
Sbjct: 1 ECPGHFGFIELAKPMFHAGFMGMTLKLLRCVCYFCSRLLITKVDDPGVQKILKAVSKMES 60
Query: 126 RRSEVNKIL------KEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKD------EQ 173
R + + + K + ++ + CG Q K E I + D
Sbjct: 61 RAARLRIMSGLCTARKCLITESPDGGASTGCGHEQPKYKREGLKIRADFPDDGADVDGAP 120
Query: 174 GNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLET 233
NE K + ++ ++I D D L+GL +RPEW++LT+LPVPP R SI ++
Sbjct: 121 ANERKQNVSAEKVLSVFKRISDNDAELMGLSARWARPEWLILTLLPVPPPHVRTSIMMDA 180
Query: 234 GIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPA 293
R EDDLTH L I++ N L+ GAP + + LLQ+HV TY+NN+ G+P A
Sbjct: 181 TQRGEDDLTHNLAVIVKNNTALRNLEGHGAPAHRLAEQIFLLQFHVATYMNNDLPGMPRA 240
Query: 294 KHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMEL 353
KSGRPLK+++QRLKGKEGR RGNL GKRV+FSARTVI+PDP + +++VGVP IA L
Sbjct: 241 AQKSGRPLKSISQRLKGKEGRLRGNLMGKRVDFSARTVITPDPNLRLDQVGVPFSIAKNL 300
Query: 354 TVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIME-SNRENLARMIDIGWTV 412
T PE VT +NIE+++++V NGPD+YP A Y+ +G ++ + NR ++ ++IG+ V
Sbjct: 301 TFPETVTAYNIEEMQQLVENGPDEYPDAKYIQRDDGYQVNLAYVRNRADV--QLEIGYKV 358
Query: 413 ERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVP 472
RH+ +GD ++FNRQPSLH+MSIM HR++VMPY TFRLNL+V PYNADFDGDEMNLHVP
Sbjct: 359 VRHITNGDFIVFNRQPSLHKMSIMGHRIKVMPYSTFRLNLSVTSPYNADFDGDEMNLHVP 418
Query: 473 QTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMF 532
QT +AE LM V I+SP+ P++G +QD + G L T + R+ +L+
Sbjct: 419 QTHATRAEVMELMMVPRCIVSPQGNKPVMGIVQDTLLGCMLFTYRDTFLRRDVTMSLLLH 478
Query: 533 AGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEK 592
+P P + +PLW+GK +FSLLLPD V Y N
Sbjct: 479 VEGWDGVIPPPAIIKP-EPLWTGKQLFSLLLPDVNLVRYCNT------------------ 519
Query: 593 LMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQ 652
PD E D V I G+L++G +DK+ G ++ + +E G ER +
Sbjct: 520 -HPDDESTDISPGDTRVLIVGGELITGIVDKRTVGSAANGLIHVTWKEKGPERTCVLISA 578
Query: 653 VTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGK 712
+ L + +G + GI D ++ I A+ V +L + GEL LPGK
Sbjct: 579 IQVLVNHYVIMRGQSIGIGDTIADAHTDANVRATITGAQAEVTQLERRAQEGELTLLPGK 638
Query: 713 TLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQ 772
++ E+ E ++ VL ARD +GS A+ L N+ M G++G +NI+Q+ A +GQQ
Sbjct: 639 SMMESFEVEVNKVLNGARDTSGSSAQLSLLKSNNIKRMVSAGSKGSFINISQICACVGQQ 698
Query: 773 SIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTA 832
++ GKR+ GFR R L HF+ DLG ++GFV NSY GL P E+FFHAMGGREGL+DTA
Sbjct: 699 NVEGKRISYGFRRRTLPHFRMDDLGPESRGFVENSYLIGLRPSEFFFHAMGGREGLIDTA 758
Query: 833 VRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
V+TA++GY+QRRL+ A++D+ V YDGTVR+ ++QF YGEDG+D
Sbjct: 759 VKTAETGYIQRRLVKAMEDVMVKYDGTVRNSRSSVIQFLYGEDGLD 804
>pir||T34157 hypothetical protein C42D4.8 - Caenorhabditis elegans
>gi|1118158|gb|AAA83341.1| (U41991) coded for by C.
elegans cDNA yk1b8.5; coded for by C. elegans cDNA
yk34b10.5; coded for by C. elegans cDNA yk12b5.5; coded
for by C. elegans cDNA yk2e2.5; coded for by C. elegans
cDNA CEESM18R; coded for by C. elegans cDNA yk14f4.3;
coded for >
Length = 1388
Score = 621 bits (1583), Expect = e-176
Identities = 361/934 (38%), Positives = 531/934 (56%), Gaps = 70/934 (7%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDD-DG--YPIEGGVMDKRMGVIDPGLRCET 62
KV+G ++F + +R+ + V + Y+D +G P G +D +MGV C T
Sbjct: 14 KVVG-VKFAPGDCEFMRQTAHVPIFNNKLYEDVEGKLQPANYGPLDPKMGVSTKTGTCST 72
Query: 63 CGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
CG +C GHFG+ +L PV H+GF K ++L+ C+ C I LT E+ + +++
Sbjct: 73 CGLGLTDCVGHFGYFDLDVPVFHIGFFKLTIQLLQCICKNCSSILLTPEQHRVFSRQV-- 130
Query: 123 AKNRRSEVNKILKEIHKKARERMV---------CPHCGAPQYPIK----------FEKPT 163
+N L +H+KA + + C HCG +K F P
Sbjct: 131 -------MNPNLDYLHRKALHKRIVAACKKGSTCSHCGLKNGTVKKAVGAVLKIAFASPV 183
Query: 164 IYWELRK-------DEQGNEYKHRMM-----PTEIRDRLEKIPDKDLPLLGLHP-EKSRP 210
EL K +++ ++ +M P ++ I + D+P+L + E+ P
Sbjct: 184 SVDELGKFATMFSSNQEVGDHVRKMKFTLLNPLFVQKLFSNIKEGDIPVLMVRSGEEKHP 243
Query: 211 EWMVLTVLPVPPVTARPSITLETGI-RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIE 269
++LT +PVPPV RPS+ E EDD+T KL++I+ N+ LK++ GAP +
Sbjct: 244 NDLLLTRMPVPPVCIRPSVVSEVKAGTTEDDVTMKLMEIMLTNDVLKKHKRDGAPSKTLF 303
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
+ W+ LQ YIN+E SG+PP R ++ QRLKGK+GRFRGNL GKRV+FS R
Sbjct: 304 ETWEHLQIQCALYINSEMSGLPPDMQPK-RAMRAFTQRLKGKQGRFRGNLCGKRVDFSGR 362
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPE- 388
TVISPDP + I++VGVPI +AM LT PE V NIEK+R++V+NG D +PGANY+++ +
Sbjct: 363 TVISPDPNLRIDQVGVPIHVAMTLTFPEIVNASNIEKMRQLVINGSDVHPGANYLVEKKT 422
Query: 389 GRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTF 448
G + + R+ LA+ + +G T+ERHL D D+VLFNRQPSLH++SIM+HR +VMP RTF
Sbjct: 423 GNKKLLKYGKRDELAKNLRMGDTIERHLDDNDVVLFNRQPSLHKISIMSHRAKVMPGRTF 482
Query: 449 RLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHI 508
R N C PYNADFDGDEMNLH+PQT EA+AEA LM V+N++I+PR G P++ IQD I
Sbjct: 483 RFNECACTPYNADFDGDEMNLHLPQTYEAKAEASELMNVKNNLITPRSGEPLVAAIQDFI 542
Query: 509 SGGYLLTREGAYFTREEVEQMLMF-----AGVDIKELPEPDKYENGKPLWSGKTIFSLLL 563
+GGYLLT + + R EV + A K P LW+GK + L++
Sbjct: 543 TGGYLLTHKDTFLPRAEVYRFAAALIDASAKKQTKIRIPPPAIRRPVELWTGKQLIELII 602
Query: 564 PDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDK 623
P++ + + K + + D +V I+N LL+G +DK
Sbjct: 603 --------------RPDKGSDVSLNLTAKNKSYTGNLELCSKDSYVIIRNSVLLAGCLDK 648
Query: 624 KAYGREDGI-ILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDR 682
G + I +++R+YG + A + ++ ++ ++++GF+ GI D E+
Sbjct: 649 SLLGSSSKVNIFYMLMRDYGEDAAVDAMWRLARMAPVFLSNRGFSIGIGDVRPSEQLLRE 708
Query: 683 IKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLG 742
+++ + + I+ + G+L+ PG T EETLES I+ L+ RD+AG + + L
Sbjct: 709 KGQLVDNGYSKCSQYIKELEEGKLKAQPGCTEEETLESIILRELSTIRDHAGQVCLRNLS 768
Query: 743 MDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKG 802
N + MA G++G +NI+QM A +GQQ+I G R GF R L HF+ AKG
Sbjct: 769 KYNAPLTMAVCGSKGSFINISQMIACVGQQAISGHRPPDGFEERSLPHFERKKKTPEAKG 828
Query: 803 FVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRD 862
FV NS+ SGL+P E+FFH MGGREGLVDTAV+TA++GYMQRRL+ L+DL YDGTVR
Sbjct: 829 FVANSFYSGLTPTEFFFHTMGGREGLVDTAVKTAETGYMQRRLVKCLEDLCASYDGTVRS 888
Query: 863 PTGVIVQFRYGEDGVDP--MKSWGGKTVDVDRVI 894
G +++F +GEDG+DP M++ G VD V+
Sbjct: 889 SVGDVIEFVFGEDGLDPAMMEAKDGSVVDFTHVL 922
>pir||T43026 probable DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain
- Bonnemaisonia hamifera (fragment)
>gi|3172134|gb|AAC18416.1| (U90209) RNA polymerase II
largest subunit [Bonnemaisonia hamifera]
Length = 1732
Score = 619 bits (1578), Expect = e-176
Identities = 336/812 (41%), Positives = 485/812 (59%), Gaps = 28/812 (3%)
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGH+ELA+P+ ++GF +IL C C ++ + + + K+ +R
Sbjct: 1 ECPGHFGHVELAKPMFNIGFINISLKILRCVCHYCSKLLCSSASVA-ILHKITKPTDRMR 59
Query: 129 EVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRD 188
+ K C H F I+ + E+ E K + +
Sbjct: 60 TAMRFTSGAKKLCTAEGGCGHMQPKYSRDGFRIRAIFEDTA--EESAERKQTITAEKSYA 117
Query: 189 RLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDI 248
++I + + +GL SRPEW++LT+LPVPP RPS+ + G+R EDDLT+KL DI
Sbjct: 118 IFKRISNSECEAMGLSWRWSRPEWLILTLLPVPPPQVRPSV-MRGGLRNEDDLTNKLGDI 176
Query: 249 IRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSG-RPLKTLAQR 307
++ NN L+ GA I + DL+QYHV TY+NNE G+ PA + G R +K++ QR
Sbjct: 177 VKNNNTLRNLEATGAVAHAIREQIDLVQYHVATYMNNELPGIMPATVRGGSRAIKSIGQR 236
Query: 308 LKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKL 367
KGKEGR RGNL GKRV+FSARTVI+PDP + ++EVGVP IA LT PE VT +NI+++
Sbjct: 237 FKGKEGRVRGNLMGKRVDFSARTVITPDPNLRLHEVGVPFSIARNLTYPEIVTSYNIDEM 296
Query: 368 RKMVLNGPDKYPGANYVIDPEGRRIRIME-SNRENLARMIDIGWTVERHLLDGDIVLFNR 426
+K+V NGPD+YPGA Y+ +G ++ + NR L +++G+ V RH+ DGD VLFNR
Sbjct: 297 QKLVENGPDEYPGAKYIEREDGFKVNLAYVRNRSEL--QLELGYKVIRHIRDGDYVLFNR 354
Query: 427 QPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILME 486
QPSLH+MSIM HR+RV+PY TFRLNL+V PYNADFDGDEMNLHVPQT + +AE + LM
Sbjct: 355 QPSLHKMSIMGHRIRVLPYSTFRLNLSVTSPYNADFDGDEMNLHVPQTHQTRAEVQELML 414
Query: 487 VQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKY 546
V + I+SP+ P++G +QD + G L T+ + R+ + +LM G +P+P Y
Sbjct: 415 VPHCIVSPQGNKPVMGIVQDTLLGCMLFTQRDTFLERDLMMNLLMHVGDWDGVIPKPAIY 474
Query: 547 ENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYD 606
+ +PLW+GK +FSL+LP + + PD E+ D
Sbjct: 475 K-PRPLWTGKQVFSLILPPVNIIRF-------------------NITHPDDEKTDISPGD 514
Query: 607 GFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGF 666
VYI G+L+ G +DK+ G ++ + +E+G + + Q+ L I +
Sbjct: 515 TKVYISRGQLICGIVDKRTVGSSANGLIHITWKEFGPKITDTLISQIQVLVNHYILQRRQ 574
Query: 667 TTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVL 726
+ GI D + + + I+ A+E V+ L+ + EL LPGK + E+ E+++ VL
Sbjct: 575 SIGIGDTIADDATMRNVIDTIQGAKEEVKLLVRKAQEKELVLLPGKGMMESFETEVNKVL 634
Query: 727 AEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGR 786
ARD +G+ A++ L N+ M G++G +NI+Q+ A +GQQ++ GKR+ GF R
Sbjct: 635 NGARDKSGASAQRSLLKSNNIKRMVSAGSKGSFINISQICACVGQQNVEGKRIAYGFHRR 694
Query: 787 VLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLI 846
L HF DLG ++GFV NSY GL+P E+FFHAMGGREGL+DTAV+TA++GY+QRRLI
Sbjct: 695 TLPHFVLDDLGPESRGFVENSYLRGLTPSEFFFHAMGGREGLIDTAVKTAETGYIQRRLI 754
Query: 847 NALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
A++D+ V YDGTVR+ IV+F YGED +D
Sbjct: 755 KAMEDIMVRYDGTVRNSCNHIVEFLYGEDSMD 786
>pir||T31670 DNA-directed RNA polymerase (EC 2.7.7.6) II largest chain -
Mastigamoeba invertens (fragment)
>gi|3511287|gb|AAC62246.1| (AF083338) DNA-dependent RNA
polymerase II largest subunit [Mastigamoeba invertens]
Length = 1690
Score = 617 bits (1575), Expect = e-175
Identities = 340/817 (41%), Positives = 505/817 (61%), Gaps = 23/817 (2%)
Query: 70 CPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSE 129
CPGHFGH+ LA+ V H+ + +T+ R+L+ C C R+ L D +I +L R +E
Sbjct: 1 CPGHFGHVTLAKAVYHLAYIRTVCRVLQCVCMNCSRL-LVDRKISA-STRLRNGAVRLNE 58
Query: 130 VNKILKEIH-------KKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMM 182
V+K+ + K ++ CGA Q + K +I + +D G E
Sbjct: 59 VSKMCLQYKTCGECAVKTENAQVTRTGCGARQPLWRVSKLSIT-RVPRDSSGGELPEVQD 117
Query: 183 PTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLT 242
E+ L+ I D+D L+GL+P +RPEWM++T+LPVPP+T RPSI + RAEDDLT
Sbjct: 118 SEEVVRILKNISDEDCVLIGLNPRFARPEWMMITLLPVPPMTVRPSIAFGSVGRAEDDLT 177
Query: 243 HKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLK 302
+L I++ N ++++ GA + I+D D+LQ +V + +N + AK+ RP+K
Sbjct: 178 KQLSTIVKNNAQIRKLKLDGAAPINIQDTLDVLQINVACFFDNSVPSLEKAKN-GNRPIK 236
Query: 303 TLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEF 362
+L++RL+GKEGR RG L GKRV+FSAR+VI+PDP +++NE+GVP +A LTVPE V+
Sbjct: 237 SLSERLRGKEGRVRGQLMGKRVDFSARSVITPDPTLALNELGVPRTVASNLTVPEMVSPL 296
Query: 363 NIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIV 422
NI +L +V NGP YPGA YVI +G RI + ++R ++ I G+ +ERHL+DGD V
Sbjct: 297 NIHRLAALVRNGPGTYPGAKYVIRDDGARIAL--TSRGDMP--IVPGYIIERHLMDGDHV 352
Query: 423 LFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEAR 482
+FNRQPSLH+MS+M H+VRV+PY +FRLNL+V PYNADFDGDEMN+HVP + EA +E +
Sbjct: 353 VFNRQPSLHKMSMMGHQVRVLPYSSFRLNLSVTTPYNADFDGDEMNMHVPNSLEAISEVK 412
Query: 483 ILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPE 542
LM V I++P+ P +G +QD + G L++R + T + + + + D ++P+
Sbjct: 413 NLMAVPFQIVTPQKNSPCMGVVQDSLLGCSLISRRDTFLTEDVMMNLALVISYDPDKIPQ 472
Query: 543 PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
P KPLW+GK FS+LLP DL+ Y+ K C E + + ++ EE
Sbjct: 473 P-AILRPKPLWTGKQAFSMLLPKDLS--YKGK-CGFYFNAE---QSVSREVAAAQEEYMN 525
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYGRE-DGIILDLIVREYGVERARQFLDQVTKLTIWVI 661
D V I+ G+L +G I KA G+ G I+ ++ ++ G AR FL +V LT I
Sbjct: 526 SLLDSVVRIKKGQLHTGVITNKAVGKSGQGSIIHILWKDQGPMAARDFLSRVQLLTNAYI 585
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
+GF+ G +D + +K I A+ V+ I+ + G L+ G++L E+ E+K
Sbjct: 586 LTRGFSVGTEDTLADPDTLQAVKAEIEGAKRNVKIHIDDARAGRLKVQAGRSLVESFEAK 645
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
L +A NAG + L DN+ +M ++G++G +NI Q+ ++GQQ++ GKR+
Sbjct: 646 TNKSLQDALSNAGKKSLSSLKYDNNFKLMIESGSKGSEMNICQITGMVGQQNVEGKRIAF 705
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
GF+ R L HF+ D A+GFV NSY SGLSPQE+FFH MGGREGL+DTAV+T++SGY+
Sbjct: 706 GFQRRTLPHFRKDDYEPEARGFVENSYVSGLSPQEFFFHMMGGREGLIDTAVKTSESGYI 765
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
QR+L+ +++D+ V YD TVR+ G+I+QF YGEDG+D
Sbjct: 766 QRKLMKSMEDISVKYDTTVRNAAGMILQFAYGEDGID 802
>pir||A64430 DNA-directed RNA polymerase (EC 2.7.7.6) subunit A'
(intein-containing) - Methanococcus jannaschii
Length = 1345
Score = 616 bits (1572), Expect = e-175
Identities = 297/489 (60%), Positives = 379/489 (76%), Gaps = 13/489 (2%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ K IG I FG+LSP IR+MS ++ PDTYD+DGYPI+GG+MD R+GVIDPGL C+TC
Sbjct: 10 IPKEIGEIMFGLLSPDYIRQMSVAKIVTPDTYDEDGYPIDGGLMDTRLGVIDPGLVCKTC 69
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
G + GECPGHFGHIELA+PVIH+GFAKTI++IL++ C CGR+ +++ + +E ++K+E
Sbjct: 70 GGRIGECPGHFGHIELAKPVIHIGFAKTIYKILKAVCPHCGRVAISETKRKEILEKMEKL 129
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +E++K+A + +CPHCG +Y IKFEKPT Y+ + GNE K + P
Sbjct: 130 ERDGGNKWEVCEEVYKEASKVTICPHCGEIKYDIKFEKPTTYYRI----DGNEEK-TLTP 184
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+++R+ LEKIPD+D LLGL+PE +RPEWMVLTVLPVPPVT RPSITLETG R+EDDLTH
Sbjct: 185 SDVREILEKIPDEDCILLGLNPEVARPEWMVLTVLPVPPVTVRPSITLETGERSEDDLTH 244
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIRINNRL++NIE GAP LIIEDLW+LLQYHV TY +NE G+PPAKH+SGRPLKT
Sbjct: 245 KLVDIIRINNRLEENIEGGAPNLIIEDLWNLLQYHVNTYFDNEAPGIPPAKHRSGRPLKT 304
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFR NL+GKRVNFS+RTVISPDP +SINEVGVP +A ELTVPEKVT++N
Sbjct: 305 LAQRLKGKEGRFRYNLAGKRVNFSSRTVISPDPCLSINEVGVPEVVAKELTVPEKVTKYN 364
Query: 364 IEKLRKMVLNGPDKYPGANYVI--------DPEGRRIRIMESNRENLARMIDIGWTVERH 415
IE++R+++ NG +K+PG NYVI + +++I ESN++ A I G VERH
Sbjct: 365 IERIRQLLRNGSEKHPGVNYVIRKMIGRDGTEQEYKVKITESNKDFWAENIREGDIVERH 424
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L+DGDIVL+NRQPSLHRMSIMAHRVRV+PYRTFR NL VC + D + + E
Sbjct: 425 LMDGDIVLYNRQPSLHRMSIMAHRVRVLPYRTFRHNLCVCVDGDTTVLLDGKLIKIKDLE 484
Query: 476 EAQAEARIL 484
+ + ++L
Sbjct: 485 DKWKDVKVL 493
Score = 544 bits (1386), Expect = e-153
Identities = 274/450 (60%), Positives = 340/450 (74%), Gaps = 21/450 (4%)
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
CPPYNADFDGDEMNLHVPQ+EEA+AEA LM V+ HI+SPR+GGPIIG I D ISG YLL
Sbjct: 916 CPPYNADFDGDEMNLHVPQSEEARAEAEALMLVEKHILSPRFGGPIIGAIHDFISGAYLL 975
Query: 515 TREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNK 574
T YFT++E +L G+ EL EPDK ENG PL+SGK IFS LP L + Y+ K
Sbjct: 976 TSN--YFTKDEATLILRSGGIK-DELWEPDKVENGVPLYSGKKIFSKALPKGLNLRYKAK 1032
Query: 575 LCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIIL 634
+C +C+ +K + YD +V I++G+L+ G IDK YG E G+IL
Sbjct: 1033 IC---RKCDVCKK-------------EECEYDAYVVIKDGELIKGVIDKNGYGAEAGLIL 1076
Query: 635 DLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERV 694
IV+E+G E R+FLD TK+ I + +GFTTGIDDEDLPEEA I++++ EAEE+V
Sbjct: 1077 HTIVKEFGPEAGRKFLDSATKMAIRAVMLRGFTTGIDDEDLPEEALKEIEKVLDEAEEKV 1136
Query: 695 QKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTG 754
+++IE Y+RGELE LPG LEE+ E+ I VL EARD AG+IAE+YLG+DNH VIMA TG
Sbjct: 1137 KEIIEKYERGELELLPGLNLEESREAYISNVLREARDKAGAIAERYLGLDNHAVIMAVTG 1196
Query: 755 ARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSP 814
ARG ILN+TQMAA LGQQS+RGKR++RG+RGRVL HF+ GDLGAR+ GFV +SYK GLSP
Sbjct: 1197 ARGNILNLTQMAACLGQQSVRGKRIFRGYRGRVLPHFEKGDLGARSHGFVRSSYKKGLSP 1256
Query: 815 QEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGE 874
E+FFHAMGGREGLVD AVRTAQSGYMQRRLINALQDLK ++DGTVRD G+++QF+YGE
Sbjct: 1257 TEFFFHAMGGREGLVDQAVRTAQSGYMQRRLINALQDLKTEFDGTVRDSRGIMIQFKYGE 1316
Query: 875 DGVDPMKSWGGKTVDVDRVIMRTLIKMRAN 904
DG+DPM + GK V++DR+I + +KM+ N
Sbjct: 1317 DGIDPMLADRGKAVNIDRIIDK--VKMKYN 1344
>sp|Q58445|RPA1_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|2826359|gb|AAB99046.1|
(U67547) DNA-directed RNA polymerase, subunit A' (rpoA1)
[Methanococcus jannaschii]
Length = 1341
Score = 616 bits (1572), Expect = e-175
Identities = 297/489 (60%), Positives = 379/489 (76%), Gaps = 13/489 (2%)
Query: 4 VKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETC 63
+ K IG I FG+LSP IR+MS ++ PDTYD+DGYPI+GG+MD R+GVIDPGL C+TC
Sbjct: 6 IPKEIGEIMFGLLSPDYIRQMSVAKIVTPDTYDEDGYPIDGGLMDTRLGVIDPGLVCKTC 65
Query: 64 GAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELA 123
G + GECPGHFGHIELA+PVIH+GFAKTI++IL++ C CGR+ +++ + +E ++K+E
Sbjct: 66 GGRIGECPGHFGHIELAKPVIHIGFAKTIYKILKAVCPHCGRVAISETKRKEILEKMEKL 125
Query: 124 KNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +E++K+A + +CPHCG +Y IKFEKPT Y+ + GNE K + P
Sbjct: 126 ERDGGNKWEVCEEVYKEASKVTICPHCGEIKYDIKFEKPTTYYRI----DGNEEK-TLTP 180
Query: 184 TEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTH 243
+++R+ LEKIPD+D LLGL+PE +RPEWMVLTVLPVPPVT RPSITLETG R+EDDLTH
Sbjct: 181 SDVREILEKIPDEDCILLGLNPEVARPEWMVLTVLPVPPVTVRPSITLETGERSEDDLTH 240
Query: 244 KLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT 303
KLVDIIRINNRL++NIE GAP LIIEDLW+LLQYHV TY +NE G+PPAKH+SGRPLKT
Sbjct: 241 KLVDIIRINNRLEENIEGGAPNLIIEDLWNLLQYHVNTYFDNEAPGIPPAKHRSGRPLKT 300
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
LAQRLKGKEGRFR NL+GKRVNFS+RTVISPDP +SINEVGVP +A ELTVPEKVT++N
Sbjct: 301 LAQRLKGKEGRFRYNLAGKRVNFSSRTVISPDPCLSINEVGVPEVVAKELTVPEKVTKYN 360
Query: 364 IEKLRKMVLNGPDKYPGANYVI--------DPEGRRIRIMESNRENLARMIDIGWTVERH 415
IE++R+++ NG +K+PG NYVI + +++I ESN++ A I G VERH
Sbjct: 361 IERIRQLLRNGSEKHPGVNYVIRKMIGRDGTEQEYKVKITESNKDFWAENIREGDIVERH 420
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L+DGDIVL+NRQPSLHRMSIMAHRVRV+PYRTFR NL VC + D + + E
Sbjct: 421 LMDGDIVLYNRQPSLHRMSIMAHRVRVLPYRTFRHNLCVCVDGDTTVLLDGKLIKIKDLE 480
Query: 476 EAQAEARIL 484
+ + ++L
Sbjct: 481 DKWKDVKVL 489
Score = 544 bits (1386), Expect = e-153
Identities = 274/450 (60%), Positives = 340/450 (74%), Gaps = 21/450 (4%)
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
CPPYNADFDGDEMNLHVPQ+EEA+AEA LM V+ HI+SPR+GGPIIG I D ISG YLL
Sbjct: 912 CPPYNADFDGDEMNLHVPQSEEARAEAEALMLVEKHILSPRFGGPIIGAIHDFISGAYLL 971
Query: 515 TREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNK 574
T YFT++E +L G+ EL EPDK ENG PL+SGK IFS LP L + Y+ K
Sbjct: 972 TSN--YFTKDEATLILRSGGIK-DELWEPDKVENGVPLYSGKKIFSKALPKGLNLRYKAK 1028
Query: 575 LCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIIL 634
+C +C+ +K + YD +V I++G+L+ G IDK YG E G+IL
Sbjct: 1029 IC---RKCDVCKK-------------EECEYDAYVVIKDGELIKGVIDKNGYGAEAGLIL 1072
Query: 635 DLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERV 694
IV+E+G E R+FLD TK+ I + +GFTTGIDDEDLPEEA I++++ EAEE+V
Sbjct: 1073 HTIVKEFGPEAGRKFLDSATKMAIRAVMLRGFTTGIDDEDLPEEALKEIEKVLDEAEEKV 1132
Query: 695 QKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTG 754
+++IE Y+RGELE LPG LEE+ E+ I VL EARD AG+IAE+YLG+DNH VIMA TG
Sbjct: 1133 KEIIEKYERGELELLPGLNLEESREAYISNVLREARDKAGAIAERYLGLDNHAVIMAVTG 1192
Query: 755 ARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSP 814
ARG ILN+TQMAA LGQQS+RGKR++RG+RGRVL HF+ GDLGAR+ GFV +SYK GLSP
Sbjct: 1193 ARGNILNLTQMAACLGQQSVRGKRIFRGYRGRVLPHFEKGDLGARSHGFVRSSYKKGLSP 1252
Query: 815 QEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGE 874
E+FFHAMGGREGLVD AVRTAQSGYMQRRLINALQDLK ++DGTVRD G+++QF+YGE
Sbjct: 1253 TEFFFHAMGGREGLVDQAVRTAQSGYMQRRLINALQDLKTEFDGTVRDSRGIMIQFKYGE 1312
Query: 875 DGVDPMKSWGGKTVDVDRVIMRTLIKMRAN 904
DG+DPM + GK V++DR+I + +KM+ N
Sbjct: 1313 DGIDPMLADRGKAVNIDRIIDK--VKMKYN 1340
>emb|CAB42797.1| (Y18879) largest subunit of the RNA polymerase II complex
[Drosophila pseudoobscura]
Length = 1811
Score = 614 bits (1565), Expect = e-174
Identities = 328/836 (39%), Positives = 499/836 (59%), Gaps = 56/836 (6%)
Query: 72 GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEVN 131
GHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ + +
Sbjct: 1 GHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVVKSKGQPR 56
Query: 132 KILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKPTI----YW 166
K L ++ + + +C H G Y + + W
Sbjct: 57 KRLAYVYDLCKGKTICEGGEDMDLTKDNQQPDPNKKPGHGGCGHYQPSIRRTGLDLSAEW 116
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ +E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+ R
Sbjct: 117 K-HPNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPLAVR 175
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
P++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T ++N+
Sbjct: 176 PAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLVDND 235
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G+P A KSG+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++VGVP
Sbjct: 236 MPGMPRAMQKSGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVP 295
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + + +
Sbjct: 296 RSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERIDLRFHPKSSDLHL- 354
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
G+ VERHL D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+ PYNADFDGDE
Sbjct: 355 QCGYKVERHLRDDDLVIFNRQPTLHKMSMMGHRVKVLPWSTFRMNLSCTSPYNADFDGDE 414
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEV 526
MNLHVPQ+ E +AE + II+P+ P++G +QD ++ +T+ + TRE+V
Sbjct: 415 MNLHVPQSMETRAEVENIHITPRQIITPQANKPVMGIVQDTLTAVRKMTKRDVFITREQV 474
Query: 527 EQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALE 586
+LMF ++P+P + +PLW+GK IFSL++P ++ +
Sbjct: 475 MNLLMFLPTWDGKMPQPCILKP-RPLWTGKQIFSLIIPGNVNM----------------- 516
Query: 587 KLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYG 642
+ PD E+ + D V +++G L+ G + KK G G +L + E G
Sbjct: 517 -IRTHSTHPDEEDDGPYKWISPGDTKVMVEHGDLIMGILCKKTLGTSAGSLLHICFLELG 575
Query: 643 VERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAY 701
E A +F + T + W++ +G + GI D + + I+ I++A++ V +I+
Sbjct: 576 HEIAGRFYGNIQTVINNWLLL-EGHSIGIGDTIADPQTYNEIQMAIKKAKDDVINVIQKA 634
Query: 702 KRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILN 761
ELEP PG TL +T E+K+ +L +ARD G A+K L N+ M +G++G +N
Sbjct: 635 HNMELEPTPGNTLRQTFENKVNRILNDARDKTGGSAKKSLTEYNNLKAMVVSGSKGSNIN 694
Query: 762 ITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHA 821
I+Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHA
Sbjct: 695 ISQVIACVGQQNVEGKRIPYGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHA 754
Query: 822 MGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
MGGREGL+DTAV+TA++GY+QRRLI A++ + V+YDGTVR+ G ++Q RYGEDG+
Sbjct: 755 MGGREGLIDTAVKTAETGYIQRRLIKAMESVMVNYDGTVRNSVGQLIQLRYGEDGL 810
>gb|AAA50227.1| (U10336) RNA polymerase II, largest subunit [Helobdella stagnalis]
Length = 1337
Score = 610 bits (1557), Expect = e-173
Identities = 334/819 (40%), Positives = 502/819 (60%), Gaps = 33/819 (4%)
Query: 76 HIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE--EIEEYMKKLE-LAKNRRSEVNK 132
HIEL++PV HV F I +IL C C ++ + ++++ + K + K R+ V
Sbjct: 1 HIELSKPVFHVPFFTKIIKILRCVCYYCSKLLIDPNHPKVKDILNKTKNQMKRRQGFVYD 60
Query: 133 ILK--------EIHKKARER-----MVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKH 179
+ K EI KK + V CG Q I+ + E ++ N+ K
Sbjct: 61 LCKVKTSCGGGEIDKKDDDNDPDNIKVQVGCGRHQPKIRRNLLELTAEWKQINDDNQEKK 120
Query: 180 RMMPTE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAE 238
++ E + + + I D+ +LG+ P+ +RP+W++ T+LPVPP+ RP++ + + +
Sbjct: 121 MILTAERVLEIFKAITDETCTILGMDPKYARPDWLIATMLPVPPLPVRPAVVMFGSAKNQ 180
Query: 239 DDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSG 298
DDLTHKL DII+INN+LK+N GA I+ + +LQ+HV T I+NE G+P A KSG
Sbjct: 181 DDLTHKLADIIKINNQLKRNEMNGAAAHILAEDTKMLQFHVATMIDNEMPGLPRATQKSG 240
Query: 299 RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEK 358
RPLK++ QRLKGKEGR RGNL GKRV+FSARTVI+PDPM+ I++VGVP IA LT PE
Sbjct: 241 RPLKSIKQRLKGKEGRIRGNLMGKRVDFSARTVITPDPMLRIDQVGVPRSIAQNLTFPEI 300
Query: 359 VTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLD 418
VT FNIE+L ++V G ++YPGA +++ G RI + + ++ + G+ VERH+ D
Sbjct: 301 VTPFNIERLTELVKRGANQYPGAKFILRETGDRIDL-RYHPKSTDLHLQFGYRVERHMQD 359
Query: 419 GDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQ 478
D V+FNRQP+LH+MS+M HRV+++P+ TFRLNL+V PYNADFDGDEMNLH+ Q+ E +
Sbjct: 360 NDYVIFNRQPTLHKMSMMCHRVKILPWSTFRLNLSVTTPYNADFDGDEMNLHLAQSLETR 419
Query: 479 AEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIK 538
AE L V+ II+P+ P++G +QD ++ +TR + T++E+ +LM+
Sbjct: 420 AEISQLASVKRMIITPQANRPVMGIVQDSLTAVNKMTRRDTFITKDEIMNILMYLPGWAG 479
Query: 539 ELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPE 598
+LP+P + + LW+GK +FS+++P + V + + E ++ + + P
Sbjct: 480 KLPQPAILKP-RALWTGKQLFSIIIPGRINVIRTHSTHPDDE-----DRGPHKWISPG-- 531
Query: 599 EVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTI 658
D V +++GKLLSG + KK+ G G + +I E G + F + +T
Sbjct: 532 -------DTKVLVEDGKLLSGILCKKSLGASSGSLQHIIHHELGSDATADFYAYIQMVTN 584
Query: 659 WVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETL 718
+ G T GI D + I+ I++A+ V ++IE ELEP+PG TL +T
Sbjct: 585 HWLLVTGHTIGIADTIADAKTYSDIQTAIKKAKSDVVEVIEKAHNDELEPMPGNTLRQTF 644
Query: 719 ESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKR 778
E+++ +L +ARD GS+A+K L N+ M G++G +NI+Q+ A +GQQ++ GKR
Sbjct: 645 ENQVNRILNDARDKTGSLAQKSLSEFNNFKSMVVAGSKGNKINISQVIACVGQQNVEGKR 704
Query: 779 LYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQS 838
+ GFR R L HF D G ++GFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA++
Sbjct: 705 IPFGFRQRTLPHFIKDDYGPESRGFVENSYLAGLTPTEFFFHAMGGREGLIDTAVKTAET 764
Query: 839 GYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GY+QRRLI A++ + V YDGTVR+ ++Q RYGEDG+
Sbjct: 765 GYIQRRLIKAMESVMVKYDGTVRNQIEQLIQLRYGEDGL 803
>gb|AAA50225.1| (U10334) RNA polymerase II, largest subunit [Crassostrea gigas]
Length = 1340
Score = 605 bits (1543), Expect = e-172
Identities = 335/831 (40%), Positives = 492/831 (58%), Gaps = 51/831 (6%)
Query: 76 HIELARPVIHVGFAKTIHRILESTCRECGRIKL--TDEEIEEYMKKLELAKNRRSEVNKI 133
HIELA+PV H+GF +IL C C ++ + T+ +I+E + K + +R
Sbjct: 1 HIELAKPVFHIGFLVKTIKILRCVCFFCSKLLVDPTNPKIKEILSKSKAYPRKR------ 54
Query: 134 LKEIHKKARERMVCP----------------------HCGAPQYPIKFEKPTIY----WE 167
L ++ + R VC H G +Y K ++ + W+
Sbjct: 55 LVAVYDLCKSRKVCEGGDEMDNAKLGEETQEGDQKKGHGGCGRYQPKIKRTGLELIAEWK 114
Query: 168 LRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARP 227
+E E K + + + ++I D + +LG+ SRP+WM++TV+PVPP+ RP
Sbjct: 115 -DTNEDSQEKKIVLTADRVHEIFKRISDDECQVLGMDHRYSRPDWMIVTVMPVPPLAVRP 173
Query: 228 SITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNET 287
++ + R +DDLTHKL DII+ NN+L++N + GA II + +LQYHV T+ +NE
Sbjct: 174 AVVMFGSARNQDDLTHKLADIIKANNQLRRNEQNGAASHIISEDMKMLQYHVATFTDNEL 233
Query: 288 SGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPI 347
G+P A KSGRPLK++ QRLKGKEGR RGNL GKRV+FSARTVI+PDP + I++VGVP
Sbjct: 234 PGLPKAVQKSGRPLKSVKQRLKGKEGRVRGNLMGKRVDFSARTVITPDPNLRIDQVGVPR 293
Query: 348 QIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMID 407
IA +T PE VT FNI++++++V G ++YPGA Y+I G RI + + + +
Sbjct: 294 SIAQNMTFPELVTPFNIDRMQELVRRGANQYPGAKYIIRDNGERIDLRFHPKASDLH-LQ 352
Query: 408 IGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEM 467
IG+ VERH+ D D ++FNRQP+LH+MS+M H+V+V+P+ TFRLNL+V PYNADFDGDEM
Sbjct: 353 IGYKVERHMQDNDYIVFNRQPTLHKMSMMCHKVKVLPWSTFRLNLSVTTPYNADFDGDEM 412
Query: 468 NLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVE 527
NLH+PQ+ E +AE L V II+P+ P++G +QD ++ +T+ + R +V
Sbjct: 413 NLHLPQSLETKAEISNLALVPRMIITPQANRPVMGIVQDTLTAVRKMTKRDVFLDRGQVM 472
Query: 528 QMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEK 587
+LMF +P+P KPLW+GK +FSL++P T R E + K
Sbjct: 473 NLLMFLPRWDGHVPQP-AILKPKPLWTGKQLFSLVIP-GRTNCIRTHSTHPDEEDKGPYK 530
Query: 588 LIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERAR 647
I D V I++G L+SG + KK G G + ++ EYG A
Sbjct: 531 WISPG-------------DTKVLIEDGMLISGILCKKTLGTSSGSLAHVVFMEYGWVIAG 577
Query: 648 QFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELE 707
+ + L + +G + GI D + I++ I++A+ V ++IE +LE
Sbjct: 578 EMYGHIQTLVNNWLLLEGHSIGIGDTIADPQTYIDIQDTIKKAKHDVIEVIEKAHNDDLE 637
Query: 708 PLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAA 767
P PG TL +T E+ + +L +ARD GS A+K L N+ M G++G +NI+Q+ A
Sbjct: 638 PTPGNTLRQTFENMVNRILNDARDKTGSKAQKSLSDYNNFKAMVVAGSKGSKINISQVIA 697
Query: 768 LLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREG 827
+GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHAMGGREG
Sbjct: 698 CVGQQNVEGKRIPFGFRHRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAMGGREG 757
Query: 828 LVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
L+DTAV+TA++GY+QRRLI A++ + V YDGTVR+ +VQ RYGEDG+D
Sbjct: 758 LIDTAVKTAETGYIQRRLIKAMESVMVKYDGTVRNQVEQLVQLRYGEDGLD 808
>gb|AAC14137.1| (AF058710) RNA polymerase II largest subunit [Dictyostelium
discoideum]
Length = 757
Score = 605 bits (1543), Expect = e-172
Identities = 330/782 (42%), Positives = 478/782 (60%), Gaps = 49/782 (6%)
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHIELA+PV H+GF T+ +IL C C ++ LTD + + L++ +N++
Sbjct: 1 ECPGHFGHIELAKPVFHIGFIDTVLKILRCVCYHCSKL-LTDTNEHSFRQALKI-RNQKH 58
Query: 129 EVNKIL---------------KEIH--KKARERMVCP----HCGAPQYPIKFEKPTIYWE 167
+N ++ +E H K E + P CG I E I E
Sbjct: 59 RLNAVVDCCKNKKVCAIGGEEEEEHDLSKTDEELDKPVKHGGCGNVLPKITKEDLKIIVE 118
Query: 168 LRKDEQGNEYKHRMMPTE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ G+ K ++ E + + L++I D+D +G++P+ +R +WM+ TVLPVPP R
Sbjct: 119 FKDVTDGSIEKKSVLSAERVLNILKRIKDEDSRAMGINPDWARADWMIATVLPVPPPPVR 178
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
PSI ++T R EDDLTHKL DI++ N L++ + GAP II + LQ+HV TY++NE
Sbjct: 179 PSIMMDTSTRGEDDLTHKLADIVKANRELQRQEKNGAPAHIIAEAIQFLQFHVATYVDNE 238
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G+P A+ +SGRPLK++ QRLKGKEGR RGNL GKRV+FSARTVI+ DP +SI++VGVP
Sbjct: 239 IPGLPQAQQRSGRPLKSIRQRLKGKEGRIRGNLMGKRVDFSARTVITADPNLSIDQVGVP 298
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
IA+ LT PE VT FNI+K+R+++ NGP ++PGA Y+I +G R + + + +
Sbjct: 299 RSIALNLTYPETVTPFNIDKMRELIRNGPSEHPGAKYIIREDGTRFDLRFVKKVSDTH-L 357
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
+ G+ VERH+ DGD+V+FNRQPSLH+MS+M HR++VMPY TFRLNL+V PYNADFDGDE
Sbjct: 358 ECGYKVERHINDGDVVIFNRQPSLHKMSMMGHRIKVMPYSTFRLNLSVTSPYNADFDGDE 417
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEV 526
MNLHVPQT E +AE +M V I+SP+ P++G +QD + G L T+ + ++ V
Sbjct: 418 MNLHVPQTLETRAEVIEIMMVPRQIVSPQSNRPVMGIVQDTLLGSRLFTKRDCFMEKDLV 477
Query: 527 EQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCD-EPERCEAL 585
+LM+ ++P P K LW+GK +FSL++PD + + + D +P C
Sbjct: 478 MNILMWLPSWDGKVP-PPAILKPKQLWTGKQLFSLIIPDINLIRFTSTHNDKKPNECS-- 534
Query: 586 EKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVER 645
A D V I+ +LL+G + K++ G +G I+ +++ E+G +
Sbjct: 535 ------------------AGDTRVIIERSELLAGILCKRSLGAANGSIIHVVMNEHGHDT 576
Query: 646 ARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
R F+DQ T + W+I ++GFT GI D ++ I A+ +V++LI +
Sbjct: 577 CRLFIDQTQTVVNHWLI-NRGFTMGIGDTIADSATMAKVTLTISSAKNQVKELIIKAQNK 635
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQ 764
+ E PGK++ ET E K+ VL +ARD AGS A+ L DN+ M G++G +NI+Q
Sbjct: 636 QFECQPGKSVIETFEQKVNQVLNKARDTAGSSAQDSLSEDNNLKAMVTAGSKGSFINISQ 695
Query: 765 MAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGG 824
M A +GQQ++ GKR+ GF+ R L HF D G ++GFV NSY GL+PQE+FFHAMGG
Sbjct: 696 MMACVGQQNVEGKRIPFGFQSRTLPHFTKDDYGPESRGFVENSYLRGLTPQEFFFHAMGG 755
Query: 825 RE 826
RE
Sbjct: 756 RE 757
>gb|AAA50229.1| (U10338) RNA polymerase II, largest subunit [Ilyanassa obsoleta]
Length = 1343
Score = 599 bits (1529), Expect = e-170
Identities = 334/837 (39%), Positives = 493/837 (57%), Gaps = 60/837 (7%)
Query: 76 HIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILK 135
HIELA+PV HV F +I+ C C ++ L D E K ++ + K L
Sbjct: 1 HIELAKPVFHVAFLVKTIKIMRCVCFFCSKL-LVDPESN---KMKDILGKSKGYPQKRLA 56
Query: 136 EIHKKARERMVCP-------------------------HCGAPQYPIKFEKPTIY----W 166
++ + R VC H G +Y K + + W
Sbjct: 57 HVYDLCKTRKVCDGGDEMDKKNQDPTAGESTEENAPKGHGGCGRYQPKLRRTGLEIVAEW 116
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ +E+ E K + + + ++I D++ +LG+ P +RP+WM+LTV PVPP+ R
Sbjct: 117 K-NINEESQERKMIVSAERVLEIFKRISDEESLMLGMDPRFARPDWMILTVFPVPPLPVR 175
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
P++ + R +DDLTHKL DI++ NN+L++N + GA II + +LQYH +T ++NE
Sbjct: 176 PAVVMFGSARNQDDLTHKLADIVKANNQLRRNEQNGAAAHIIFEDSKMLQYHCSTLVDNE 235
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G+P A KSGRPLK++ QRLKGKEGR RGNL KRV+FS RTVI+PDP + +++VGVP
Sbjct: 236 MPGLPRAVQKSGRPLKSVKQRLKGKEGRVRGNLMDKRVDFSGRTVITPDPNLRVDQVGVP 295
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
IA LT PE VT FNI+ +++ V G + YPGA Y+I G RI + + + +
Sbjct: 296 RSIAHNLTFPELVTPFNIDVMQERVRRGANVYPGAKYIIRDNGERIDLRFHPKASDLHL- 354
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
IG+ VERH+ D D+V+FNRQP+LH+MS+M HRV+V+P+ TFR+NL+V PYNADFDGDE
Sbjct: 355 QIGYKVERHMQDNDVVIFNRQPTLHKMSMMCHRVKVLPWSTFRMNLSVTTPYNADFDGDE 414
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEV 526
MNLH+PQ+ E +AE L V II+P+ P++G +QD ++ +T+ + TR ++
Sbjct: 415 MNLHLPQSLETRAEIMNLCAVPRMIITPQANRPVMGIVQDTLTAVRKMTKRDVFLTRAQM 474
Query: 527 EQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALE 586
+LMF +P+P + +PLW+GK IFSL++P + V
Sbjct: 475 MHLLMFLPTWDGRMPQPAIIKP-EPLWTGKQIFSLVIPGRVNV----------------- 516
Query: 587 KLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYG 642
+ PD E+ + D V I++G+L+SG + KK G G ++ ++ E G
Sbjct: 517 -IRTHSTHPDGEDSGPYKWISPGDTKVLIEDGELISGILCKKTLGTSAGSLVHIVFLEMG 575
Query: 643 VERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAY 701
E A + + T + W++ +G + GI D ++ I+E IR+A+ V ++IE
Sbjct: 576 FEVAGELYGNIQTVVNNWLLI-EGHSIGIGDTIADQQTYHEIQETIRKAKADVIEVIEKA 634
Query: 702 KRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILN 761
ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M G++G +N
Sbjct: 635 HNDELEPTPGNTLRQTFENQVNRILNDARDKTGSKAQKSLSEFNNFKAMVVAGSKGSKIN 694
Query: 762 ITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHA 821
I+Q+ A +GQQ+ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHA
Sbjct: 695 ISQVIACVGQQNAEGKRIPFGFRYRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHA 754
Query: 822 MGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
MGGREGL+DTAV+TA++GY+QRRLI A++ + V YDGTVR+ +VQ YGEDG+D
Sbjct: 755 MGGREGLIDTAVKTAETGYIQRRLIKAMESVMVKYDGTVRNQVEQLVQLGYGEDGLD 811
>pir||T43260 RNA polymerase (EC 2.7.7.-) II - Trichomonas vaginalis
>gi|1143740|gb|AAB50025.1| (U20501) RNA polymerase II
[Trichomonas vaginalis]
Length = 1661
Score = 598 bits (1524), Expect = e-169
Identities = 346/912 (37%), Positives = 511/912 (55%), Gaps = 72/912 (7%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
++GSI+FG+ P++I A E+T D Y ++GG+ D RMG C+TCG
Sbjct: 13 LVGSIDFGLFDPEKIEMFGACEITENQMMDKGEY-VKGGLSDLRMGTQTRERLCDTCGRN 71
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRI--KLTDEEIEEYMKKLELAK 124
+CPGHFG+I LA P HVGF +++L+ C +CGR+ +D EI +Y+ K
Sbjct: 72 QEDCPGHFGYIRLAEPFFHVGFLPHCYKLLQMVCHKCGRVLCSYSDPEI-QYIVTHYKGK 130
Query: 125 NRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI-----YWELRKD-------- 171
NR LK K A + C H + P +P + +WEL
Sbjct: 131 NR------FLKLFEKIASKSGKCQHSPDLKNP---NEPDVCLDERFWELVNGDSHSEHVR 181
Query: 172 ------------EQGNEYKHRM----------MPTEIRDRL-EKIPDKDLPLLGLHPEKS 208
EQG ++ ++ + E+ R+ E I D+D+ LLG +P++S
Sbjct: 182 VKKPCNAAVPAIEQGKDFLIKLKDVSKTEEDYLSAEVVLRIFENISDQDVRLLGFNPKRS 241
Query: 209 RPEWMVLTVLPVPPVTARPSITLE-TGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLI 267
P+WM+L +LPVPP+ RP + ++DD+THKL DII N RL+ +
Sbjct: 242 HPKWMILKILPVPPLAVRPQVVSPGQSAPSQDDITHKLSDIIICNKRLRAQRSESSTDTA 301
Query: 268 IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
+++ LLQYH+TTY+ N+ + A KSGRPLK ++QRLKGKEG RG+LSGKR ++S
Sbjct: 302 MKETRTLLQYHITTYMINDKPSIERAVTKSGRPLKVISQRLKGKEGHLRGHLSGKRDDYS 361
Query: 328 ARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDP 387
AR+VISPD ISI++VGVP Q+A LT PE VT N + L +V+ G D GAN+VI+
Sbjct: 362 ARSVISPDTSISIDQVGVPEQLAKILTFPEVVTPTNQKWLESIVMKGHDDLGGANFVIND 421
Query: 388 EGRRIRIMESNRENLARM-IDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYR 446
G R + S +L+ + + G+ VERHL D DIV+FNRQPSLH+MS+M HR +M R
Sbjct: 422 HGTRTDL--SCCTDLSTITLSPGYIVERHLRDDDIVIFNRQPSLHKMSMMGHRALIMSGR 479
Query: 447 TFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQD 506
TFRLN PYNADFDGDEMNLHVPQ++ A+ E R +M V IISP+ P+IG +QD
Sbjct: 480 TFRLNPCDTTPYNADFDGDEMNLHVPQSQTARTEVRHIMAVPKQIISPQANKPVIGLVQD 539
Query: 507 HISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDD 566
+ G LL++ + TR +V ++M+ + P LWSGK +FSL LP
Sbjct: 540 ALLGCRLLSKRDTFLTRNQVMNLMMWLPTTKDTILPPPCILKPVQLWSGKQVFSLFLP-- 597
Query: 567 LTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY 626
K+ +A +++ +P D V I++G LL+G + KK
Sbjct: 598 -------KISHNSYSQDA--NKMDQNSIP--------LADRHVIIRDGNLLAGILGKKTV 640
Query: 627 GREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
R +G ++ +++ Y A+ FL+Q + + H+GF+ G+ D +P+ +K
Sbjct: 641 ARSEGSLIHVVINSYNTNIAKDFLNQTQLIVNNWLEHRGFSIGLIDCVVPDFVLQEVKHE 700
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNH 746
I + E +VQ I + G+LE +PG + ++ E+++ + E + + DN
Sbjct: 701 IDDVESKVQATIIKAQDGQLERMPGMSYMQSFETEVNNLTNEILSKTYKVINAKIRGDNS 760
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
M G++G N++Q+ ++GQQ++ GKR+ GF GR L HF+ + G +GF N
Sbjct: 761 LSEMLSAGSKGADTNMSQIIGVVGQQNMEGKRVKFGFNGRTLPHFQKHEYGLVERGFCKN 820
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
SY +GL+P E+ FHAMGGR G++DTA +T+ +GY+QRRL+ +++ V YDGTVR+
Sbjct: 821 SYIAGLTPPEFLFHAMGGRTGIIDTACKTSDTGYIQRRLVKSMESHHVAYDGTVRNSQNE 880
Query: 867 IVQFRYGEDGVD 878
IVQF YG DG+D
Sbjct: 881 IVQFIYGGDGLD 892
>dbj|BAA96933.1| (AB019231) DNA-directed RNA polymerase II largest chain
[Arabidopsis thaliana]
Length = 1383
Score = 593 bits (1513), Expect = e-168
Identities = 358/928 (38%), Positives = 524/928 (55%), Gaps = 60/928 (6%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
I SI F +LS E+ K + V+V YD P E G++D RMG + C TC
Sbjct: 23 IKSINFSVLSDLEVMKAAEVQVWNIGLYDHSFKPYENGLLDPRMGPPNKKSICTTCEGNF 82
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRR 127
CPGH+G+++L PV +VG+ I IL+ C+ C + L ++ E++++K+ +
Sbjct: 83 QNCPGHYGYLKLDLPVYNVGYFNFILDILKCICKRCSNMLLDEKLYEDHLRKMRNPRMEP 142
Query: 128 SEVNKILKEIHKK----ARERMV-CPHCG---------APQYPIKFE------------- 160
+ ++ K + KK A +R++ C CG A Q+ I
Sbjct: 143 LKKTELAKAVVKKCSTMASQRIITCKKCGYLNGMVKKIAAQFGIGISHDRSKIHGGEIDE 202
Query: 161 -KPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLP 219
K I + N + + P + +++ DKD LL + RPE +++T +
Sbjct: 203 CKSAISHTKQSTAAINPLTYVLDPNLVLGLFKRMSDKDCELLYI---AYRPENLIITCML 259
Query: 220 VPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHV 279
VPP++ RPS+ + E+DLT +L II N L + + +WD +Q V
Sbjct: 260 VPPLSIRPSVMIGGIQSNENDLTARLKQIILGNASLHKILSQPTSSPKNMQVWDTVQIEV 319
Query: 280 TTYINNETSGV--PPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPM 337
YIN+E G P +H PL + QRLKGK GRFR NLSGKRV F+ RTVISPDP
Sbjct: 320 ARYINSEVRGCQNQPEEH----PLSGILQRLKGKGGRFRANLSGKRVEFTGRTVISPDPN 375
Query: 338 ISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMES 397
+ I EVG+PI +A LT PE V+ NIEKLR+ V NGP+KYPGA V P+G ++
Sbjct: 376 LKITEVGIPILMAQILTFPECVSRHNIEKLRQCVRNGPNKYPGARNVRYPDGSSRTLVGD 435
Query: 398 NRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPP 457
R+ +A + IG V+RHL +GD+VLFNRQPSLHRMSIM HR R+MP+RT R N +VC P
Sbjct: 436 YRKRIADELAIGCIVDRHLQEGDVVLFNRQPSLHRMSIMCHRARIMPWRTLRFNESVCNP 495
Query: 458 YNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE 517
YNADFDGDEMN+HVPQTEEA+ EA LM VQN++ +P+ G ++ QD ++ +L+TR+
Sbjct: 496 YNADFDGDEMNMHVPQTEEARTEAITLMGVQNNLCTPKNGEILVASTQDFLTSSFLITRK 555
Query: 518 GAYFTREEVEQMLMFA--GVDIKELPEPDKYENGKP--LWSGKTIFSLLLPDDLTVWYRN 573
++ R + + G+D +LP P KP LW+GK IFS+LL + ++
Sbjct: 556 DTFYDRAAFSLICSYMGDGMDSIDLPTPTIL---KPIELWTGKQIFSVLLRPNASIRVYV 612
Query: 574 KLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY--GREDG 631
L + + + E +E + + DG+VY +N +L+SG + K G +DG
Sbjct: 613 TLNVKEKNFKKGEHGFDETMCIN---------DGWVYFRNSELISGQLGKATLGNGNKDG 663
Query: 632 IILDLIVREYGVERARQFLDQVTKLTI-WVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
+ +++R+Y A ++++ KL+ W+ H GF+ GIDD EE K+ I+
Sbjct: 664 -LYSILLRDYNSHAAAVCMNRLAKLSARWIGIH-GFSIGIDDVQPGEELSKERKDSIQFG 721
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIM 750
++ + IE + RG L+ G ++LE++I +L R+ G L N +IM
Sbjct: 722 YDQCHRKIEEFNRGNLQLKAGLDGAKSLEAEITGILNTIREATGKACMSGLHWRNSPLIM 781
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
++ G++G +NI+QM A +GQQ++ G R GF R L HF AKGFV NS+ S
Sbjct: 782 SQCGSKGSPINISQMVACVGQQTVNGHRAPDGFIDRSLPHFPRMSKSPAAKGFVANSFYS 841
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+ E+FFH MGGREGLVDTAV+TA +GYM RRL+ AL+DL V YD TVR+ +G I+QF
Sbjct: 842 GLTATEFFFHTMGGREGLVDTAVKTASTGYMSRRLMKALEDLLVHYDNTVRNASGCILQF 901
Query: 871 RYGEDGVDP--MKSWGGKTVDVDRVIMR 896
YG+DG+DP M+ G ++ +R+ ++
Sbjct: 902 TYGDDGMDPALMEGKDGAPLNFNRLFLK 929
>gb|AAC83397.1| (U10331) RNA polymerase II, largest subunit [Artemia salina]
Length = 1341
Score = 586 bits (1494), Expect = e-166
Identities = 323/834 (38%), Positives = 485/834 (57%), Gaps = 58/834 (6%)
Query: 76 HIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILK 135
HIELA+PV HVGF +I+ C C ++ ++ K E+ + + K L
Sbjct: 1 HIELAKPVFHVGFLTKTIKIIRCVCFYCSKLLVSPNN----PKIKEVILKTKGQPRKRLA 56
Query: 136 EIHKKARERMVCP-----------------------HCGAPQYPIKFEKP----TIYWEL 168
I+ + + +C H G +Y K + T W+
Sbjct: 57 AIYDLCKGKNICEGGDEMDMARDQEDLSLSQAKKVGHGGCGRYQPKIRRIGLDLTAEWK- 115
Query: 169 RKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPS 228
+E E K + + + + I D++ +LG+ P+ +RP+WM+LTV+PVPP+ RP+
Sbjct: 116 HVNEDSQERKLTLTAERVHEIFKHISDEECHILGMDPKFARPDWMILTVIPVPPLNVRPT 175
Query: 229 ITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETS 288
+ + + DDLT+KL DII+ NN L +N E+GA II + +LQ+HV T ++N+
Sbjct: 176 VIMFGSAKGHDDLTYKLGDIIKANNELIRNEESGAAAHIIHENIRMLQFHVATMVDNDMP 235
Query: 289 GVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQ 348
G+ A KSGRP+K++ RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++VGVP
Sbjct: 236 GLQRAMQKSGRPVKSIKSRLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQVGVPRS 295
Query: 349 IAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDI 408
IA LT PE VT N KL ++V G +YPGA Y+I G RI + + + +
Sbjct: 296 IAQNLTFPEMVTPLNHAKLTELVQRGNSQYPGAKYIIRENGERIDL-RYHPKTTDLHLQF 354
Query: 409 GWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMN 468
G+ VERH+ DGD+V+FNRQP+LH+MS+M HRVRV+P+ TFR+NL+ PYNADFDGDEMN
Sbjct: 355 GYKVERHIRDGDLVIFNRQPTLHKMSMMGHRVRVLPWSTFRMNLSCTTPYNADFDGDEMN 414
Query: 469 LHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQ 528
LHV Q+ E +AE + II+P+ P++G +QD + +T+ + +E++
Sbjct: 415 LHVAQSLETRAELENIHITPRQIITPQANRPVMGIVQDTLCAVRKMTKRDVFLEKEQMMT 474
Query: 529 MLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKL 588
+LM+ +LP+P + KPLW+GK +F+L++P + + +
Sbjct: 475 LLMYLPTWDGKLPQPAILKP-KPLWTGKQLFTLIIPGKVNM------------------M 515
Query: 589 IEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE 644
PD E+ + D V +++G+L+ G + KK G G IL +I E G +
Sbjct: 516 KTHSTHPDDEDDGPYKWISPGDTKVMVEHGELIMGILCKKTLGASAGSILHIIFLELGHD 575
Query: 645 RARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKR 703
+F + T + W++ ++G + GI D + + I+ I++A+E V +I
Sbjct: 576 ICGKFYGNIQTVVNNWLL-YEGHSIGIGDTIADPQTYNSIQTTIKKAKEDVIDVITKAHN 634
Query: 704 GELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNIT 763
ELEP PG TL +T E+++ +L +ARD G A+ L N+ M +G++G +NI+
Sbjct: 635 NELEPTPGNTLRQTFENQVNRILNDARDKTGGSAKNSLTEYNNLKAMVVSGSKGSNINIS 694
Query: 764 QMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMG 823
Q+ A +GQQ++ GKR+ GFR R L HF D G ++GFV NSY +GL+P E++FHAMG
Sbjct: 695 QVIACVGQQNVEGKRIPFGFRKRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFYFHAMG 754
Query: 824 GREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GREGL+DTAV+TA++GY+QRRLI A++ V YDGTVR+ G ++Q RYGEDG+
Sbjct: 755 GREGLIDTAVKTAETGYIQRRLIKAMEACMVAYDGTVRNSVGQVIQLRYGEDGL 808
>pir||B31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIB - Trypanosoma brucei
Length = 1765
Score = 578 bits (1475), Expect = e-164
Identities = 335/906 (36%), Positives = 504/906 (54%), Gaps = 65/906 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ ++F I ++I+ + V +Y+ G P+ GG+ D RMG D CETC K
Sbjct: 17 VNEVQFEIFKERQIKSYAVCLVEHAKSYER-GRPVRGGINDLRMGTTDFEFACETCHRKH 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE--LAKN 125
ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KKL+ N
Sbjct: 76 PECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKKLQHMTGLN 134
Query: 126 RRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQYPI-KFEK- 161
R +V K+ + + + M CGA Q + +F
Sbjct: 135 RLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQPRVSRFYGI 194
Query: 162 -PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
PT+ + +EQ E+ ++R L+++ D D L+G P++ P +VLTVLPV
Sbjct: 195 YPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRDLVLTVLPV 250
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
PP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+ LLQ HV
Sbjct: 251 PPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSRALLQEHVA 308
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI+ DP I +
Sbjct: 309 TYFNNASTHYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDV 368
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+EVGVP +AM LT PE+V N ++L + YP ANY+ P G I + R+
Sbjct: 369 DEVGVPFSVAMTLTFPERVNTINKKRLTEFARR--TVYPSANYIHHPNGT-ITKLALLRD 425
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL+ PYNA
Sbjct: 426 RSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNA 485
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y LT + +
Sbjct: 486 DFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTF 545
Query: 521 FTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
+ V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 546 LDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP---------------- 586
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVRE 640
E + P P D V I+ G+LL G I K G G ++ +I E
Sbjct: 587 --EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGSLIHVIFNE 638
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
+G + +F++ V ++T + + + GF+ G+ D + ++ +++ + V+K+ A
Sbjct: 639 HGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRRNVEKIGAA 698
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKIL 760
L G TL ++ E+ + + L + R+ A A + N +M + G++G L
Sbjct: 699 ANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIEAGSKGTDL 758
Query: 761 NITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFH 820
NI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL P E+FFH
Sbjct: 759 NICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGLKPHEFFFH 818
Query: 821 AMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF YGEDG+D
Sbjct: 819 TMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMYGEDGLDGA 878
Query: 881 KSWGGK 886
+ GG+
Sbjct: 879 RIEGGQ 884
>gb|AAA30232.1| (J04841) RNA polymerase IIB largest subunit [Trypanosoma brucei]
Length = 1765
Score = 578 bits (1475), Expect = e-164
Identities = 335/906 (36%), Positives = 504/906 (54%), Gaps = 65/906 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ ++F I ++I+ + V +Y+ G P+ GG+ D RMG D CETC K
Sbjct: 17 VNEVQFEIFKERQIKSYAVCLVEHAKSYER-GRPVRGGINDLRMGTTDFEFACETCHRKH 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE--LAKN 125
ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KKL+ N
Sbjct: 76 PECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKKLQHMTGLN 134
Query: 126 RRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQYPI-KFEK- 161
R +V K+ + + + M CGA Q + +F
Sbjct: 135 RLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQPRVSRFYGI 194
Query: 162 -PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
PT+ + +EQ E+ ++R L+++ D D L+G P++ P +VLTVLPV
Sbjct: 195 YPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRDLVLTVLPV 250
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
PP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+ LLQ HV
Sbjct: 251 PPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSRALLQEHVA 308
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI+ DP I +
Sbjct: 309 TYFNNASTHYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDV 368
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+EVGVP +AM LT PE+V N ++L + YP ANY+ P G I + R+
Sbjct: 369 DEVGVPFSVAMTLTFPERVNTINKKRLTEFARR--TVYPSANYIHHPNGT-ITKLALLRD 425
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL+ PYNA
Sbjct: 426 RSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNA 485
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y LT + +
Sbjct: 486 DFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTF 545
Query: 521 FTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
+ V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 546 LDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP---------------- 586
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVRE 640
E + P P D V I+ G+LL G I K G G ++ +I E
Sbjct: 587 --EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGSLIHVIFNE 638
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
+G + +F++ V ++T + + + GF+ G+ D + ++ +++ + V+K+ A
Sbjct: 639 HGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRRNVEKIGAA 698
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKIL 760
L G TL ++ E+ + + L + R+ A A + N +M + G++G L
Sbjct: 699 ANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIEAGSKGTDL 758
Query: 761 NITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFH 820
NI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL P E+FFH
Sbjct: 759 NICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGLKPHEFFFH 818
Query: 821 AMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF YGEDG+D
Sbjct: 819 TMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMYGEDGLDGA 878
Query: 881 KSWGGK 886
+ GG+
Sbjct: 879 RIEGGQ 884
>gb|AAA30229.1| (J03157) RNA polymerase IIA largest subunit [Trypanosoma brucei]
Length = 1765
Score = 578 bits (1473), Expect = e-163
Identities = 335/906 (36%), Positives = 504/906 (54%), Gaps = 65/906 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ ++F I ++I+ + V +Y+ G P+ GG+ D RMG D CETC K
Sbjct: 17 VNEVQFEIFKERQIKSYAVCLVEHAKSYER-GRPVRGGINDLRMGTTDFEFACETCHRKH 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE--LAKN 125
ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KKL+ N
Sbjct: 76 PECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKKLQHMTGLN 134
Query: 126 RRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQYPI-KFEK- 161
R +V K+ + + + M CGA Q + +F
Sbjct: 135 RLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQPRVSRFYGI 194
Query: 162 -PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
PT+ + +EQ E+ ++R L+++ D D L+G P++ P +VLTVLPV
Sbjct: 195 YPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRDLVLTVLPV 250
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
PP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+ LLQ HV
Sbjct: 251 PPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSRALLQEHVA 308
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI+ DP I +
Sbjct: 309 TYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDV 368
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+EVGVP +AM LT PE+V N ++L + YP ANY+ P G I + R+
Sbjct: 369 DEVGVPFSVAMTLTFPERVNTVNKKRLTEFARR--TVYPSANYIHHPNGT-ITKLALLRD 425
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL+ PYNA
Sbjct: 426 RSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNA 485
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y LT + +
Sbjct: 486 DFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTF 545
Query: 521 FTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
+ V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 546 LDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP---------------- 586
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVRE 640
E + P P D V I+ G+LL G I K G G ++ +I E
Sbjct: 587 --EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGSLIHVIFNE 638
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
+G + +F++ V ++T + + + GF+ G+ D + ++ +++ + V+K+ A
Sbjct: 639 HGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRRNVEKIGAA 698
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKIL 760
L G TL ++ E+ + + L + R+ A A + N +M + G++G L
Sbjct: 699 ANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIEAGSKGTDL 758
Query: 761 NITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFH 820
NI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL P E+FFH
Sbjct: 759 NICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGLKPHEFFFH 818
Query: 821 AMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF YGEDG+D
Sbjct: 819 TMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMYGEDGLDGA 878
Query: 881 KSWGGK 886
+ GG+
Sbjct: 879 RIEGGQ 884
>pir||A31494 DNA-directed RNA polymerase (EC 2.7.7.6) IIA - Trypanosoma brucei
Length = 1765
Score = 578 bits (1473), Expect = e-163
Identities = 335/906 (36%), Positives = 504/906 (54%), Gaps = 65/906 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ ++F I ++I+ + V +Y+ G P+ GG+ D RMG D CETC K
Sbjct: 17 VNEVQFEIFKERQIKSYAVCLVEHAKSYER-GRPVRGGINDLRMGTTDFEFACETCHRKH 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE--LAKN 125
ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KKL+ N
Sbjct: 76 PECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKKLQHMTGLN 134
Query: 126 RRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQYPI-KFEK- 161
R +V K+ + + + M CGA Q + +F
Sbjct: 135 RLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQPRVSRFYGI 194
Query: 162 -PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
PT+ + +EQ E+ ++R L+++ D D L+G P++ P +VLTVLPV
Sbjct: 195 YPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRDLVLTVLPV 250
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
PP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+ LLQ HV
Sbjct: 251 PPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSRALLQEHVA 308
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI+ DP I +
Sbjct: 309 TYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDV 368
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+EVGVP +AM LT PE+V N ++L + YP ANY+ P G I + R+
Sbjct: 369 DEVGVPFSVAMTLTFPERVNTVNKKRLTEFARR--TVYPSANYIHHPNGT-ITKLALLRD 425
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL+ PYNA
Sbjct: 426 RSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNA 485
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y LT + +
Sbjct: 486 DFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTF 545
Query: 521 FTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
+ V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 546 LDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP---------------- 586
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVRE 640
E + P P D V I+ G+LL G I K G G ++ +I E
Sbjct: 587 --EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGSLIHVIFNE 638
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
+G + +F++ V ++T + + + GF+ G+ D + ++ +++ + V+K+ A
Sbjct: 639 HGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRRNVEKIGAA 698
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKIL 760
L G TL ++ E+ + + L + R+ A A + N +M + G++G L
Sbjct: 699 ANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIEAGSKGTDL 758
Query: 761 NITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFH 820
NI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL P E+FFH
Sbjct: 759 NICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGLKPHEFFFH 818
Query: 821 AMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF YGEDG+D
Sbjct: 819 TMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMYGEDGLDGA 878
Query: 881 KSWGGK 886
+ GG+
Sbjct: 879 RIEGGQ 884
>gb|AAF36438.1|AF126254_1 (AF126254) RNA polymerase II largest subunit [Leishmania donovani]
Length = 1595
Score = 569 bits (1451), Expect = e-161
Identities = 318/884 (35%), Positives = 491/884 (54%), Gaps = 36/884 (4%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ ++F + +I+ + + +Y+ G P+ GG+ D RMG D CETCG K
Sbjct: 17 VHEVQFEVFKEAQIKAYAKCIIEHAKSYEH-GQPVRGGINDLRMGTTDFEYSCETCGLKH 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL-AKNR 126
ECPGHFG++ELA P+ ++ + L+ C+ CG + + + E K L NR
Sbjct: 76 PECPGHFGYVELAEPIFNINVFDVVLIALKCVCKYCGALLMDTNDPSEMKKIAHLQGLNR 135
Query: 127 RSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEI 186
V K+ + K++++ C G + P IY L+ E +
Sbjct: 136 LRMVAKLCGSVCKRSKDIQGCE--GKGRQPRIGRFAGIYPGLQIKVTQEEQDYVWHAENA 193
Query: 187 RDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLV 246
R L+++ D D ++G P P ++LTVLP+PP RP++ + +++D+LTH+++
Sbjct: 194 RQVLDRVSDSDALIMGFDPRFCHPRDLILTVLPIPPPQVRPAVAFASA-KSDDELTHQIM 252
Query: 247 DIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQ 306
I++ N +L+++ E+G + ++ LLQ HV T+ NN ++ PAK + LK+L +
Sbjct: 253 SIVKRNIQLRKDKESGV-KAAVDRSRALLQEHVATFFNNASTYYKPAKVGDTKKLKSLTE 311
Query: 307 RLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEK 366
RLKGK GR RGNL G RV+FSARTVI+ DP I ++EVGVP +AM LT PE+V N ++
Sbjct: 312 RLKGKYGRLRGNLMGSRVDFSARTVITGDPNIDVDEVGVPFSVAMTLTFPERVNVINKKR 371
Query: 367 LRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNR 426
L + V YP ANY+I P G ++ N + D+G VERH++DGD+VLFNR
Sbjct: 372 LTEFVQR--TTYPSANYIIRPNGNVTKLALVKDRNAVHL-DVGDVVERHVIDGDVVLFNR 428
Query: 427 QPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILME 486
QP+LHRMS+M HRVRV+ Y TFRLNL+ PYNADFDGDEMNLHVPQ+ +AE +M
Sbjct: 429 QPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMM 488
Query: 487 VQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKY 546
V + +SP P +G +QD + G Y LT + + + ++ + ++ +D+ ELP P
Sbjct: 489 VPKNFVSPNKSAPCMGIVQDSLLGSYRLTDKDTFVDKYFIQSVALW--LDLWELPIPAIL 546
Query: 547 ENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYD 606
+ +PLW+GK IFSL+LP+ V + D+P P P +K
Sbjct: 547 KP-RPLWTGKQIFSLILPE---VNHPASPYDKP---------------PFPHNDKK---- 583
Query: 607 GFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGF 666
+ IQ G+LL GAI K G G ++ +I E G + +F++ V ++T + F
Sbjct: 584 --IMIQRGQLLVGAITKGVVGAAPGSLIHVIFNERGSDEVAKFINGVQRITTYFNYCFAF 641
Query: 667 TTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVL 726
+ G+ D + ++ + + V+K+ A G+L G +L ++ E+ + + L
Sbjct: 642 SVGVQDTVADATTLKEMNNVLHKTRQSVEKIGAAANNGQLTRKAGMSLLQSFEADVNSAL 701
Query: 727 AEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGR 786
+ R+ A A + N +M + G++G LNI Q+A +GQQ++ G R+ GFR R
Sbjct: 702 NKCREEAAKKALSNVRRTNSFKVMIEAGSKGSDLNICQIAVFVGQQNVAGSRIPFGFRRR 761
Query: 787 VLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLI 846
L HF D G ++G Y GL P E++FH M GREGL+DTAV+T+ +GY+QR+L+
Sbjct: 762 TLPHFMLDDYGETSRGMATRGYVEGLQPHEFYFHTMAGREGLIDTAVKTSDTGYLQRKLV 821
Query: 847 NALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDV 890
AL+D+ YDGTVR+ ++Q YGEDG+D + G + +
Sbjct: 822 KALEDVHASYDGTVRNANQELIQLAYGEDGLDGARIEGNQAFPI 865
>sp|P08968|RPC1_TRYBB DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
>gi|84048|pir||S01393 DNA-directed RNA polymerase (EC
2.7.7.6) III 170K chain - Trypanosoma brucei brucei
>gi|10524|emb|CAA31014.1| (X12494) RNA polymerase III
largest subunit (AA 1 - 1530) [Trypanosoma brucei]
Length = 1530
Score = 559 bits (1424), Expect = e-158
Identities = 341/913 (37%), Positives = 502/913 (54%), Gaps = 69/913 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEV--TVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
I ++ +G+LS ++ ++S + V D E GV D R+GV D CETCG
Sbjct: 27 ISALHYGLLSRNDVHRLSVLPCRRVVGDVK-------EYGVNDARLGVCDRLSICETCGL 79
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
+ EC GH GHI+L PV H+GF T+ RI + C+ C + L D EI+ Y ++L +
Sbjct: 80 NSIECVGHPGHIDLEAPVFHLGFFTTVLRICRTICKRCSHVLLDDTEIDYYKRRLSSSSL 139
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQ------YPIKFEKPTIYWELRKDE------- 172
+ ++K I A + VC CG P++ + E R+ E
Sbjct: 140 EPLQRTMLIKTIQTDAYKTRVCLKCGGLNGVVRRVRPMRLVHEKYHVEPRRGEGPRENPG 199
Query: 173 ------------------QGNEYKHRMM-PTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
+ E+ H + P +R +P ++ LLGL P S P +
Sbjct: 200 GFFDAELRTACAYNKVVGECREFVHDFLDPVRVRQLFLAVPPGEVILLGLAPGVS-PTDL 258
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
++T L VPPV RP T +DDLT + DI+ + ++ + + W+
Sbjct: 259 LMTTLLVPPVPVRPRGCAGTTTVRDDDLTAQYNDILVSTDTMQ---DGSLDATRYTETWE 315
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ +++ G PP S LK+ AQRLK K GRFR NLSGKRV++S R+VIS
Sbjct: 316 MLQMRAARLLDSSLPGFPPNVRTS--DLKSYAQRLKSKHGRFRCNLSGKRVDYSGRSVIS 373
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGAN--YVIDPEGRR 391
PDP + ++E+ VP+ +A LT P++V + N E +R++V NGP +PGA Y+ ++
Sbjct: 374 PDPNLDVDELAVPLHVARVLTYPQRVFKANHELMRRLVRNGPHVHPGATTVYLAQEGSKK 433
Query: 392 IRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLN 451
E +R LA + +G VERH+++GD+VLFNRQPSLHR+S+MAHR RV+P+RTFR N
Sbjct: 434 SLKNERDRHRLAARLAVGDIVERHVMNGDLVLFNRQPSLHRVSMMAHRARVLPFRTFRFN 493
Query: 452 LAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGG 511
C PYNADFDGDEMN+H QTE+A+AEA LM +IIS + G PII QD ++
Sbjct: 494 ECCCAPYNADFDGDEMNVHFVQTEKARAEALQLMSTARNIISAKNGEPIIACTQDFLAAA 553
Query: 512 YLLTREGAYFTREEVEQML--MFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTV 569
YL+T +F R E QM+ V LP P + + LW+GK +F L++ V
Sbjct: 554 YLVTSRDVFFDRGEFSQMVSHWLGPVTQFRLPIPAILKPVE-LWTGKQLFELIVRPSPEV 612
Query: 570 WYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY--G 627
D EA K K D A +G+V + +SG +DKK G
Sbjct: 613 -------DVLLSFEAPTKFYTRKGKHD------CAEEGYVAFLDSCFISGRLDKKLLGGG 659
Query: 628 REDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEII 687
+DG+ L G AR + ++ + T +T+ GF+ G+ D E + ++
Sbjct: 660 AKDGLFARLHTIAGGGYTAR-VMSRIAQFTSRYLTNYGFSLGLGDVAPTPELNKQKAAVL 718
Query: 688 REAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHT 747
+ E LI++ K G + PLPG T++++LE+++ L++ RD G+ A + L + N+T
Sbjct: 719 ARSVEVCDGLIKSAKTGRMIPLPGLTVKQSLEARLNTELSKVRDECGTAAVQTLSIHNNT 778
Query: 748 -VIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
+IM ++G++G LNI QM A +GQQ++ GKR+ F+ R L HF + A+GFV N
Sbjct: 779 PLIMVQSGSKGSALNIAQMMACVGQQTVSGKRILDAFQDRSLPHFHRFEEAPAARGFVAN 838
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ SGLSP E+FFH M GREGLVDTAV+TA++GY+ RRL+ A+++L V YDGTVR+ G
Sbjct: 839 SFYSGLSPTEFFFHTMAGREGLVDTAVKTAETGYIYRRLMKAMENLSVRYDGTVRNTKGD 898
Query: 867 IVQFRYGEDGVDP 879
++Q R+GEDG+DP
Sbjct: 899 VIQLRFGEDGLDP 911
>gb|AAA30233.1| (M27163) RNA polymerase III [Trypanosoma brucei]
Length = 1530
Score = 559 bits (1424), Expect = e-158
Identities = 341/913 (37%), Positives = 502/913 (54%), Gaps = 69/913 (7%)
Query: 8 IGSIEFGILSPQEIRKMSAVEV--TVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
I ++ +G+LS ++ ++S + V D E GV D R+GV D CETCG
Sbjct: 27 ISALHYGLLSRNDVHRLSVLPCRRVVGDVK-------EYGVNDARLGVCDRLSICETCGL 79
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
+ EC GH GHI+L PV H+GF T+ RI + C+ C + L D EI+ Y ++L +
Sbjct: 80 NSIECVGHPGHIDLEAPVFHLGFFTTVLRICRTICKRCSHVLLDDTEIDYYKRRLSSSSL 139
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQ------YPIKFEKPTIYWELRKDE------- 172
+ ++K I A + VC CG P++ + E R+ E
Sbjct: 140 EPLQRTMLIKTIQTDAYKTRVCLKCGGLNGVVRRVRPMRLVHEKYHVEPRRGEGPRENPG 199
Query: 173 ------------------QGNEYKHRMM-PTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
+ E+ H + P +R +P ++ LLGL P S P +
Sbjct: 200 GFFDAELRTACAYNKVVGECREFVHDFLDPVRVRQLFLAVPPGEVILLGLAPGVS-PTDL 258
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
++T L VPPV RP T +DDLT + DI+ + ++ + + W+
Sbjct: 259 LMTTLLVPPVPVRPRGCAGTTTVRDDDLTAQYNDILVSTDTMQ---DGSLDATRYTETWE 315
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ +++ G PP S LK+ AQRLK K GRFR NLSGKRV++S R+VIS
Sbjct: 316 MLQMRAARLLDSSLPGFPPNVRTS--DLKSYAQRLKSKHGRFRCNLSGKRVDYSGRSVIS 373
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGAN--YVIDPEGRR 391
PDP + ++E+ VP+ +A LT P++V + N E +R++V NGP +PGA Y+ ++
Sbjct: 374 PDPNLDVDELAVPLHVARVLTYPQRVFKANHELMRRLVRNGPHVHPGATTVYLAQEGSKK 433
Query: 392 IRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLN 451
E +R LA + +G VERH+++GD+VLFNRQPSLHR+S+MAHR RV+P+RTFR N
Sbjct: 434 SLKNERDRHRLAARLAVGDIVERHVMNGDLVLFNRQPSLHRVSMMAHRARVLPFRTFRFN 493
Query: 452 LAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGG 511
C PYNADFDGDEMN+H QTE+A+AEA LM +IIS + G PII QD ++
Sbjct: 494 ECCCAPYNADFDGDEMNVHFVQTEKARAEALQLMSTARNIISAKNGEPIIACTQDFLAAA 553
Query: 512 YLLTREGAYFTREEVEQML--MFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTV 569
YL+T +F R E QM+ V LP P + + LW+GK +F L++ V
Sbjct: 554 YLVTSRDVFFDRGEFSQMVSHWLGPVTQFRLPIPAILKPVE-LWTGKQLFELIVRPSPEV 612
Query: 570 WYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY--G 627
D EA K K D A +G+V + +SG +DKK G
Sbjct: 613 -------DVLLSFEAPTKFYTRKGKHD------CAEEGYVAFLDSCFISGRLDKKLLGGG 659
Query: 628 REDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEII 687
+DG+ L G AR + ++ + T +T+ GF+ G+ D E + ++
Sbjct: 660 AKDGLFARLHTIAGGGYTAR-VMSRIAQFTSRYLTNYGFSLGLGDVAPTPELNKQKAAVL 718
Query: 688 REAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHT 747
+ E LI++ K G + PLPG T++++LE+++ L++ RD G+ A + L + N+T
Sbjct: 719 ARSVEVCDGLIKSAKTGRMIPLPGLTVKQSLEARLNTELSKVRDECGTAAVQTLSIHNNT 778
Query: 748 -VIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
+IM ++G++G LNI QM A +GQQ++ GKR+ F+ R L HF + A+GFV N
Sbjct: 779 PLIMVQSGSKGSALNIAQMMACVGQQTVSGKRILDAFQDRSLPHFHRFEEAPAARGFVAN 838
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ SGLSP E+FFH M GREGLVDTAV+TA++GY+ RRL+ A+++L V YDGTVR+ G
Sbjct: 839 SFYSGLSPTEFFFHTMAGREGLVDTAVKTAETGYIYRRLMKAMENLSVRYDGTVRNTKGD 898
Query: 867 IVQFRYGEDGVDP 879
++Q R+GEDG+DP
Sbjct: 899 VIQLRFGEDGLDP 911
>sp|P17545|RPB1_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|102111|pir||B31875 DNA-directed RNA polymerase (EC
2.7.7.6) 2 - Trypanosoma brucei
>gi|10503|emb|CAA31847.1| (X13492) RNA polymerase II
largest subunit [Trypanosoma brucei]
Length = 1766
Score = 555 bits (1415), Expect = e-157
Identities = 321/854 (37%), Positives = 479/854 (55%), Gaps = 64/854 (7%)
Query: 60 CETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKK 119
CETC K ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KK
Sbjct: 69 CETCHRKHPECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKK 127
Query: 120 LE--LAKNRRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQY 155
L+ NR +V K+ + + + M CGA Q
Sbjct: 128 LQHMTGLNRLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQP 187
Query: 156 PI-KFEK--PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEW 212
+ +F PT+ + +EQ E+ ++R L+++ D D L+G P++ P
Sbjct: 188 RVSRFYGIYPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRD 243
Query: 213 MVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLW 272
+VLTVLPVPP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+
Sbjct: 244 LVLTVLPVPPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSR 301
Query: 273 DLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 332
LLQ HV TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI
Sbjct: 302 ALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVI 361
Query: 333 SPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI 392
+ DP I ++EVGVP +AM LT PE+V N ++L + YP ANY+ P G I
Sbjct: 362 TGDPNIDVDEVGVPFSVAMTLTFPERVNTINKKRLTEFARR--TVYPSANYIHHPNGT-I 418
Query: 393 RIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL 452
+ R+ ++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL
Sbjct: 419 TKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNL 478
Query: 453 AVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGY 512
+ PYNADFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y
Sbjct: 479 SCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSY 538
Query: 513 LLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYR 572
LT + + + V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 539 RLTDKDTFLDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP-------- 587
Query: 573 NKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGI 632
E + P P D V I+ G+LL G I K G G
Sbjct: 588 ----------EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGS 631
Query: 633 ILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEE 692
++ +I E+G + +F++ V ++T + + + GF+ G+ D + ++ +++ +
Sbjct: 632 LIHVIFNEHGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRR 691
Query: 693 RVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAK 752
V+K+ A L G TL ++ E+ + + L + R+ A A + N +M +
Sbjct: 692 NVEKIGAAANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIE 751
Query: 753 TGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGL 812
G++G LNI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL
Sbjct: 752 AGSKGTDLNICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGL 811
Query: 813 SPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRY 872
P E+FFH M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF Y
Sbjct: 812 KPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMY 871
Query: 873 GEDGVDPMKSWGGK 886
GEDG+D + GG+
Sbjct: 872 GEDGLDGARIEGGQ 885
>sp|P17546|RPB2_TRYBB DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|102110|pir||A31875 DNA-directed RNA polymerase (EC
2.7.7.6) 1 - Trypanosoma brucei
>gi|10505|emb|CAA31846.1| (X13491) RNA polymerase II
largest subunit [Trypanosoma brucei]
Length = 1766
Score = 554 bits (1413), Expect = e-156
Identities = 321/854 (37%), Positives = 479/854 (55%), Gaps = 64/854 (7%)
Query: 60 CETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKK 119
CETC K ECPGHFG+IELA PV ++G + +L+ C+ CG + L E ++ KK
Sbjct: 69 CETCHRKHPECPGHFGYIELAEPVFNIGVFDLVLLVLKCVCKTCGALLLNTRE-QDVHKK 127
Query: 120 LE--LAKNRRSEVNKILK---EIHKKARERM-------------------VCPHCGAPQY 155
L+ NR +V K+ + + + M CGA Q
Sbjct: 128 LQHVTGLNRLRQVAKMAEAKCRVSTSTEDDMGIDGFDSAPFNGGSGMGPGATRGCGASQP 187
Query: 156 PI-KFEK--PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEW 212
+ +F PT+ + +EQ E+ ++R L+++ D D L+G P++ P
Sbjct: 188 RVSRFYGIYPTLVIKAVHEEQDAEWH----ADKVRQVLDRVSDDDARLMGFDPQRCHPRD 243
Query: 213 MVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLW 272
+VLTVLPVPP RP+I+ G+R++D+LTH+++ I++ NN+L+++ E+ Q I+
Sbjct: 244 LVLTVLPVPPPQVRPAISFG-GLRSDDELTHQIMSIVKRNNQLRRDKESDV-QAAIDRSR 301
Query: 273 DLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 332
LLQ HV TY NN ++ P K + LK+L +RLKGK GR RGNL GKRV+FSARTVI
Sbjct: 302 ALLQEHVATYFNNASTYYKPTKVNDTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVI 361
Query: 333 SPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI 392
+ DP I ++EVGVP +AM LT PE+V N ++L + YP ANY+ P G I
Sbjct: 362 TGDPNIDVDEVGVPFSVAMTLTFPERVNTVNKKRLTEFARR--TVYPSANYIHHPNGT-I 418
Query: 393 RIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL 452
+ R+ ++IG VERH+++GD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL
Sbjct: 419 TKLALLRDRSKVTLNIGDVVERHVINGDVVLFNRQPTLHRMSMMGHRVRVLNYSTFRLNL 478
Query: 453 AVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGY 512
+ PYNADFDGDEMNLHVPQ+ +AE +M V + +SP P +G +QD + G Y
Sbjct: 479 SCTTPYNADFDGDEMNLHVPQSLLTKAELIEMMMVPKNFVSPNKSAPCMGIVQDSLLGSY 538
Query: 513 LLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYR 572
LT + + + V+ + ++ +D+ +LP P +PLW+GK +FSL+LP
Sbjct: 539 RLTDKDTFLDKYFVQSVALW--LDLWQLPIP-AILKPRPLWTGKQVFSLILP-------- 587
Query: 573 NKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGI 632
E + P P D V I+ G+LL G I K G G
Sbjct: 588 ----------EVNHPATPQDRPPFPHN------DSVVMIRRGQLLCGPITKSIVGAAPGS 631
Query: 633 ILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEE 692
++ +I E+G + +F++ V ++T + + + GF+ G+ D + ++ +++ +
Sbjct: 632 LIHVIFNEHGSDEVARFINGVQRVTTFFLLNFGFSVGVQDTVADSDTLRQMNDVLVKTRR 691
Query: 693 RVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAK 752
V+K+ A L G TL ++ E+ + + L + R+ A A + N +M +
Sbjct: 692 NVEKIGAAANNRTLNRKAGMTLLQSFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIE 751
Query: 753 TGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGL 812
G++G LNI Q+A +GQQ++ G R+ GFR R L HF D G ++G Y GL
Sbjct: 752 AGSKGTDLNICQIAVFVGQQNVAGSRIPFGFRRRTLPHFMLDDYGETSRGMANRGYVEGL 811
Query: 813 SPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRY 872
P E+FFH M GREGL+DTAV+T+ +GY+QR+LI AL+D+ YDGTVR+ ++QF Y
Sbjct: 812 KPHEFFFHTMAGREGLIDTAVKTSDTGYLQRKLIKALEDVHAAYDGTVRNANDELIQFMY 871
Query: 873 GEDGVDPMKSWGGK 886
GEDG+D + GG+
Sbjct: 872 GEDGLDGARIEGGQ 885
>gb|AAC47792.2| (AF009163) RNA polymerase II large subunit [Leishmania major]
Length = 1663
Score = 544 bits (1387), Expect = e-153
Identities = 309/834 (37%), Positives = 465/834 (55%), Gaps = 35/834 (4%)
Query: 58 LRCETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYM 117
+ CETCG + ECPGHFG++ELA P+ ++ + L+ C+ CG + + + E
Sbjct: 67 IACETCGLRHPECPGHFGYVELAEPIFNINVFDVVLIALKCVCKYCGALLMDTNDPSEMK 126
Query: 118 KKLEL-AKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNE 176
K L NR V K+ + K++++ C G P F IY L+ E
Sbjct: 127 KIAHLQGLNRLRMVAKLCGSVCKRSKDIQGCEGXGPPAAHRPFVG--IYPGLQIKVTQEE 184
Query: 177 YKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIR 236
+ R L+++ D D ++G P + LTVLP+PP R SI L G+
Sbjct: 185 QDYVWHAENARQVLDRVSDSDALIMGFDRRFCHPRDLDLTVLPIPPPQVRSSIYLG-GLM 243
Query: 237 AEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHK 296
DDLTH+++ I++ N +L+++ E+G + ++ LLQ HV T+ NN ++ PAK
Sbjct: 244 QVDDLTHQIMSIVKRNIQLRKDKESGV-KAAVDRSRALLQEHVATFFNNASTYYKPAKVG 302
Query: 297 SGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVP 356
+ LK+L +RLKGK GR RGNL GKRV+FSARTVI+ DP I ++EVGVP +AM LT P
Sbjct: 303 DTKKLKSLTERLKGKYGRLRGNLMGKRVDFSARTVITGDPNIDVDEVGVPFSVAMTLTFP 362
Query: 357 EKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHL 416
E+V N ++L + V YP ANY+I P G + + ++ A +D+G VERH+
Sbjct: 363 ERVNVINKKRLTEFVQR--TTYPSANYIIRPNGN-VTKLALVKDRSAVHLDVGDVVERHV 419
Query: 417 LDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEE 476
+DGD+VLFNRQP+LHRMS+M HRVRV+ Y TFRLNL+ PYNADFDGDEMNLHVPQ+
Sbjct: 420 IDGDVVLFNRQPTLHRMSMMGHRVRVLNYNTFRLNLSCTTPYNADFDGDEMNLHVPQSLL 479
Query: 477 AQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVD 536
+AE +M V + +SP P +G +QD + G Y LT + + + + + ++ +D
Sbjct: 480 TKAELIEMMMVPKNFVSPNKSAPCMGIVQDSVLGSYKLTEKDTFLDKYFIAERPLW--LD 537
Query: 537 IKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPD 596
+ +LP P + +PLW+GK IFSL+LP+ V + D+P P
Sbjct: 538 LWQLPIPTILK-PRPLWTGKQIFSLILPE---VNHPASPHDKP---------------PF 578
Query: 597 PEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKL 656
P D + IQ G+LL GAI K G G ++ +I E G + +F++ V ++
Sbjct: 579 PHN------DSKIMIQRGQLLGGAITKGVVGAAPGSLIHVIFNERGSDEVAKFINGVQRI 632
Query: 657 TIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEE 716
T + F+ G+ D + ++ + + V+K+ A G+L G +L +
Sbjct: 633 TTYFNYCFAFSVGVQDTVADATTLKEMNNVLHKTRQSVEKIGAAANNGKLTRKAGMSLLQ 692
Query: 717 TLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRG 776
+ E+ + + L + R+ A A + N +M + G++G LNI Q+A +GQQ++ G
Sbjct: 693 SFEADVNSALNKCREEAAKKALSNVRRTNSFKVMIEAGSKGSDLNICQIAVFVGQQNVAG 752
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
R+ GFR R L HF D G ++G Y GL P E++FH M GREGL+DTAV+T+
Sbjct: 753 SRIPFGFRRRTLPHFMLDDYGETSRGMATRGYVEGLQPHEFYFHTMAGREGLIDTAVKTS 812
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDV 890
+GY+QR+L+ AL+D+ YDGTVR+ ++Q YGEDG+D + G + +
Sbjct: 813 DTGYLQRKLVKALEDVHASYDGTVRNANQELIQLAYGEDGLDGARIEGNQAFPI 866
>gb|AAF48509.1| (AE003500) CG17209 gene product [Drosophila melanogaster]
Length = 1259
Score = 436 bits (1109), Expect = e-121
Identities = 247/607 (40%), Positives = 350/607 (56%), Gaps = 51/607 (8%)
Query: 3 SVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCET 62
++ K I ++FGI EI++ + V + + Y P+ GV+D+RMG+ CET
Sbjct: 10 ALNKKISHVQFGISGADEIQQEALVRIISKNLYQAQRQPVPYGVLDRRMGISTKDAMCET 69
Query: 63 CGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
CG EC GHFG+++LA PV H+G ++ IL+ C+ C + L E+ + Y KKL
Sbjct: 70 CGQGLNECIGHFGYLDLALPVFHIGHFRSTINILQMICKVCAHVMLKPEDRQLYEKKLHN 129
Query: 123 AKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYK---- 178
+ ++ KA++ CPHCG+P +K + P + L +G +
Sbjct: 130 PNFSYLGKKALHVQMLAKAKKVTKCPHCGSPNGGVK-KGPGLLKILHDPYKGRKMDSLFT 188
Query: 179 --------------------------HRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEW 212
+ P + D E+IP +D+ LLG+ + P+
Sbjct: 189 SNMNEMLRSTQTNRDLNSTLGNYSTAEELTPLMVLDLFEQIPQRDVALLGMCSHDAHPKH 248
Query: 213 MVLTVLPVPPVTARPSITLETGI-RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDL 271
+++T + VPP RPS+ E EDDLT K +I+ IN+ +++++ G +I +
Sbjct: 249 LIVTRVFVPPACIRPSVLSEVKAGTTEDDLTMKQSEILLINDVIQRHMATGGKIELIHED 308
Query: 272 WDLLQYHVTTYINNETSGVP----PAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
WD LQ HV Y ++E SG+P P K G + QRLKGK+GRFR NLSGKRV+FS
Sbjct: 309 WDFLQLHVALYFHSEISGIPINMAPKKTTRG-----IVQRLKGKQGRFRCNLSGKRVDFS 363
Query: 328 ARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDP 387
RTVISPDP + IN+VGVP+++A LT PE+V NI +R++V NGP +PGANYV
Sbjct: 364 GRTVISPDPNLMINQVGVPVRVAKILTYPERVNPANIRHMRELVRNGPSMHPGANYV-QQ 422
Query: 388 EGRRIR--IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPY 445
G + + NRE +A+ + G VERHL DGDIVLFNRQPSLH+MSIM HR +V P
Sbjct: 423 RGSSFKKYLAYGNREKVAQELKCGDVVERHLRDGDIVLFNRQPSLHKMSIMCHRAKVQPQ 482
Query: 446 RTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQ 505
RTFR N C PYNADFDGDEMNLH+PQTEEA+AEA ILM Q+++++P+ G +I Q
Sbjct: 483 RTFRFNECACTPYNADFDGDEMNLHLPQTEEARAEALILMGNQSNLVTPKNGEILIAATQ 542
Query: 506 DHISGGYLLTREGAYFTREEVEQM--LMFAGVDIK---ELPEPDKYENGKPLWSGKTIFS 560
D I+GGYLLT++ + T+EE Q+ A D +LP P + + LW+GK +FS
Sbjct: 543 DFITGGYLLTQKEVFLTKEEAMQLAACFLANEDSTMHIKLPPPALLK-PRRLWTGKQMFS 601
Query: 561 LLL-PDD 566
LL+ P+D
Sbjct: 602 LLMRPND 608
Score = 165 bits (413), Expect = 2e-39
Identities = 83/166 (50%), Positives = 112/166 (67%)
Query: 715 EETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+ETLES ++ L+ R+ A L N +IMA +G++G +NI+QM A +GQQ+I
Sbjct: 619 KETLESVMLRELSAIREQAAKTCFAELHPTNSALIMALSGSKGSNINISQMIACVGQQAI 678
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
GKR+ GF R L HF+ A+GFV NS+ SGL+P E+FFH M GREGLVDTAV+
Sbjct: 679 SGKRVPNGFENRALPHFERHSAIPAARGFVQNSFYSGLTPTEFFFHTMAGREGLVDTAVK 738
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
TA++GY+QRRL+ L+DL V YDGTVR+ +V YG DG+DP+
Sbjct: 739 TAETGYLQRRLVKCLEDLVVHYDGTVRNAVNEMVDTIYGGDGLDPV 784
>sp|P14248|RPB1_PLAFD DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|66976|pir||RNZQ2L DNA-directed RNA polymerase (EC
2.7.7.6) II large chain - malaria parasite (Plasmodium
falciparum) >gi|9943|emb|CAA34560.1| (X16561) RNA
polymerase II large subunit (AA 1-2452) [Plasmodium
falciparum]
Length = 2452
Score = 423 bits (1075), Expect = e-117
Identities = 240/618 (38%), Positives = 350/618 (55%), Gaps = 64/618 (10%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K + +E G+L P+ I+K+S E+ D Y D G+P EGG+ D RMG ID C TC
Sbjct: 15 KRVKRLELGVLDPEIIKKISVCEIVNVDIYKD-GFPREGGLNDIRMGTIDYRTLCGTCNM 73
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGR-------------------- 105
CPGHFGHIELA+P+ H GF + +L C CGR
Sbjct: 74 NVKYCPGHFGHIELAKPMYHYGFMNVVLNVLRCVCYHCGRLLCNVNSSKVKYIEKIKVNS 133
Query: 106 ------------IKLTDEEIEE-------------YMKKLE-LAKNRRSEVNK-----IL 134
I+ D +EE Y L L N++ +NK I
Sbjct: 134 LRLRKLAELCLGIRACDHSVEEEGLNINDNSLNNFYNNDLSNLNMNQQMLLNKSNYTNIF 193
Query: 135 KEIHKKARERMVCPHCGAPQYPIKFEKPTIYWEL--RKDEQGNEYKHRMMPTEIRDRLEK 192
+ + K+ + CG Q E P +Y + +E +E K ++ E + L+K
Sbjct: 194 EMVSKEDVD------CGCVQPKYSREGPNMYIQFLHSSEEDIDESKRKLSAEEALEILKK 247
Query: 193 IPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRIN 252
I +++ +LG + ++ P ++LT +P+PP ARP + R+EDDLT KL+DI++ N
Sbjct: 248 IRKEEMSILGFNSDRCVPASLILTCIPIPPPCARPYVQYGNQ-RSEDDLTLKLLDIVKTN 306
Query: 253 NRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKE 312
+LK+ + GA +++DL LLQ+H+TT +N+ G+P A +S +P+K + RLKGKE
Sbjct: 307 IQLKRQTDRGAKSHVLQDLCSLLQFHITTLFDNDIPGMPIATTRSKKPIKAIRTRLKGKE 366
Query: 313 GRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVL 372
GR RGNL GKRV+FSARTVI+ DP ++I+ +GVP +AM LT E VT N + L+K+V
Sbjct: 367 GRLRGNLMGKRVDFSARTVITGDPNLNIDYIGVPKSVAMTLTFCETVTPLNYDNLKKLVE 426
Query: 373 NGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHR 432
GP ++PGA Y+I G + + R N + ++ G+ VERH+ D D +LFNRQPSLH+
Sbjct: 427 RGPYEWPGAKYIIRDNGTKYDLRHV-RRNSEKELEYGYKVERHMTDEDYILFNRQPSLHK 485
Query: 433 MSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHII 492
MSIM H+ +++PY TFRLNL+V PYNADFDGDEMNLH+ Q+ E ++E + LM VQ I+
Sbjct: 486 MSIMGHKAKILPYSTFRLNLSVTSPYNADFDGDEMNLHLAQSHETRSEIKHLMIVQRQIV 545
Query: 493 SPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPL 552
SP+ P++G +QD + TR + T+EEV +L++ +P P + L
Sbjct: 546 SPQGNKPVMGIVQDSLLAIRKFTRRDNFLTKEEVMSLLIWIPYWNHVIPTP-AIIKPRAL 604
Query: 553 WSGKTIFSLLLP-DDLTV 569
W+GK IFS+LL DD+ +
Sbjct: 605 WTGKQIFSMLLQFDDMNI 622
Score = 236 bits (595), Expect = 1e-60
Identities = 118/272 (43%), Positives = 179/272 (65%)
Query: 606 DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKG 665
DG V I+N +LLSG I K+ G G ++ ++ E G ++ + FL + K+T + + G
Sbjct: 762 DGKVIIKNNELLSGIICKRTVGSSSGSLIHVLWHEMGPDKTKDFLSALQKVTNNWLEYVG 821
Query: 666 FTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAV 725
FT D + +++EI+ +++ V KL+E ++GELE PGK+L E+ E+++
Sbjct: 822 FTVSCSDIIASNKVLGKVREILDKSKSEVSKLVEKAQKGELECQPGKSLYESFETRVNNE 881
Query: 726 LAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRG 785
L AR+ AG +A + L N+ M +G++G I+NI+Q+ + +GQQ++ GKR+ GF
Sbjct: 882 LNCAREMAGKVASESLDERNNIFSMVASGSKGSIINISQIISCVGQQNVEGKRIPFGFNH 941
Query: 786 RVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRL 845
R L HF D G ++GFV NSY SGL+PQE FFHAMGGREG++DTA +T+++GY+QRRL
Sbjct: 942 RSLPHFIKFDYGPESRGFVSNSYLSGLTPQEVFFHAMGGREGIIDTACKTSETGYIQRRL 1001
Query: 846 INALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
I A++D+ V YD TVR+ G I+QF YGEDG+
Sbjct: 1002 IKAMEDVMVQYDRTVRNSYGDIIQFLYGEDGM 1033
>pir||T18492 hypothetical protein C0805w - malaria parasite (Plasmodium
falciparum) >gi|3758846|emb|CAB11131.1| (Z98551)
DNA-directed RNA polymerase II [Plasmodium falciparum]
Length = 2457
Score = 423 bits (1075), Expect = e-117
Identities = 240/618 (38%), Positives = 350/618 (55%), Gaps = 64/618 (10%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K + +E G+L P+ I+K+S E+ D Y D G+P EGG+ D RMG ID C TC
Sbjct: 15 KRVKRLELGVLDPEIIKKISVCEIVNVDIYKD-GFPREGGLNDIRMGTIDYRTLCGTCNM 73
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGR-------------------- 105
CPGHFGHIELA+P+ H GF + +L C CGR
Sbjct: 74 NVKYCPGHFGHIELAKPMYHYGFMNVVLNVLRCVCYHCGRLLCNVNSSKVKYIEKIKVNS 133
Query: 106 ------------IKLTDEEIEE-------------YMKKLE-LAKNRRSEVNK-----IL 134
I+ D +EE Y L L N++ +NK I
Sbjct: 134 LRLRKLAELCLGIRACDHSVEEEGLNINDNSLNNFYNNDLSNLNMNQQMLLNKSNYTNIF 193
Query: 135 KEIHKKARERMVCPHCGAPQYPIKFEKPTIYWEL--RKDEQGNEYKHRMMPTEIRDRLEK 192
+ + K+ + CG Q E P +Y + +E +E K ++ E + L+K
Sbjct: 194 EMVSKEDVD------CGCVQPKYSREGPNMYIQFLHSSEEDIDESKRKLSAEEALEILKK 247
Query: 193 IPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRIN 252
I +++ +LG + ++ P ++LT +P+PP ARP + R+EDDLT KL+DI++ N
Sbjct: 248 IRKEEMSILGFNSDRCVPASLILTCIPIPPPCARPYVQYGNQ-RSEDDLTLKLLDIVKTN 306
Query: 253 NRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKE 312
+LK+ + GA +++DL LLQ+H+TT +N+ G+P A +S +P+K + RLKGKE
Sbjct: 307 IQLKRQTDRGAKSHVLQDLCSLLQFHITTLFDNDIPGMPIATTRSKKPIKAIRTRLKGKE 366
Query: 313 GRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVL 372
GR RGNL GKRV+FSARTVI+ DP ++I+ +GVP +AM LT E VT N + L+K+V
Sbjct: 367 GRLRGNLMGKRVDFSARTVITGDPNLNIDYIGVPKSVAMTLTFCETVTPLNYDNLKKLVE 426
Query: 373 NGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHR 432
GP ++PGA Y+I G + + R N + ++ G+ VERH+ D D +LFNRQPSLH+
Sbjct: 427 RGPYEWPGAKYIIRDNGTKYDLRHV-RRNSEKELEYGYKVERHMTDEDYILFNRQPSLHK 485
Query: 433 MSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHII 492
MSIM H+ +++PY TFRLNL+V PYNADFDGDEMNLH+ Q+ E ++E + LM VQ I+
Sbjct: 486 MSIMGHKAKILPYSTFRLNLSVTSPYNADFDGDEMNLHLAQSHETRSEIKHLMIVQRQIV 545
Query: 493 SPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPL 552
SP+ P++G +QD + TR + T+EEV +L++ +P P + L
Sbjct: 546 SPQGNKPVMGIVQDSLLAIRKFTRRDNFLTKEEVMSLLIWIPYWNHVIPTP-AIIKPRAL 604
Query: 553 WSGKTIFSLLLP-DDLTV 569
W+GK IFS+LL DD+ +
Sbjct: 605 WTGKQIFSMLLQFDDMNI 622
Score = 236 bits (595), Expect = 1e-60
Identities = 118/272 (43%), Positives = 179/272 (65%)
Query: 606 DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKG 665
DG V I+N +LLSG I K+ G G ++ ++ E G ++ + FL + K+T + + G
Sbjct: 758 DGKVIIKNNELLSGIICKRTVGSSSGSLIHVLWHEMGPDKTKDFLSALQKVTNNWLEYVG 817
Query: 666 FTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAV 725
FT D + +++EI+ +++ V KL+E ++GELE PGK+L E+ E+++
Sbjct: 818 FTVSCSDIIASNKVLGKVREILDKSKSEVSKLVEKAQKGELECQPGKSLYESFETRVNNE 877
Query: 726 LAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRG 785
L AR+ AG +A + L N+ M +G++G I+NI+Q+ + +GQQ++ GKR+ GF
Sbjct: 878 LNCAREMAGKVASESLDERNNIFSMVASGSKGSIINISQIISCVGQQNVEGKRIPFGFNH 937
Query: 786 RVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRL 845
R L HF D G ++GFV NSY SGL+PQE FFHAMGGREG++DTA +T+++GY+QRRL
Sbjct: 938 RSLPHFIKFDYGPESRGFVSNSYLSGLTPQEVFFHAMGGREGIIDTACKTSETGYIQRRL 997
Query: 846 INALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
I A++D+ V YD TVR+ G I+QF YGEDG+
Sbjct: 998 IKAMEDVMVQYDRTVRNSYGDIIQFLYGEDGM 1029
>sp|P28364|RPB1_EUPOC DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
>gi|479436|pir||S33886 DNA-directed RNA polymerase (EC
2.7.7.6) II largest chain RPB1 - Euplotes octocarinatus
(fragment) >gi|2133434|pir||S73103 DNA-directed RNA
polymerase (EC 2.7.7.6) II largest chain RPB1 - Euplotes
octocarinatus (SGC9) (fragment)
>gi|2673850|emb|CAA47068.1| (X66452) DNA-directed RNA
polymerase II largest subunit [Euplotes octocarinatus]
Length = 478
Score = 381 bits (968), Expect = e-104
Identities = 201/467 (43%), Positives = 297/467 (63%), Gaps = 16/467 (3%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
+ I+FG+L P+EI+ MS V+V YD+ G P +GG+ D RMG ++ +RC TC +
Sbjct: 17 VRKIQFGLLDPKEIQAMSVVQVENEKIYDN-GIPTDGGINDLRMGTMEKAMRCSTCQGDS 75
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEY--MKKLELAKN 125
ECPGHFGHIELA+PV H+GF + +IL+ C C ++ +TD+ ++Y +K+++ K
Sbjct: 76 KECPGHFGHIELAQPVFHIGFIDLVKKILKCVCFNCNKLLITDKH-DKYSALKRVKDPKL 134
Query: 126 RRSEVNKILKEIHK--KARERMVCPHCGAPQYPIKFEKPTIYWELR-----KDEQGNEYK 178
+ ++V K+ K+I KA + G+ Q + K + + D N+ K
Sbjct: 135 KLNKVYKVCKDIKVCGKADRKSETYTEGSGQKQPRLRKTGLKIKAEFPIDEDDPSTNDNK 194
Query: 179 HRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAE 238
+ +E L +I D LG +RPEW++++ LPV P RPS+ + + IR E
Sbjct: 195 RDLSASECLKILGRISPDDCKFLGFDMVLARPEWLIISRLPVAPPPVRPSVCMGSNIRQE 254
Query: 239 DDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSG 298
DDLTH+ I++ NN+L++++ II + + LLQ++ T I+NE +G ++HKSG
Sbjct: 255 DDLTHQYQQILKANNQLRKHLSTA--NHIINENYQLLQFYCATLIDNEQAGQMVSRHKSG 312
Query: 299 -RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPE 357
+ +K + RLKGKEGR RGNL GKRV+FSARTVI+ DP + ++++GVP IA +T+PE
Sbjct: 313 GKAIKAIRARLKGKEGRLRGNLMGKRVDFSARTVITCDPTLDLDQLGVPRSIAENITIPE 372
Query: 358 KVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLL 417
VT NI+++RK+V+NGP+K+PGA Y+ G+ I + S + ID G+ +ERHL
Sbjct: 373 VVTPQNIDEMRKLVINGPNKWPGAKYIKGEGGKMIDL--SYAKTTETFIDYGYVIERHLK 430
Query: 418 DGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
+ D VLFNRQPSLH+MSIM HRV+V+PY TFRLNL+V PYNADFDG
Sbjct: 431 NDDFVLFNRQPSLHKMSIMGHRVKVLPYSTFRLNLSVTAPYNADFDG 477
>sp|O54889|RPA1_RAT DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT (RNA POLYMERASE I 194
KDA SUBUNIT) (RPA194) >gi|7514047|pir||T14103 probable
DNA-directed RNA polymerase (EC 2.7.7.6) I large chain -
rat >gi|2739050|gb|AAB94601.1| (AF025425) RNA polymerase
I 194 kDa subunit [Rattus norvegicus]
Length = 1716
Score = 379 bits (962), Expect = e-103
Identities = 307/1040 (29%), Positives = 475/1040 (45%), Gaps = 186/1040 (17%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
I FG+ S +E++K+S +T P D G P G+ D +G D C TC C
Sbjct: 15 ISFGMYSAEELKKLSVKSITNPRYVDSLGNPSADGLYDLALGPADSKEVCSTCVQDFNNC 74
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECG--------------RIKLTD------ 110
GH GHI+L V + ++ +L +C C ++K+ D
Sbjct: 75 SGHLGHIDLPLTVYNPLLFDKLYLLLRGSCLNCHMLTCPRAAIHLLVCQLKVLDVGALQA 134
Query: 111 ------------------------EEIEEYMKKL----------ELAKNRRSEVNKILKE 136
EE+EEY K+ KN +K++
Sbjct: 135 VYELERILSRFLEETSDPSAFEIQEELEEYTSKILQNNLLGSQGAHVKNVCESRSKLVAH 194
Query: 137 IHKKARERMVCPHCGAPQYPIKFE---KPTIYW-------------ELRK--------DE 172
K CPHC + ++ E K TI + EL + DE
Sbjct: 195 FWKTHMAAKRCPHCKTGRSVVRKEHNSKLTITYPAMVHKKSGQKDAELPEGAPAAPGIDE 254
Query: 173 QGNEYKHRMMPTEIRDRLEKIPDKDLPLLG--------LHPEKS-RPEWMVLTVLPVPPV 223
+ + P+ ++ L I + L + PE S P L + VPP
Sbjct: 255 AQMGKRGYLTPSSAQEHLFAIWKNEGFFLNYLFSGLDDIGPESSFNPSMFFLDFIVVPPS 314
Query: 224 TARP-------------SITLETGIRAEDDLTHKLVDIIRINNRL----------KQNIE 260
RP ++ L+ + + L KL+ ++ +L K+N
Sbjct: 315 RYRPINRLGDQMFTNGQTVNLQA-VMKDAVLIRKLLAVMAQEQKLPCEMTEITIDKENDS 373
Query: 261 AGA---------PQLIIED----LWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQR 307
+GA P + D +W LQ HV +++ + K+ R Q
Sbjct: 374 SGAIDRSFLSLLPGQSLTDKLYNIWIRLQSHVNIVFDSDMDKLMLEKYPGIR------QI 427
Query: 308 LKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKL 367
L+ KEG FR ++ GKRV+++AR+VI PD I+ NE+G+P+ A +LT P+ VT +N+++L
Sbjct: 428 LEKKEGLFRKHMMGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQEL 487
Query: 368 RKMVLNGPDKYPGANYVIDPEGRRIRIM---ESNRENLARMIDIGWT----------VER 414
R+ V+NGP+ +PGA+ VI+ +G R + + RE +A+ + T V R
Sbjct: 488 RQAVINGPNVHPGASMVINEDGSRTALSAVDATQREAVAKQLLTPSTGIPKPQGAKVVCR 547
Query: 415 HLLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQ 473
H+ +GDI+L NRQP+LHR SI AHR ++P + RL+ A C YNADFDGDEMN H PQ
Sbjct: 548 HVKNGDILLLNRQPTLHRPSIQAHRAHILPEEKVLRLHYANCKAYNADFDGDEMNAHFPQ 607
Query: 474 TEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFA 533
+E +AEA +L + P+ G P+ G IQDH+ G +T G +FTRE+ + L++
Sbjct: 608 SELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGANMTIRGCFFTREQYME-LVYR 666
Query: 534 GVDIK---ELPEPDKYENGKPLWSGKTIFSLLL----PDDLTVWYRNKLCDEPERCEALE 586
G+ K P PLW+GK + S LL P+D T P
Sbjct: 667 GLTDKVGRVKLFPPAILKPFPLWTGKQVVSTLLINIIPEDYT----------PLNLTGKA 716
Query: 587 KL-----IEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREY 641
K+ ++EK P P+ + V I+ G+LL G +DK YG ++ Y
Sbjct: 717 KIGSKAWVKEKPRPVPDFDPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIY 776
Query: 642 GVERARQFLDQVTKL-TIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEE----RVQK 696
G E + + L + +L T ++ ++GFT G++D + A + II E+ + V+
Sbjct: 777 GGETSGRVLTCLARLFTAYLQLYRGFTLGVEDILVKPNADVMRQRIIEESTQCGPRAVRA 836
Query: 697 LIEAYKRGELEPLPGKTL-------EETLESKIMAVLAEARDNAGSIAEKYLGM------ 743
+ + + + GK + M E + I + +
Sbjct: 837 ALNLPEAASCDEIQGKWQDAIWRKDQRDFNMIDMKFKEEVNHYSNEINKACMPFGLHRQF 896
Query: 744 -DNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKG 802
+N+ +M ++GA+G +N Q++ LLGQ + G+R G+ L F+P + RA G
Sbjct: 897 PENNLQMMVQSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTPRAGG 956
Query: 803 FVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRD 862
FV + +G+ P E+FFH M GREGLVDTAV+T++SGY+QR +I L+ L + YD TVRD
Sbjct: 957 FVTGRFLTGIRPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVIQYDLTVRD 1016
Query: 863 PTGVIVQFRYGEDGVDPMKS 882
G +VQF YGEDG+D K+
Sbjct: 1017 SDGSVVQFLYGEDGLDIPKT 1036
>gi|6677793 RNA polymerase 1-4 (194 kDa subunit) [Mus musculus]
>gi|3914808|sp|O35134|RPA1_MOUSE DNA-DIRECTED RNA
POLYMERASE I LARGEST SUBUNIT (RNA POLYMERASE I 194 KDA
SUBUNIT) (RPA194) >gi|7513630|pir||T13961 DNA-directed
RNA polymerase (EC 2.7.7.6) I large chain - mouse
>gi|2330007|gb|AAB66718.1| (AF000938) RNA polymerase I
largest subunit [Mus musculus]
Length = 1717
Score = 378 bits (961), Expect = e-103
Identities = 302/1031 (29%), Positives = 475/1031 (45%), Gaps = 168/1031 (16%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
I FG+ S +E++K+S +T P D G P G+ D +G D C TC C
Sbjct: 15 ISFGMYSAEELKKLSVKSITNPRYVDYLGNPSANGLYDLALGPADSKEVCATCVQDFNNC 74
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRE-----CGRIKL----------------- 108
GH GHI+L V + ++ +L +C C R +
Sbjct: 75 SGHLGHIDLPLTVYNPFLFDKLYLLLRGSCLSCHMLTCPRAAIYLLISQLRVLEVGALQA 134
Query: 109 ----------------------TDEEIEEYMKKL----------ELAKNRRSEVNKILKE 136
EE+EEY K+ KN +K++ +
Sbjct: 135 VYELERILSRFLEETGDPSAFEIQEELEEYTSKILQNNLLGSQGTHVKNVCESRSKLVAQ 194
Query: 137 IHKKARERMVCPHCGAPQYPIKFE---KPTIYWEL----RKDEQGNEY------------ 177
K CPHC + ++ E K I + + D++G E
Sbjct: 195 FWKTHMAAKQCPHCKTGRSVVRKEHNSKLIITYPATVHKKSDQEGTELPEGVPEAPGIDK 254
Query: 178 -----KHRMMPTEIRDRLEKIPDKDLPLLG--------LHPEKS-RPEWMVLTVLPVPPV 223
+ + P+ ++ L I + L + PE S P L + VPP
Sbjct: 255 AQMGKRGYLTPSSAQEHLFAIWKNEGFFLNYLFSGLDDIGPESSFNPSMFFLDFIVVPPS 314
Query: 224 TARP-------------SITLETGIRAEDDLTHKLVDIIRINNRL----------KQNIE 260
RP ++ L+ + + L KL+ ++ +L K+N
Sbjct: 315 RYRPVNRLGDQMFTNGQTVNLQA-VMKDAVLIRKLLALMAQEQKLPCEMTELTIDKENDS 373
Query: 261 AGA-----------PQLI--IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQR 307
+ A P L + ++W LQ HV ++E + K+ R Q
Sbjct: 374 SVAIDRSFLGLLPGPSLTDKLYNIWIRLQSHVNIVFDSEMDKLMLEKYPGIR------QI 427
Query: 308 LKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKL 367
L+ KEG FR ++ GKRV+++AR+VI PD I+ NE+G+P+ A +LT P+ VT +N+++L
Sbjct: 428 LEKKEGLFRKHMMGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQEL 487
Query: 368 RKMVLNGPDKYPGANYVIDPEGRRIRIME---SNRENLARMIDIGWT----------VER 414
R+ V+NGP+ +PGA+ VI+ +G R + + RE +A+ + T V R
Sbjct: 488 RQAVINGPNVHPGASMVINEDGSRTALSSVDAAQREAVAKQLLTPATGAPKPQGTKVVCR 547
Query: 415 HLLDGDIVLFNRQPSLHRMSIMAHRVRVMPY-RTFRLNLAVCPPYNADFDGDEMNLHVPQ 473
H+ +GDI+L NRQP+LHR SI AHR R++P + RL+ A C YNADFDGDEMN H PQ
Sbjct: 548 HVKNGDILLLNRQPTLHRPSIQAHRARILPEEKVLRLHYANCKAYNADFDGDEMNAHFPQ 607
Query: 474 TEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFA 533
+E +AEA +L + P+ G P+ G IQDH+ G +T G +FTRE+ + L++
Sbjct: 608 SELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGANMTIRGCFFTREQYME-LVYR 666
Query: 534 GVDIKELPE---PDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIE 590
G+ K P PLW+GK + S LL + + Y + + + ++
Sbjct: 667 GLTDKVGRVKLFPPAILKPFPLWTGKQVVSTLLINIIPEDYAPLNLSGKAKIGS-KAWVK 725
Query: 591 EKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFL 650
EK P P+ + V I+ G+LL G +DK YG ++ YG E + + L
Sbjct: 726 EKPRPIPDFDPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSGRVL 785
Query: 651 DQVTKL-TIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEE----RVQKLIEAYKRGE 705
+ +L T ++ ++GFT G++D + A + II E+ + V+ + +
Sbjct: 786 TCLARLFTAYLQLYRGFTLGVEDILVKPNADVVRQRIIEESTQCGPQAVKAALSLPETAS 845
Query: 706 LEPLPGKTLEETLESKI-------MAVLAEARDNAGSIAEKYLGM-------DNHTVIMA 751
+ + GK + L M E + I + + + +N+ +M
Sbjct: 846 CDEIQGKWQDAHLSKDQRDFNMIDMKFKEEVNHYSNEINKACMPLGLHRQFPENNLQMMV 905
Query: 752 KTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSG 811
++GA+G +N Q++ LLGQ + G+R G+ L F+P + RA GFV + +G
Sbjct: 906 QSGAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTPRAGGFVTGRFLTG 965
Query: 812 LSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFR 871
+ P E+FFH M GREGLVDTAV+T++SGY+QR +I L+ L + YD TVRD G +VQF
Sbjct: 966 IRPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVIQYDLTVRDSDGSVVQFL 1025
Query: 872 YGEDGVDPMKS 882
YGEDG+D K+
Sbjct: 1026 YGEDGLDIPKT 1036
>gb|AAF58234.1| (AE003814) RpI1 gene product [Drosophila melanogaster]
Length = 1642
Score = 376 bits (956), Expect = e-103
Identities = 261/751 (34%), Positives = 397/751 (52%), Gaps = 83/751 (11%)
Query: 198 LPLLGL------HPEKSRPEWMVLTVLPVPPVTARPSITLETGIRA--EDDLTHKLVDII 249
+P+LGL ++S + + LPV P ARP + ++ + D+ +++
Sbjct: 274 VPVLGLSNTDLTQGDRSPVDLFFMDTLPVTPPRARPLNMVGDMLKGNPQTDIYINIIENN 333
Query: 250 RINNRLKQNIEAGAPQLIIE------------------DLWDLLQYHVTTYINNETSGVP 291
+ N + + ++ G +L E W LQ V ++ S
Sbjct: 334 HVLNVVLKYMKGGQEKLTEEAKAAYQTLKGETAHEKLYTAWLALQMSVDVLLDVNMS--- 390
Query: 292 PAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAM 351
+ KSG LK + ++ K G R ++ GKRVN++ARTVI+PDP I+++E+G+P A
Sbjct: 391 -REMKSGEGLKQIIEK---KSGLIRSHMMGKRVNYAARTVITPDPNINVDEIGIPDIFAK 446
Query: 352 ELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN---RENLARMI-- 406
+L+ P VTE+N+ +LRKMV+NGPD +PGANY+ D G I N RE+LA+++
Sbjct: 447 KLSYPVPVTEWNVTELRKMVMNGPDVHPGANYIQDKNGFTTYIPADNASKRESLAKLLLS 506
Query: 407 ---DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADF 462
D V RH+L+GD++L NRQPSLH+ SIM H+ R++ +TFRL+ + C YNADF
Sbjct: 507 NPKDGIKIVHRHVLNGDVLLLNRQPSLHKPSIMGHKARILHGEKTFRLHYSNCKAYNADF 566
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFT 522
DGDEMN H PQ+E A+AEA L+ V ++ + P+ G P+ G IQDH+ G L+ G +F
Sbjct: 567 DGDEMNAHYPQSEVARAEAYNLVNVASNYLVPKDGTPLGGLIQDHVISGVKLSIRGRFFN 626
Query: 523 REEVEQMLMFAGV-----DIKELPEPDKYENGKP--LWSGKTIFSLLLPDDLTVWYRNKL 575
RE+ +Q L+F G+ DIK LP KP LWSGK I S ++ + + Y
Sbjct: 627 REDYQQ-LVFQGLSQLKKDIKLLPPTIL----KPAVLWSGKQILSTIIINIIPEGYERIN 681
Query: 576 CDEPERCEALEKLIEEKLMP----DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDG 631
D + + P +PE + V I+NG+LL G +DK+ YG
Sbjct: 682 LDSFAKIAGKNWNVSRPRPPICGTNPEG--NDLSESQVQIRNGELLVGVLDKQQYGATTY 739
Query: 632 IILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAE 691
++ + YG + + L TK+ + + +GFT G+ D + + A + ++IIRE
Sbjct: 740 GLIHCMYELYGGDVSTLLLTAFTKVFTFFLQLEGFTLGVKDILVTDVADRKRRKIIRECR 799
Query: 692 ERVQKLIEAYKRGELEPLPGKTLEETLESKIMA-----VLAEARDNAGSIAEKYLGMDNH 746
+ A E EP P L E +E+ + VL + + S+ + Y N
Sbjct: 800 NVGNSAVAAALELEDEP-PHDELVEKMEAAYVKDSKFRVLLDRKYK--SLLDGYTNDINS 856
Query: 747 TVI---------------MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHF 791
T + M +GA+G ++N Q++ LLGQ + GKR G+ L F
Sbjct: 857 TCLPRGLITKFPSNNLQLMVLSGAKGSMVNTMQISCLLGQIELEGKRPPLMISGKSLPSF 916
Query: 792 KPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQD 851
+ ++ GF+ + +G+ PQ++FFH M GREGL+DTAV+T++SGY+QR LI L+
Sbjct: 917 TSFETSPKSGGFIDGRFMTGIQPQDFFFHCMAGREGLIDTAVKTSRSGYLQRCLIKHLEG 976
Query: 852 LKVDYDGTVRDPTGVIVQFRYGEDGVDPMKS 882
L V YD TVRD +VQF YGEDG+D +KS
Sbjct: 977 LSVHYDLTVRDSDNSVVQFLYGEDGLDILKS 1007
Score = 87.0 bits (212), Expect = 9e-16
Identities = 49/116 (42%), Positives = 67/116 (57%), Gaps = 8/116 (6%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMG----VIDPGLRCETCGAK 66
+EF + + QEIRK+S V+V T+D G+ I GG+ D RMG +DP C TC K
Sbjct: 16 LEFAVFTDQEIRKLSVVKVITGITFDALGHAIPGGLYDIRMGSYGRCMDP---CGTC-LK 71
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
+CPGH GHIEL PV + F K + R+L C C ++++ D E E M +L L
Sbjct: 72 LQDCPGHMGHIELGTPVYNPFFIKFVQRLLCIFCLHCYKLQMKDHECEIIMLQLRL 127
>pir||T06754 DNA-directed RNA polymerase I 190K chain homolog F15B8.150 -
Arabidopsis thaliana >gi|4678281|emb|CAB41189.1|
(AL049660) DNA-directed RNA polymerase I 190K chain-like
protein [Arabidopsis thaliana]
Length = 1670
Score = 375 bits (952), Expect = e-102
Identities = 264/802 (32%), Positives = 404/802 (49%), Gaps = 102/802 (12%)
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGL-------HPEKSRPEWMVLTVLP 219
E+ + + + K ++P+E+R+ L+ + + EK L +
Sbjct: 288 EVAAEFEEHNSKRDLLPSEVRNILKHLWQNEHEFCSFIGDLWQSGSEKIDYSMFFLESVL 347
Query: 220 VPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHV 279
VPP RP T + E T L +I NN L Q + W LQ V
Sbjct: 348 VPPTKFRPPTTGGDSVM-EHPQTVGLNKVIESNNILGNACTNKLDQSKVIFRWRNLQESV 406
Query: 280 TTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMIS 339
+++T+ V + SG + Q L+ KEG FR + GKRVN + R+VISPDP I+
Sbjct: 407 NVLFDSKTATVQSQRDSSG-----ICQLLEKKEGLFRQKMMGKRVNHACRSVISPDPYIA 461
Query: 340 INEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGR-RIRIMESN 398
+N++G+P A++LT PE+VT +N+EKLR+ ++NGPD +PGA + D ++ E
Sbjct: 462 VNDIGIPPCFALKLTYPERVTPWNVEKLREAIINGPDIHPGATHYSDKSSTMKLPSTEKA 521
Query: 399 RENLARMI--------------DI---GWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVR 441
R +AR + DI G TV RH+ DGDIVL NRQP+LH+ S+MAH+VR
Sbjct: 522 RRAIARKLLSSRGATTELGKTCDINFEGKTVHRHMRDGDIVLVNRQPTLHKPSLMAHKVR 581
Query: 442 VMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPI 500
V+ +T RL+ A C YNADFDGDEMN+H PQ E ++AEA ++ N P G P+
Sbjct: 582 VLKGEKTLRLHYANCSTYNADFDGDEMNVHFPQDEISRAEAYNIVNANNQYARPSNGEPL 641
Query: 501 IGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGV---------------------DIKE 539
IQDHI LLT+ + ++ Q+L +GV D +
Sbjct: 642 RALIQDHIVSSVLLTKRDTFLDKDHFNQLLFSSGVTDMVLSTFSGRSGKKVMVSASDAEL 701
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPD------DLTVWYRNKLCDEPERCEALEKLIEEKL 593
L PLW+GK + + +L TV KL + +C + E
Sbjct: 702 LTVTPAILKPVPLWTGKQVITAVLNQITKGHPPFTVEKATKLPVDFFKCRSREVKPNSGD 761
Query: 594 MPDPEEV----RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQF 649
+ +E+ ++ + ++I+ + + G IDK + D ++ + YG A
Sbjct: 762 LTKKKEIDESWKQNLNEDKLHIRKNEFVCGVIDKAQFA--DYGLVHTVHELYGSNAAGNL 819
Query: 650 LDQVTKL-TIWVITHKGFTTGIDD----EDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
L ++L T+++ TH GFT G+DD +D+ EE +++E E ++K
Sbjct: 820 LSVFSRLFTVFLQTH-GFTCGVDDLIILKDMDEERTKQLQECENVGERVLRKTFGIDVDV 878
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYL----------GMDNHTV------ 748
+++P + + S+I +L E ++A + ++ + G+ N +
Sbjct: 879 QIDP-------QDMRSRIERILYEDGESALASLDRSIVNYLNQCSSKGVMNDLLSDGLLK 931
Query: 749 --------IMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
+M +GA+G +N Q+++ LGQQ + GKR+ R G+ L F P D RA
Sbjct: 932 TPGRNCISLMTISGAKGSKVNFQQISSHLGQQDLEGKRVPRMVSGKTLPCFHPWDWSPRA 991
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
GF+ + + SGL PQEY+FH M GREGLVDTAV+T++SGY+QR L+ L+ LKV+YD TV
Sbjct: 992 GGFISDRFLSGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLMKNLESLKVNYDCTV 1051
Query: 861 RDPTGVIVQFRYGEDGVDPMKS 882
RD G I+QF+YGEDGVD +S
Sbjct: 1052 RDADGSIIQFQYGEDGVDVHRS 1073
Score = 83.1 bits (202), Expect = 1e-14
Identities = 39/117 (33%), Positives = 62/117 (52%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
+V+ S+ F ++ Q++RK S ++VT P +D+ G P GG+ D ++G D C +CG
Sbjct: 25 QVVESVRFSFMTEQDVRKHSFLKVTSPILHDNVGNPFPGGLYDLKLGPKDDKQACNSCGQ 84
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
CPGH GHIEL P+ H + L+ C C E++E + +L+L
Sbjct: 85 LKLACPGHCGHIELVFPIYHPLLFNLLFNFLQRACFFCHHFMAKPEDVERAVSQLKL 141
>gi|7661686 DKFZP586M0122 protein [Homo sapiens] >gi|4096591|gb|AAC99959.1|
(U33460) DNA-directed RNA polymerase I, largest subunit
[Homo sapiens]
Length = 1717
Score = 365 bits (926), Expect = 2e-99
Identities = 307/1034 (29%), Positives = 474/1034 (45%), Gaps = 181/1034 (17%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGEC 70
I FG+ S +E++K+S +T P D G P G+ D +G D C TC C
Sbjct: 15 ISFGMYSAEELKKLSVKSITNPRYLDSLGNPSANGLYDLALGPADSKEVCSTCVQDFSNC 74
Query: 71 PGHFGHIELA-----------------------------RPVIH----------VGFAKT 91
GH GHIEL R VIH VG +
Sbjct: 75 SGHLGHIELPLTVYNPLLFDKLYLLLRGSCLNCHMLTCPRAVIHLLLCQLRVLEVGALQA 134
Query: 92 IH---RILESTCRECGRIKLTD--EEIEEYMKKLEL----------AKNRRSEVNKILKE 136
++ RIL E ++ EE+E+Y ++ KN +K++
Sbjct: 135 VYELERILSRFLEENADPSASEIREELEQYTTEIVQNNLLGSQGAHVKNVCESKSKLIAL 194
Query: 137 IHKKARERMVCPHCGAPQYPIKFE---KPTIYWEL-------RKDEQ--GNEY-----KH 179
K CPHC + ++ E K TI + +KD + G E +
Sbjct: 195 FWKAHMNAKRCPHCKTGRSVVRKEHNSKLTITFPAMVHRTAGQKDSEPLGIEEAQIGKRG 254
Query: 180 RMMPTEIRDRLEKIPDKDLPLL-----GLHPE----KSRPEWMVLTVLPVPPVTARP--- 227
+ PT R+ L + + L G+ + + P L L VPP +RP
Sbjct: 255 YLTPTSAREHLSALWKNEGFFLNYLFSGMDDDGMESRFNPSVFFLDFLVVPPSRSRPVSR 314
Query: 228 ----------SITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAP------------- 264
++ L+ + + L KL+ ++ +L + +
Sbjct: 315 LGDQMFTNGQTVNLQA-VMKDVVLIRKLLALMAQEQKLPEEVATPTTDEEKDSLIAIDRS 373
Query: 265 -------QLIIEDL---WDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGR 314
Q +I+ L W LQ HV ++E + K+ R Q L+ KEG
Sbjct: 374 FLSTLPGQSLIDKLYNIWIRLQSHVNIVFDSEMDKLMRDKYPGIR------QILEKKEGL 427
Query: 315 FRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNG 374
FR ++ GKRV+ +AR+VI PD I+ NE+G+P+ A +LT P+ VT +N+++LR+ V+NG
Sbjct: 428 FRKHMMGKRVDSTARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQELRQAVING 487
Query: 375 PDKYPGANYVIDPEGRRIRIME---SNRENLARMIDIGWT----------VERHLLDGDI 421
P+ +PGA+ VI+ +G R + + RE +A+ + T V RH+ +GDI
Sbjct: 488 PNVHPGASMVINEDGSRTALSAVDMTQREAVAKQLLTPATGAPKPQGTKIVCRHVKNGDI 547
Query: 422 VLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
+L NRQP+LHR SI AHR R++P + RL+ A C YNADFDGDEMN H PQ+E +AE
Sbjct: 548 LLLNRQPTLHRPSIQAHRARILPEEKVLRLHYANCKAYNADFDGDEMNAHFPQSELGRAE 607
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIK-- 538
A +L + P+ G P+ G IQDH+ G +T G +FTRE + L++ G+ K
Sbjct: 608 AYVLACTDQQYLVPKDGQPLAGLIQDHMVSGASMTTRGCFFTREHYME-LVYRGLTDKVG 666
Query: 539 --ELPEPDKYENGKPLWSGKTIFSLLL----PDDLTVWYRNKLCDEPERCEALEKLIEEK 592
+L P + PLW+GK + S LL P+D P K+ +
Sbjct: 667 RVKLLSPSILK-PFPLWTGKQVVSTLLINIIPED----------HIPLNLSGKAKITGKA 715
Query: 593 LMPD-PEEVRKLAYDGF----VYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERAR 647
+ + P V D V I+ G+LL G +DK YG ++ YG E +
Sbjct: 716 WVKETPRSVPGFNPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSG 775
Query: 648 QFLDQVTKL-TIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA----EERVQKLIEAYK 702
+ L + +L T ++ ++GFT G++D + + + + II E+ + V+ + +
Sbjct: 776 KVLTCLARLFTAYLQLYRGFTLGVEDILVKPKRDVKRQRIIEESTHCGPQAVRAALNLPE 835
Query: 703 RGELEPLPGKTLEETLESK-------IMAVLAEARDNAGSIAEKYLGM-------DNHTV 748
+ + GK + L + E + I + + +N
Sbjct: 836 AASYDEVRGKWQDAHLGKDQRDFNMIDLKFKEEVNHYSNEINKACMPFGLHRQFPENTLQ 895
Query: 749 IMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSY 808
+M ++GA+G +N Q++ LLGQ + G+ G+ L F+P + RA GFV +
Sbjct: 896 LMVQSGAKGSTVNTMQISCLLGQIELEGRSTPLMASGKSLPCFEPYEFTPRAGGFVTGRF 955
Query: 809 KSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIV 868
+G+ P E+FFH M GREGLVDTAV+T++SGY+QR +I L+ L V YD TVRD G +V
Sbjct: 956 LTGIKPPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVVQYDLTVRDSDGSVV 1015
Query: 869 QFRYGEDGVDPMKS 882
QF YGEDG+D K+
Sbjct: 1016 QFLYGEDGLDIPKT 1029
>sp|P91875|RPA1_DROME DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT >gi|7511845|pir||T13803
DNA-directed RNA polymerase (EC 2.7.7.6) I large chain -
fruit fly (Drosophila melanogaster)
>gi|1865779|emb|CAA70321.1| (Y09103) largest subunit of
RNA polymerase I (A) [Drosophila melanogaster]
Length = 1644
Score = 364 bits (924), Expect = 3e-99
Identities = 258/752 (34%), Positives = 395/752 (52%), Gaps = 84/752 (11%)
Query: 198 LPLLGL------HPEKSRPEWMVLTVLPVPPVTARPSITLETGIRA--EDDLTHKLVDII 249
+P+LGL ++S + + LPV P ARP + ++ + D+ +++
Sbjct: 274 VPVLGLSNTDLTQGDRSPVDLFFMDTLPVTPPRARPLNMVGDMLKGNPQTDIYINIIENN 333
Query: 250 RINNRLKQNIEAGAPQLIIE------------------DLWDLLQYHVTTYINNETSGVP 291
+ N + + ++ G +L E W LQ V ++ S
Sbjct: 334 HVLNVVLKYMKGGQEKLTEEAKAAYQTLKGETAHEKLYTAWLALQMSVDVLLDVNMS--- 390
Query: 292 PAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD-PMISINEVGVPIQIA 350
+ KSG LK + ++ K G R ++ GKRVN++ARTVI+P P I+++E+G+P A
Sbjct: 391 -REMKSGEGLKQIIEK---KCGLIRSHMMGKRVNYAARTVITPAYPNINVDEIGIPDIFA 446
Query: 351 MELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN---RENLARMI- 406
+L+ P VTE+N+ +RKMV+NGPD +PGANY+ D G I N RE+LA+++
Sbjct: 447 KKLSYPVPVTEWNVTDVRKMVMNGPDVHPGANYIQDKNGFTTYIPADNASKRESLAKLLL 506
Query: 407 ----DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNAD 461
D V RH+L+GD++L NRQPSLH+ SIM H+ R++ +TFRL+ + C YNAD
Sbjct: 507 SNPKDGIKIVHRHVLNGDVLLLNRQPSLHKPSIMGHKARILHGEKTFRLHYSNCKAYNAD 566
Query: 462 FDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYF 521
FDGDEMN H PQ+E A+AEA L+ V ++ + P+ G P+ G IQDH+ G L+ G +F
Sbjct: 567 FDGDEMNAHYPQSEVARAEAYNLVNVASNYLVPKDGTPLGGLIQDHVISGVKLSIRGRFF 626
Query: 522 TREEVEQMLMFAGV-----DIKELPEPDKYENGKP--LWSGKTIFSLLLPDDLTVWYRNK 574
RE+ +Q L+F G+ DIK LP KP LWSGK I S ++ + + Y
Sbjct: 627 NREDYQQ-LVFQGLSQLKKDIKLLPPTIL----KPAVLWSGKQILSTIIINIIPEGYERI 681
Query: 575 LCDEPERCEALEKLIEEKLMP----DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGRED 630
D + + P +PE + V I+NG+LL G +DK+ YG
Sbjct: 682 NLDSFAKIAGKNWNVSRPRPPICGTNPEG--NDLSESQVQIRNGELLVGVLDKQQYGATT 739
Query: 631 GIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREA 690
++ + YG + + + TK+ + + +GFT G+ D + + A + ++IIRE
Sbjct: 740 YGLIHCMYELYGGDVSTLLVTAFTKVFTFFLQLEGFTLGVKDILVTDVADRKRRKIIREC 799
Query: 691 EERVQKLIEAYKRGELEPLPGKTLEETLESKIMA-----VLAEARDNAGSIAEKYLGMDN 745
+ A E EP P L E +E+ + VL + + S+ + Y N
Sbjct: 800 RNVGNSAVAAALELEDEP-PHDELVEKMEAAYVKDSKFRVLLDRKYK--SLLDGYTNDIN 856
Query: 746 HTVI---------------MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSH 790
T + M +GA+G ++N Q++ LLGQ + GKR G+ L
Sbjct: 857 STCLPRGLITKFPSNNLQLMVLSGAKGSMVNTMQISCLLGQIELEGKRPPLMISGKSLPS 916
Query: 791 FKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQ 850
F + ++ GF+ + +G+ PQ++FFH M GREGL+DTAV+T++SGY+QR LI L+
Sbjct: 917 FTSFETSPKSGGFIDGRFMTGIQPQDFFFHCMAGREGLIDTAVKTSRSGYLQRCLIKHLE 976
Query: 851 DLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKS 882
L V YD TVRD +VQF YGEDG+D +KS
Sbjct: 977 GLSVHYDLTVRDSDNSVVQFLYGEDGLDILKS 1008
Score = 87.0 bits (212), Expect = 9e-16
Identities = 49/116 (42%), Positives = 67/116 (57%), Gaps = 8/116 (6%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMG----VIDPGLRCETCGAK 66
+EF + + QEIRK+S V+V T+D G+ I GG+ D RMG +DP C TC K
Sbjct: 16 LEFAVFTDQEIRKLSVVKVITGITFDALGHAIPGGLYDIRMGSYGRCMDP---CGTC-LK 71
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
+CPGH GHIEL PV + F K + R+L C C ++++ D E E M +L L
Sbjct: 72 LQDCPGHMGHIELGTPVYNPFFIKFVQRLLCIFCLHCYKLQMKDHECEIIMLQLRL 127
>gb|AAA34890.1| (J03530) RNA polymerase A(I) large subunit [Saccharomyces cerevisiae]
Length = 1664
Score = 363 bits (923), Expect = 4e-99
Identities = 257/760 (33%), Positives = 392/760 (50%), Gaps = 74/760 (9%)
Query: 181 MMPTEIRDRLEKIPDKDLPLLGL----HPEKSRP----EWMVLTVLPVPPVTARPSITL- 231
++ TE+++ L+ + K+ +L P SR + + VL VPP R L
Sbjct: 315 ILSTEVKNILDTVFRKEQCVLQYVFHSRPNLSRKLVKADSFFMDVLVVPPTRFRLPSKLG 374
Query: 232 -ETGIRAEDDLTHKLVDIIRINNRLKQNI-EAGAPQLIIEDLWDLLQYHVTTY--INNET 287
E +++ L K++ + L ++ + ++ +ED + + + I N+
Sbjct: 375 EEVHENSQNQLLSKVLTTSLLIRDLNDDLSKLQKDKVSLEDRRVIFSRLMNAFVTIQNDV 434
Query: 288 SGVPPAKHKSGR-----PLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
+ + GR P+ + Q L+ KEG FR ++ GKRVN++AR+VISPDP I NE
Sbjct: 435 NAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKRVNYAARSVISPDPNIETNE 494
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN---R 399
+GVP A++LT PE VT +NI +LR+ V+NGPDK+PGA + + +G + ++ + R
Sbjct: 495 IGVPPVFAVKLTYPEPVTAYNIAELRQAVINGPDKWPGATQIQNEDGSLVSLIGMSVEQR 554
Query: 400 ENLARMI----------DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPY-RTF 448
+ LA + + V RH+ + D+VL NRQP+LH+ S+M H+VRV+P +T
Sbjct: 555 KALANQLLTPSSNVSTHTLNKKVYRHIKNRDVVLMNRQPTLHKASMMGHKVRVLPNEKTL 614
Query: 449 RLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHI 508
RL+ A YNADFDGDEMN+H PQ E A+AEA L + ++P G P+ G IQDHI
Sbjct: 615 RLHYANTGAYNADFDGDEMNMHFPQNENARAEALNLANTDSQYLTPTSGSPVRGLIQDHI 674
Query: 509 SGGYLLTREGAYFTREEVEQMLMFA-------GVDIKELPEPDKYENGKPLWSGKTIFSL 561
S G LT + ++FTRE+ +Q + K + P PLW+GK I +
Sbjct: 675 SAGVWLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLPPTIFKPYPLWTGKQIITT 734
Query: 562 LLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAI 621
+L L P + + + K+ E K + + V ++G LL G +
Sbjct: 735 VL-----------LNVTPPDMPGINLISKNKIKN--EYWGKGSLENEVLFKDGALLCGIL 781
Query: 622 DKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARD 681
DK YG I+ + YG E A + L + +L IT FT G+DD L E
Sbjct: 782 DKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLRLTAEGNK 841
Query: 682 RIKEII-------REAEERVQKLIEAYKRGELEPLPGKTLEETL----ESKIMAVLAEAR 730
+I+ REA V L + + E L K L+E L +S I+ + ++
Sbjct: 842 WRTDILKTSVDTGREAAAEVTNLDKDTPADDPELL--KRLQEILRDNNKSGILDAVTSSK 899
Query: 731 DNA--GSIAEKYLGMD-------NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
NA + K + N MA +GA+G +N++Q+ LLGQQ++ G+R+
Sbjct: 900 VNAITSQVVSKCVPDGTMKKFPCNSMQAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPV 959
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+ L FKP + A A G+V + SG+ PQEY+FH M GREGL+DTAV+T++SGY+
Sbjct: 960 MVSGKTLPSFKPYETDAMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYL 1019
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
QR L L+ + V YD ++RD G +VQF YG D +D K
Sbjct: 1020 QRCLTKQLEGVHVSYDNSIRDADGTLVQFMYGGDAIDITK 1059
Score = 87.8 bits (214), Expect = 5e-16
Identities = 45/115 (39%), Positives = 64/115 (55%), Gaps = 1/115 (0%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
I S++FGIL+ +EIR +SA ++T P D+ G+P+ GG+ D +G L C TCG
Sbjct: 11 ITSVDFGILTAKEIRNLSAKQITNPTVLDNLGHPVSGGLYDLALGAFLRNL-CSTCGLDE 69
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
CPGH GHIEL P + F ++ L ++C C +L E+ Y KL L
Sbjct: 70 KFCPGHQGHIELPVPCYNPLFFNQLYIYLRASCLFCHHFRLKSVEVHRYACKLRL 124
>gi|6324917 RNA polymerase I subunit 190 (alpha); Rpa190p [Saccharomyces
cerevisiae] >gi|2507346|sp|P10964|RPA1_YEAST DNA-DIRECTED
RNA POLYMERASE I 190 KD POLYPEPTIDE (A190)
>gi|2131238|pir||S67250 DNA-directed RNA polymerase (EC
2.7.7.6) I 190K chain - yeast (Saccharomyces cerevisiae)
>gi|1199844|emb|CAA65029.1| (X95720) O6276 [Saccharomyces
cerevisiae] >gi|1420741|emb|CAA99665.1| (Z75249) ORF
YOR341w [Saccharomyces cerevisiae]
Length = 1664
Score = 363 bits (923), Expect = 4e-99
Identities = 257/760 (33%), Positives = 392/760 (50%), Gaps = 74/760 (9%)
Query: 181 MMPTEIRDRLEKIPDKDLPLLGL----HPEKSRP----EWMVLTVLPVPPVTARPSITL- 231
++ TE+++ L+ + K+ +L P SR + + VL VPP R L
Sbjct: 315 ILSTEVKNILDTVFRKEQCVLQYVFHSRPNLSRKLVKADSFFMDVLVVPPTRFRLPSKLG 374
Query: 232 -ETGIRAEDDLTHKLVDIIRINNRLKQNI-EAGAPQLIIEDLWDLLQYHVTTY--INNET 287
E +++ L K++ + L ++ + ++ +ED + + + I N+
Sbjct: 375 EEVHENSQNQLLSKVLTTSLLIRDLNDDLSKLQKDKVSLEDRRVIFSRLMNAFVTIQNDV 434
Query: 288 SGVPPAKHKSGR-----PLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
+ + GR P+ + Q L+ KEG FR ++ GKRVN++AR+VISPDP I NE
Sbjct: 435 NAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKRVNYAARSVISPDPNIETNE 494
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN---R 399
+GVP A++LT PE VT +NI +LR+ V+NGPDK+PGA + + +G + ++ + R
Sbjct: 495 IGVPPVFAVKLTYPEPVTAYNIAELRQAVINGPDKWPGATQIQNEDGSLVSLIGMSVEQR 554
Query: 400 ENLARMI----------DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPY-RTF 448
+ LA + + V RH+ + D+VL NRQP+LH+ S+M H+VRV+P +T
Sbjct: 555 KALANQLLTPSSNVSTHTLNKKVYRHIKNRDVVLMNRQPTLHKASMMGHKVRVLPNEKTL 614
Query: 449 RLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHI 508
RL+ A YNADFDGDEMN+H PQ E A+AEA L + ++P G P+ G IQDHI
Sbjct: 615 RLHYANTGAYNADFDGDEMNMHFPQNENARAEALNLANTDSQYLTPTSGSPVRGLIQDHI 674
Query: 509 SGGYLLTREGAYFTREEVEQMLMFA-------GVDIKELPEPDKYENGKPLWSGKTIFSL 561
S G LT + ++FTRE+ +Q + K + P PLW+GK I +
Sbjct: 675 SAGVWLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLPPTIFKPYPLWTGKQIITT 734
Query: 562 LLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAI 621
+L L P + + + K+ E K + + V ++G LL G +
Sbjct: 735 VL-----------LNVTPPDMPGINLISKNKIKN--EYWGKGSLENEVLFKDGALLCGIL 781
Query: 622 DKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARD 681
DK YG I+ + YG E A + L + +L IT FT G+DD L E
Sbjct: 782 DKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLRLTAEGNK 841
Query: 682 RIKEII-------REAEERVQKLIEAYKRGELEPLPGKTLEETL----ESKIMAVLAEAR 730
+I+ REA V L + + E L K L+E L +S I+ + ++
Sbjct: 842 WRTDILKTSVDTGREAAAEVTNLDKDTPADDPELL--KRLQEILRDNNKSGILDAVTSSK 899
Query: 731 DNA--GSIAEKYLGMD-------NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
NA + K + N MA +GA+G +N++Q+ LLGQQ++ G+R+
Sbjct: 900 VNAITSQVVSKCVPDGTMKKFPCNSMQAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPV 959
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+ L FKP + A A G+V + SG+ PQEY+FH M GREGL+DTAV+T++SGY+
Sbjct: 960 MVSGKTLPSFKPYETDAMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYL 1019
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
QR L L+ + V YD ++RD G +VQF YG D +D K
Sbjct: 1020 QRCLTKQLEGVHVSYDNSIRDADGTLVQFMYGGDAIDITK 1059
Score = 87.8 bits (214), Expect = 5e-16
Identities = 45/115 (39%), Positives = 64/115 (55%), Gaps = 1/115 (0%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
I S++FGIL+ +EIR +SA ++T P D+ G+P+ GG+ D +G L C TCG
Sbjct: 11 ITSVDFGILTAKEIRNLSAKQITNPTVLDNLGHPVSGGLYDLALGAFLRNL-CSTCGLDE 69
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
CPGH GHIEL P + F ++ L ++C C +L E+ Y KL L
Sbjct: 70 KFCPGHQGHIELPVPCYNPLFFNQLYIYLRASCLFCHHFRLKSVEVHRYACKLRL 124
>sp|P27625|RPC1_PLAFA DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
>gi|160596|gb|AAA29729.1| (M73770) RNA polymerase III
largest subunit [Plasmodium falciparum]
Length = 2339
Score = 362 bits (919), Expect = 1e-98
Identities = 201/493 (40%), Positives = 302/493 (60%), Gaps = 17/493 (3%)
Query: 391 RIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRL 450
+I + +N+ ++ + ++IG VERH+ DGDIVLFNRQPSLHRMSIM H+ ++M ++TFR
Sbjct: 541 KISLKYANKNHVIQNLNIGDVVERHICDGDIVLFNRQPSLHRMSIMCHKAKIMDFKTFRF 600
Query: 451 NLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISG 510
N VC PYNADFDGDEMNL VPQTEEA+AEA LM V++++I+P+ G II QD +S
Sbjct: 601 NECVCSPYNADFDGDEMNLDVPQTEEARAEALYLMNVKHNLITPKNGEVIIALTQDFLSA 660
Query: 511 GYLLTREGAYFTREEVEQMLMF---AGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDL 567
Y++T + + R+ + + A + I ELP P + K LW+GK + S+L+
Sbjct: 661 SYIITNKDTFLDRDTFCLLCSYFSDASLYI-ELPIPAILKP-KELWTGKQLISVLIKP-- 716
Query: 568 TVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAY-DGFVYIQNGKLLSGAIDKKAY 626
NK + E E+ K +++ L D +V +L+ G++ KK
Sbjct: 717 -----NKKENTIINFEIQEREYSNKF----GDLKHLCLNDSYVCFYKSELICGSLGKKVL 767
Query: 627 GREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
G + ++ A + +++++KLT ++KG T GIDD + ++ K++
Sbjct: 768 GSSKYGLFYYLIHHNSSHIALKIMNRLSKLTSRYFSNKGMTIGIDDVRPSQTLTEKKKDL 827
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNH 746
+ + E+V I Y +++ PG TLEETLE K+ ++L + R++AG +YL N
Sbjct: 828 LLKGYEKVNNEIILYNEKKMQIQPGCTLEETLEIKVKSILDDLRNDAGKTCNQYLHYLNK 887
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
+IM +GA+G ++NI QM A +GQQ++ G+R+ GF R L HF + ++GFV N
Sbjct: 888 PLIMFNSGAKGALINIAQMIACVGQQNVAGQRIQNGFINRTLPHFHFHCKDSESRGFVQN 947
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ +GLSP E+FFH M GREGLVDTAV+TA++GYMQRRL+ AL+DL + YD +VR
Sbjct: 948 SFYTGLSPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKALEDLSIHYDYSVRSCDKQ 1007
Query: 867 IVQFRYGEDGVDP 879
IVQF YG+D ++P
Sbjct: 1008 IVQFIYGDDALNP 1020
Score = 235 bits (594), Expect = 1e-60
Identities = 150/393 (38%), Positives = 215/393 (54%), Gaps = 22/393 (5%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTY-DDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
I SI FGI+S ++I K S V++ + Y ++ G P GV+D ++G CETC K
Sbjct: 35 IKSIRFGIMSKEDIIKYSEVKIMNREMYKNNSGIPYPYGVLDLKLGAHKSNSVCETCNKK 94
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNR 126
C GHFG+IEL PV H+G+ K I IL C+ C + L+ E+I+ Y + + +
Sbjct: 95 LINCSGHFGYIELNYPVFHIGYYKYIIHILYCICKYCSSLLLSKEKIDFYCNLKKKSTDD 154
Query: 127 RSEVNKILKEIHKKARERMVCPHCGAPQYPIK-FEKPTIYWELRKDEQGNEYKHRMMPTE 185
+ K I ++ C CG PQ IK KP++ +Q + KH + E
Sbjct: 155 SFYKKHLFKRILNNCKKVNKCYICGNPQGVIKKIIKPSL-------DQFMKLKHILKVKE 207
Query: 186 IRDRLEKIPD-KDLPLLGLHPEKS----------RPEWMVLTVLPVPPVTARPSITLETG 234
+ K D L +L L + PE +++T L VPP T RPS+ ++
Sbjct: 208 NGKMIIKEEDLNSLYVLKLFKNINPYHVKLLNIENPEKLIITALLVPPNTIRPSVIIDEH 267
Query: 235 IRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPP-- 292
AEDDLT L +I ++NN + G + LQ +T +IN+++ V
Sbjct: 268 GTAEDDLTCILSEITQLNNTIYNQCTNGYQTNQFLGNVEFLQLQITRFINSDSPAVSQLL 327
Query: 293 AKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAME 352
A +P + + QRLKGKEGRFR NLSGKRV+FS+RTVISPDP ISI+EV +P IAM
Sbjct: 328 ATQNISKPGRGICQRLKGKEGRFRCNLSGKRVDFSSRTVISPDPNISIDEVVIPKIIAMR 387
Query: 353 LTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVI 385
LT PE V ++NI+KL+ ++ NG +K+PGANY+I
Sbjct: 388 LTYPETVNKYNIDKLKMLIKNGCNKWPGANYII 420
>pir||A45597 DNA-directed RNA polymerase (EC 2.7.7.6) III largest chain - malaria
parasite (Plasmodium falciparum)
Length = 2339
Score = 362 bits (919), Expect = 1e-98
Identities = 201/493 (40%), Positives = 302/493 (60%), Gaps = 17/493 (3%)
Query: 391 RIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRL 450
+I + +N+ ++ + ++IG VERH+ DGDIVLFNRQPSLHRMSIM H+ ++M ++TFR
Sbjct: 541 KISLKYANKNHVIQNLNIGDVVERHICDGDIVLFNRQPSLHRMSIMCHKAKIMDFKTFRF 600
Query: 451 NLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISG 510
N VC PYNADFDGDEMNL VPQTEEA+AEA LM V++++I+P+ G II QD +S
Sbjct: 601 NECVCSPYNADFDGDEMNLDVPQTEEARAEALYLMNVKHNLITPKNGEVIIALTQDFLSA 660
Query: 511 GYLLTREGAYFTREEVEQMLMF---AGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDL 567
Y++T + + R+ + + A + I ELP P + K LW+GK + S+L+
Sbjct: 661 SYIITNKDTFLDRDTFCLLCSYFSDASLYI-ELPIPAILKP-KELWTGKQLISVLIKP-- 716
Query: 568 TVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAY-DGFVYIQNGKLLSGAIDKKAY 626
NK + E E+ K +++ L D +V +L+ G++ KK
Sbjct: 717 -----NKKENTIINFEIQEREYSNKF----GDLKHLCLNDSYVCFYKSELICGSLGKKVL 767
Query: 627 GREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
G + ++ A + +++++KLT ++KG T GIDD + ++ K++
Sbjct: 768 GSSKYGLFYYLIHHNSSHIALKIMNRLSKLTSRYFSNKGMTIGIDDVRPSQTLTEKKKDL 827
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNH 746
+ + E+V I Y +++ PG TLEETLE K+ ++L + R++AG +YL N
Sbjct: 828 LLKGYEKVNNEIILYNEKKMQIQPGCTLEETLEIKVKSILDDLRNDAGKTCNQYLHYLNK 887
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
+IM +GA+G ++NI QM A +GQQ++ G+R+ GF R L HF + ++GFV N
Sbjct: 888 PLIMFNSGAKGALINIAQMIACVGQQNVAGQRIQNGFINRTLPHFHFHCKDSESRGFVQN 947
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ +GLSP E+FFH M GREGLVDTAV+TA++GYMQRRL+ AL+DL + YD +VR
Sbjct: 948 SFYTGLSPTEFFFHTMSGREGLVDTAVKTAETGYMQRRLMKALEDLSIHYDYSVRSCDKQ 1007
Query: 867 IVQFRYGEDGVDP 879
IVQF YG+D ++P
Sbjct: 1008 IVQFIYGDDALNP 1020
Score = 235 bits (594), Expect = 1e-60
Identities = 150/393 (38%), Positives = 215/393 (54%), Gaps = 22/393 (5%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTY-DDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
I SI FGI+S ++I K S V++ + Y ++ G P GV+D ++G CETC K
Sbjct: 35 IKSIRFGIMSKEDIIKYSEVKIMNREMYKNNSGIPYPYGVLDLKLGAHKSNSVCETCNKK 94
Query: 67 AGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNR 126
C GHFG+IEL PV H+G+ K I IL C+ C + L+ E+I+ Y + + +
Sbjct: 95 LINCSGHFGYIELNYPVFHIGYYKYIIHILYCICKYCSSLLLSKEKIDFYCNLKKKSTDD 154
Query: 127 RSEVNKILKEIHKKARERMVCPHCGAPQYPIK-FEKPTIYWELRKDEQGNEYKHRMMPTE 185
+ K I ++ C CG PQ IK KP++ +Q + KH + E
Sbjct: 155 SFYKKHLFKRILNNCKKVNKCYICGNPQGVIKKIIKPSL-------DQFMKLKHILKVKE 207
Query: 186 IRDRLEKIPD-KDLPLLGLHPEKS----------RPEWMVLTVLPVPPVTARPSITLETG 234
+ K D L +L L + PE +++T L VPP T RPS+ ++
Sbjct: 208 NGKMIIKEEDLNSLYVLKLFKNINPYHVKLLNIENPEKLIITALLVPPNTIRPSVIIDEH 267
Query: 235 IRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPP-- 292
AEDDLT L +I ++NN + G + LQ +T +IN+++ V
Sbjct: 268 GTAEDDLTCILSEITQLNNTIYNQCTNGYQTNQFLGNVEFLQLQITRFINSDSPAVSQLL 327
Query: 293 AKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAME 352
A +P + + QRLKGKEGRFR NLSGKRV+FS+RTVISPDP ISI+EV +P IAM
Sbjct: 328 ATQNISKPGRGICQRLKGKEGRFRCNLSGKRVDFSSRTVISPDPNISIDEVVIPKIIAMR 387
Query: 353 LTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVI 385
LT PE V ++NI+KL+ ++ NG +K+PGANY+I
Sbjct: 388 LTYPETVNKYNIDKLKMLIKNGCNKWPGANYII 420
>sp|P15398|RPA1_SCHPO DNA-DIRECTED RNA POLYMERASE I 190 KDA POLYPEPTIDE
>gi|82799|pir||JS0080 DNA-directed RNA polymerase (EC
2.7.7.6) I 189K chain - fission yeast
(Schizosaccharomyces pombe) >gi|7490483|pir||T40492
dna-directed rna polymerase i 190 kd polypeptide -
fission yeast (Schizosaccharomyces pombe)
>gi|173433|gb|AAA35326.1| (M37411) RNA polymerase I
largest subunit [Schizosaccharomyces pombe]
>gi|2832886|emb|CAA16827.1| (AL021730) dna-directed rna
polymerase i 190 kd polypeptide [Schizosaccharomyces
pombe]
Length = 1689
Score = 360 bits (915), Expect = 3e-98
Identities = 243/769 (31%), Positives = 400/769 (51%), Gaps = 87/769 (11%)
Query: 181 MMPTEIRDRLEKIPDKDLPLLG-LHPEK----SRPEWMVLTVLPVPPVTARPSITLETGI 235
M TE+R+ L ++ K+ +L L+ K + + L + VPP RP+ + G
Sbjct: 323 MTSTEVRNHLRRLFVKENVVLSRLYAHKRGKPASADMFFLQNIAVPPTRFRPASKM--GD 380
Query: 236 RAEDDLTHKLV----------------DIIRINNRLKQNIE--AGAPQLIIEDLWDLLQY 277
+++ ++L+ + +N K+ +E + A +L+I + + LQ+
Sbjct: 381 EVHENIQNELLTRILQSSIQIASLSKDSTVEVNPDEKEGLERRSRAFELLI-NAFVQLQH 439
Query: 278 HVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPM 337
V + I++ + P + +S + Q L+ KEG FR ++ GKRVN++AR+VISPDP
Sbjct: 440 DVNSLIDSNRN--PSSGGQSRTVPPGIKQILEKKEGLFRKHMMGKRVNYAARSVISPDPN 497
Query: 338 ISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIME- 396
I NE+GVP A +LT PE VT +N ++R V+NGP K+PGA+++ + +G I +M
Sbjct: 498 IETNEIGVPPVFATKLTYPEPVTLYNFNEMRNAVINGPHKWPGASHIQNEDGTLISLMPL 557
Query: 397 --------------------SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIM 436
S+ + +R+I+ V RH+ +GD+++ NRQP+LH+ S+M
Sbjct: 558 TIEQRTALANQLLTPQSNLISSPYSYSRLINTNKKVYRHVRNGDMLILNRQPTLHKPSMM 617
Query: 437 AHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPR 495
AH+ R++P +T R++ A C YNADFDGDEMN+H PQ+ A++EA+ + + + P
Sbjct: 618 AHKARILPGEKTIRMHYANCNSYNADFDGDEMNMHFPQSTNARSEAQFIANTDSQYLVPT 677
Query: 496 YGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFA------GVDIKELPEPDKYENG 549
G P+ G IQDH+ G LT + ++TR+E +Q+L A G+ + P +
Sbjct: 678 SGDPLRGLIQDHVVMGVWLTCKDTFYTRDEYQQLLFQALKPDETGMYGRIKTLPPAIQRP 737
Query: 550 KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE-RCEALEKLIEEKLMPDPEEVRKLAYDGF 608
W+GK I S +V K D P ++ K+ + PD EE G
Sbjct: 738 GIYWTGKQIIS-------SVLLNLKPSDRPGLNLKSKAKVPGKYWSPDSEE-------GS 783
Query: 609 VYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTT 668
V +G+LL G +DK ++G ++ + YG + A + L +++L +GFT
Sbjct: 784 VLFDDGELLCGILDKSSFGASAFGLVHSVHELYGPDIAGRLLSVLSRLFTAYAQMRGFTC 843
Query: 669 GIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELE---PLPGKTLEETL--ESKIM 723
+DD L E+ + ++++ + + Y + L LEE + K+
Sbjct: 844 RMDDLRLDEQGDNWRRQLLENGKSFGLEAASEYVGLSTDSPIALLNANLEEVYRDDEKLQ 903
Query: 724 AVLAEARDNAGSIAEKYLGM-----------DNHTVIMAKTGARGKILNITQMAALLGQQ 772
+ A + + + NH M +GA+G +N++Q++ LLGQQ
Sbjct: 904 GLDAAMKGKMNGLTSSIINKCIPDGLLTKFPYNHMQTMTVSGAKGSNVNVSQISCLLGQQ 963
Query: 773 SIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTA 832
+ G+R+ G+ L F P + A++ GF+ + + +G++PQEY+FH M GREGL+DTA
Sbjct: 964 ELEGRRVPLMVSGKSLPSFVPYETSAKSGGFIASRFLTGIAPQEYYFHCMAGREGLIDTA 1023
Query: 833 VRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
V+T++SGY+QR L+ L+ L V YD TVRD G IVQF YGED +D K
Sbjct: 1024 VKTSRSGYLQRCLMKHLEGLCVQYDHTVRDSDGSIVQFHYGEDSLDVTK 1072
Score = 79.2 bits (192), Expect = 2e-13
Identities = 40/121 (33%), Positives = 60/121 (49%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCE 61
Q V I S++FGI ++ K+S ++ P D+ +P GG+ D +G C
Sbjct: 5 QPVSSEIKSVKFGIYDVDDVEKISVKQIVNPVLLDNLNHPTNGGLYDLALGPYLKNSVCA 64
Query: 62 TCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE 121
TC CPGHFGHI L P H F ++ +L STC C KL+ ++ + +L+
Sbjct: 65 TCHLDERYCPGHFGHIVLPIPAYHPLFFSQMYNLLRSTCLYCHHFKLSKVKVHLFFCRLK 124
Query: 122 L 122
L
Sbjct: 125 L 125
>pir||JS0206 DNA-directed RNA polymerase (EC 2.7.7.6) I 189K chain - fission yeast
(Schizosaccharomyces pombe) >gi|4995|emb|CAA32887.1|
(X14783) nuc1 product, RNA polymerase I largest subunit
(AA 1-1689) [Schizosaccharomyces pombe]
Length = 1689
Score = 358 bits (909), Expect = 2e-97
Identities = 242/769 (31%), Positives = 399/769 (51%), Gaps = 87/769 (11%)
Query: 181 MMPTEIRDRLEKIPDKDLPLLG-LHPEK----SRPEWMVLTVLPVPPVTARPSITLETGI 235
M TE+R+ L ++ K+ +L L+ K + + L + VPP RP+ + G
Sbjct: 323 MTSTEVRNHLRRLFVKENVVLSRLYAHKRGKPASADMFFLQNIAVPPTRFRPASKM--GD 380
Query: 236 RAEDDLTHKLV----------------DIIRINNRLKQNIE--AGAPQLIIEDLWDLLQY 277
+++ ++L+ + +N K+ +E + A +L+I + + LQ+
Sbjct: 381 EVHENIQNELLTRILQSSIQIASLSKDSTVEVNPDEKEGLERRSRAFELLI-NAFVQLQH 439
Query: 278 HVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPM 337
V + I++ + P + +S + Q L+ KEG FR ++ GKRVN++AR+VISPDP
Sbjct: 440 DVNSLIDSNRN--PSSGGQSRTVPPGIKQILEKKEGLFRKHMMGKRVNYAARSVISPDPN 497
Query: 338 ISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIME- 396
I NE+GVP A +LT PE VT +N ++R V+NGP K+PGA+++ + +G I +M
Sbjct: 498 IETNEIGVPPVFATKLTYPEPVTLYNFNEMRNAVINGPHKWPGASHIQNEDGTLISLMPL 557
Query: 397 --------------------SNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIM 436
S+ + +R+I+ V RH+ +GD+++ NRQP+LH+ S+M
Sbjct: 558 TIEQRTALANQLLTPQSNLISSPYSYSRLINTNKKVYRHVRNGDMLILNRQPTLHKPSMM 617
Query: 437 AHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPR 495
AH+ R++P +T R++ A C YNADFDGDEMN+H PQ+ A++EA+ + + + P
Sbjct: 618 AHKARILPGEKTIRMHYANCNSYNADFDGDEMNMHFPQSTNARSEAQFIANTDSQYLVPT 677
Query: 496 YGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFA------GVDIKELPEPDKYENG 549
G P+ G IQDH+ G LT + ++ R+E +Q+L A G+ + P +
Sbjct: 678 SGDPLRGLIQDHVVMGVWLTCKDTFYIRDEYQQLLFQALKPDETGMYGRIKTLPPAIQRP 737
Query: 550 KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE-RCEALEKLIEEKLMPDPEEVRKLAYDGF 608
W+GK I S +V K D P ++ K+ + PD EE G
Sbjct: 738 GIYWTGKQIIS-------SVLLNLKPSDRPGLNLKSKAKVPGKYWSPDSEE-------GS 783
Query: 609 VYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTT 668
V +G+LL G +DK ++G ++ + YG + A + L +++L +GFT
Sbjct: 784 VLFDDGELLCGILDKSSFGASAFGLVHSVHELYGPDIAGRLLSVLSRLFTAYAQMRGFTC 843
Query: 669 GIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELE---PLPGKTLEETL--ESKIM 723
+DD L E+ + ++++ + + Y + L LEE + K+
Sbjct: 844 RMDDLRLDEQGDNWRRQLLENGKSFGLEAASEYVGLSTDSPIALLNANLEEVYRDDEKLQ 903
Query: 724 AVLAEARDNAGSIAEKYLGM-----------DNHTVIMAKTGARGKILNITQMAALLGQQ 772
+ A + + + NH M +GA+G +N++Q++ LLGQQ
Sbjct: 904 GLDAAMKGKMNGLTSSIINKCIPDGLLTKFPYNHMQTMTVSGAKGSNVNVSQISCLLGQQ 963
Query: 773 SIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTA 832
+ G+R+ G+ L F P + A++ GF+ + + +G++PQEY+FH M GREGL+DTA
Sbjct: 964 ELEGRRVPLMVSGKSLPSFVPYETSAKSGGFIASRFLTGIAPQEYYFHCMAGREGLIDTA 1023
Query: 833 VRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
V+T++SGY+QR L+ L+ L V YD TVRD G IVQF YGED +D K
Sbjct: 1024 VKTSRSGYLQRCLMKHLEGLCVQYDHTVRDSDGSIVQFHYGEDSLDVTK 1072
Score = 80.0 bits (194), Expect = 1e-13
Identities = 40/121 (33%), Positives = 60/121 (49%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCE 61
Q V I S++FGI ++ K+S ++ P D+ +P GG+ D +G C
Sbjct: 5 QPVSSEIKSVKFGIYDVDDVEKISVKQIVNPVLLDNLNHPTNGGLYDLALGPYLKNSVCA 64
Query: 62 TCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLE 121
TC CPGHFGHI L P H F ++ +L STC C KL+ ++ + +L+
Sbjct: 65 TCHLAERYCPGHFGHIVLPSPAYHPLFFSQMYNLLRSTCLYCHHFKLSKVKVHLFFCRLK 124
Query: 122 L 122
L
Sbjct: 125 L 125
>gi|9628206 RNA polymerase subunit 1 [African swine fever virus]
>gi|1173142|sp|P42486|RPO1_ASFB7 DNA-DIRECTED RNA
POLYMERASE SUBUNIT 1 >gi|7460262|pir||S78060 probable
DNA-directed RNA polymerase (EC 2.7.7.6) II - African
swine fever virus >gi|311526|emb|CAA79697.1| (Z21489)
RNA polymerase largest subunit [African swine fever
virus] >gi|780468|gb|AAA65328.1| (U18466) RNA polymerase
subunit 1 [African swine fever virus]
>gi|1097490|prf||2113434DE RNA polymerase:SUBUNIT=1
[African swine fever virus]
Length = 1450
Score = 339 bits (859), Expect = 1e-91
Identities = 262/890 (29%), Positives = 414/890 (46%), Gaps = 55/890 (6%)
Query: 8 IGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKA 67
I +++F I + ++ +EVT+ + ++ P EGG+ D RMG D +C TC +
Sbjct: 8 IAAVQFNIAGDNDHKRQGVMEVTISNLFEGT-LPAEGGIYDARMGTTDHHYKCITCSHQR 66
Query: 68 GECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRR 127
+C GH G +++ PV+ F I R L C CG + + E ++ L +
Sbjct: 67 KQCMGHPGILQMHAPVLQPLFIAEIRRWLRVICLNCGAPIVDLKRYEHLIRPKRLIEAAS 126
Query: 128 SEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIR 187
S+ E C C A +P + Y+ D+QG K + P IR
Sbjct: 127 SQT------------EGKQCYVCKAV-HPKIVKDSEDYFTFWVDQQGKIDK--LYPQIIR 171
Query: 188 DRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAED--DLTHKL 245
+ ++ + LG + S PE +VL + +PP++ RP I L G + D+ + +
Sbjct: 172 EIFSRVTYDTVVKLG-RSKNSHPEKLVLKAIQIPPISIRPGIRLGIGSGPQSFHDINNVI 230
Query: 246 VDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSG------- 298
++R N + ++++ Q I ++ LQ Y N V + G
Sbjct: 231 QYLVRKNLLIPKDLQIVRGQKIPLNIDRNLQTIQQLYYNFLLDSVSTTATQGGTGKRGIV 290
Query: 299 ---RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTV 355
RP ++ +RL KEGR R +L G +V +R+ I + + ++EVG PI A L V
Sbjct: 291 MGARPAPSIMRRLPRKEGRIRKSLLGSQVWSISRSTICGNSDLHLDEVGYPISFARTLQV 350
Query: 356 PEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERH 415
E V +NI +L LNG +YPG + V + + +E +++ +++G + R
Sbjct: 351 AETVQHYNINRLMPYFLNGKRQYPGCSRVYKQITQSVHDIEGLKQDFR--LEVGDILYRD 408
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMP---YRTFRLNLAVCPPYNADFDGDEMNLHVP 472
++ GD+ FNRQPSL R SI HR+ V+ TF++N++ C YNADFDGD+MNL VP
Sbjct: 409 VVTGDVAFFNRQPSLERSSIGVHRIVVLENPKISTFQMNVSACAWYNADFDGDQMNLWVP 468
Query: 473 QTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMF 532
+ ++ EA +L V+N IS + GP+ G +QD G +LLTR + V L
Sbjct: 469 WSVMSRVEAELLCSVRNWFISTKSSGPVNGQVQDSTVGSFLLTRTNTPMGK-NVMNKLHA 527
Query: 533 AGVDIKELPEPDKYENGKP--LWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIE 590
G+ +P + N P L GK++ S+LL P +
Sbjct: 528 MGLFQTTQTDPPCFANYSPTDLLDGKSVVSMLLK------------QTPINYQRAPTWYS 575
Query: 591 EKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGR-EDGIILDLIVREYGVERARQF 649
E P ++ D I+NG+L+ G +DKKA G G I LI R YG ++A +
Sbjct: 576 EVYAPYMHYNKQ---DISTQIRNGELIEGVLDKKAVGAGSSGGIYHLISRRYGPQQALKM 632
Query: 650 LDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPL 709
+ +L + + + GFT D L EA ++EII + +++ G++ P
Sbjct: 633 IFATQQLALNYVRNAGFTVSTADMLLTPEAHQEVQEIINKLLLESEEINNRLLHGDIMPP 692
Query: 710 PGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALL 769
G T + E + L I N M TGA+G N+ + A +
Sbjct: 693 IGLTTHDFYEKLQLNALKFPDRILKPIMNSINPETNGLFQMVATGAKGSNPNMIHIMAGI 752
Query: 770 GQQSIRGKRLYRGFR-GRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGL 828
GQ I +R+ F GR L ++ L A+A GF+ NSY +GL+ E+ F M GR L
Sbjct: 753 GQIEINTQRIQPQFSFGRTLVYYPRFALEAQAYGFICNSYIAGLTSPEFIFGEMNGRFDL 812
Query: 829 VDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
++ A+ T+ +GY R+ I LQ VDY V T ++ Q YGEDG+D
Sbjct: 813 INKALSTSSTGYANRKAIFGLQSCIVDYYRRVSIDTRLVQQL-YGEDGLD 861
>pir||T19606 hypothetical protein Y48E1A.1 - Caenorhabditis elegans
>gi|5596641|emb|CAB05699.2| (Z83219) contains similarity
to Pfam domain: PF00623 (RNA polymerase alpha subunit),
Score=1071.7, E-value=0, N=1; PF01854 (RNA polymerase
A/beta/A subunit), Score=428.7, E-value=1.7e-125,
N=1~cDNA EST yk112e10.5 comes from this gene~cDNA EST
yk337b6.5> >gi|5596656|emb|CAB07687.2| (Z93392) contains
similarity to Pfam domain: PF00623 (RNA polymerase alpha
subunit), Score=1071.7, E-value=0, N=1; PF01854 (RNA
polymerase A/beta/A subunit), Score=428.7,
E-value=1.7e-125, N=1~cDNA EST yk112e10.5 comes from this
gene~cDNA EST yk337b6.5> >gi|5824819|emb|CAB54460.1|
(AL032648) contains similarity to Pfam domain: PF00623
(RNA polymerase alpha subunit), Score=1071.7, E-value=0,
N=1; PF01854 (RNA polymerase A/beta/A subunit),
Score=428.7, E-value=1.7e-125, N=1~cDNA EST yk112e10.5
comes from this gene~cDNA EST yk337b6>
Length = 1737
Score = 327 bits (829), Expect = 4e-88
Identities = 199/624 (31%), Positives = 319/624 (50%), Gaps = 59/624 (9%)
Query: 304 LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFN 363
+ Q L+ K+G FR ++ GKRVNF+ R+VI+PDP + I+E+G+P A +LT E V FN
Sbjct: 456 IKQILEKKQGLFRMHMMGKRVNFACRSVITPDPYLDIDEIGIPDIFAKKLTFTEPVNAFN 515
Query: 364 IEKLRKMVLNGPDKYPGANYVIDPEGRRIRI-----MESNRENLARMIDIGWT------- 411
+ +++ ++ GP ++PGAN+ ++P G++ + + R +A+ ++ T
Sbjct: 516 VNEMKGLLRQGPHQHPGANFFVEPSGKKTMLGDKPEEKKRRMQMAKTLNAATTENLRQTP 575
Query: 412 -VERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNL 469
V RH+ +GD+++ NRQPSLH+ SI+ HR RV+ R R+N A C YNADFDGDEMN
Sbjct: 576 KVLRHMKNGDMIMMNRQPSLHKPSILGHRARVLTGQRALRMNYAPCKAYNADFDGDEMNG 635
Query: 470 HVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQM 529
H+ Q+ AQ E R + V ++ + P+ P++G IQDH+ G LL+ + +E+ +
Sbjct: 636 HLVQSHIAQTEVREIANVGSNFLVPKDATPLLGLIQDHVVSGVLLSVRDRFLNKEDFMHL 695
Query: 530 LM--FAGVDIKELPEPDKYENGKPLWSGK----TIFSLLLPDDLTVWYRNKLCDEPERCE 583
++ FA + P K LW+GK TI +PD + + P C
Sbjct: 696 VLASFAQYSKRIEIPPPTILYPKRLWTGKQVITTIVKNCIPDGKPLINLDGKAKTPLSC- 754
Query: 584 ALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGV 643
++P + + + V + G+LL G +DK +G + YG
Sbjct: 755 --------WIVPGFDAPQFDMSESHVVFRQGELLVGVLDKAHFGATQFGLAHCAFELYGH 806
Query: 644 ERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKR 703
Q L ++L + GFT G+ D + ++A + KE + E+ ++++
Sbjct: 807 RCGVQLLSCFSRLFTTYLQFHGFTLGVADILVVKDADGKRKEAVMESRTIGNQVVKT--- 863
Query: 704 GELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGM-------------------- 743
LP ++ + A R + GM
Sbjct: 864 --AFGLPDTATPAEIKRTLAATYCNPRGQGTDVKMLDFGMKQGIAKYNDAITKSCVPTGL 921
Query: 744 -----DNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
N +M ++GA+G +N Q++ LGQ + GKR+ GR L F+ D
Sbjct: 922 LRLFPQNALQLMIQSGAKGSAVNAIQISGCLGQIELEGKRMAVTIAGRTLPSFRCFDPSP 981
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDG 858
RA G++ + +G++PQE FFH M GREGL+DTAV+T++SGY+QR +I L+ ++V YD
Sbjct: 982 RAGGYIDQRFLTGMNPQELFFHTMAGREGLIDTAVKTSRSGYLQRCIIKHLEGIRVHYDS 1041
Query: 859 TVRDPTGVIVQFRYGEDGVDPMKS 882
TVRD G ++QFRYGEDG+D K+
Sbjct: 1042 TVRDHDGSVIQFRYGEDGMDTTKA 1065
Score = 72.6 bits (175), Expect = 2e-11
Identities = 35/105 (33%), Positives = 56/105 (53%)
Query: 18 PQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGECPGHFGHI 77
P EI K+S +++T T+D+ G+PI GG+ D +G + C TC CPGH GHI
Sbjct: 25 PHEIDKLSVLKITQTKTFDEVGHPIAGGLYDPILGPDNTFDMCMTCNQYERHCPGHMGHI 84
Query: 78 ELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLEL 122
+LA PV + + + +L+ +C C R+ + + M +L
Sbjct: 85 QLAVPVFNPLLFQFTYNLLKGSCVHCHRLTCKGDGVNARMLLAQL 129
>gb|AAA28863.1| (M11798) large subunit of RNA polymerase II [Drosophila
melanogaster]
Length = 471
Score = 327 bits (829), Expect = 4e-88
Identities = 180/453 (39%), Positives = 263/453 (57%), Gaps = 35/453 (7%)
Query: 11 IEFGILSPQEIRKMSAVE--VTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAG 68
++FGILSP EIR+MS E V +T + G P GG+MD R GVID RC+TC
Sbjct: 17 VQFGILSPDEIRRMSVTEGGVQFAETMEG-GRPKLGGLMDPRQGVIDRTSRCQTCAGNMT 75
Query: 69 ECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS 128
ECPGHFGHI+LA+PV H+GF +IL C C ++ ++ K E+ R
Sbjct: 76 ECPGHFGHIDLAKPVFHIGFITKTIKILRCVCFYCSKMLVSPHN----PKIKEIVMKSRG 131
Query: 129 EVNKILKEIHKKARERMVCP---------------------HCGAPQYPIKFEKP----T 163
+ K L ++ + + +C H G Y + T
Sbjct: 132 QPRKRLAYVYDLCKGKTICEGGEDMDLTKENQQPDPNKKPGHGGCGHYQPSIRRTGLDLT 191
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
W+ ++E E K + + + L+ I D++ +LG+ P+ +RP+WM++TVLPVPP+
Sbjct: 192 AEWK-HQNEDSQEKKIVVSAERVWEILKHITDEECFILGMDPKYARPDWMIVTVLPVPPL 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP++ + + +DDLTHKL DII+ NN L++N +GA +I++ +LQ+HV T +
Sbjct: 251 AVRPAVVMFGAAKNQDDLTHKLSDIIKANNELRKNEASGAAAHVIQENIKMLQFHVATLV 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N+ G+P K G+PLK + RLKGKEGR RGNL GKRV+FSARTVI+PDP + I++V
Sbjct: 311 DNDMPGMP-GYAKVGKPLKAIKARLKGKEGRIRGNLMGKRVDFSARTVITPDPNLRIDQV 369
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
GVP IA LT PE VT FNI++++++V G +YPGA Y++ G RI + + ++
Sbjct: 370 GVPRSIAQNLTFPELVTPFNIDRMQELVRRGNSQYPGAKYIVRDNGERID-LRFHPKSSD 428
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIM 436
+ G+ VERHL D D+V+ NRQP MS+M
Sbjct: 429 LHLQCGYKVERHLRDDDLVIGNRQPRCTTMSMM 461
>emb|CAA40431.1| (X57145) A subunit [Halococcus morrhuae]
Length = 345
Score = 326 bits (827), Expect = 7e-88
Identities = 163/292 (55%), Positives = 214/292 (72%), Gaps = 2/292 (0%)
Query: 609 VYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTT 668
V I G L+ G ID+ A G G I+D IV++YG RAR F+++V L + I H GF+
Sbjct: 10 VMIDEGALVEGTIDEDAVGAFGGEIVDTIVKQYGETRARVFINEVASLAMRAIMHFGFSI 69
Query: 669 GIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAE 728
GIDDE + + A +I E + A ERVQ+LI+ Y+ +LE LPG+T++ETLE KIM L +
Sbjct: 70 GIDDESISDAAEAQIDESMDNAYERVQELIDTYENDDLESLPGRTVDETLEMKIMQTLGK 129
Query: 729 ARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVL 788
ARD+AG IA+++ DN VIMA++GARG +LN+TQMAA +GQQ++RG+R+ RG+ GR L
Sbjct: 130 ARDSAGDIADEHFDDDNPAVIMAESGARGSMLNLTQMAACVGQQAVRGERINRGYEGRTL 189
Query: 789 SHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINA 848
SHFKPGDL A A GFV +SY+SGL+P+E+FFHAMGGREGLVDTAVRT++SGY+QRRLINA
Sbjct: 190 SHFKPGDLSAEAHGFVEDSYRSGLTPREFFFHAMGGREGLVDTAVRTSKSGYLQRRLINA 249
Query: 849 LQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK--SWGGKTVDVDRVIMRTL 898
L +L+ YDGTVRD + IVQF +GED P+K S +DVD + R L
Sbjct: 250 LSELETQYDGTVRDTSDNIVQFEFGEDNTSPVKVSSSDDNEIDVDEIADRVL 301
>sp|P15349|RPA1_HALMO DNA-DIRECTED RNA POLYMERASE SUBUNIT A' >gi|81080|pir||S03575
DNA-directed RNA polymerase (EC 2.7.7.6) chain A -
Halococcus morrhuae (fragment)
Length = 349
Score = 326 bits (827), Expect = 7e-88
Identities = 163/292 (55%), Positives = 214/292 (72%), Gaps = 2/292 (0%)
Query: 609 VYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTT 668
V I G L+ G ID+ A G G I+D IV++YG RAR F+++V L + I H GF+
Sbjct: 10 VMIDEGALVEGTIDEDAVGAFGGEIVDTIVKQYGETRARVFINEVASLAMRAIMHFGFSI 69
Query: 669 GIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAE 728
GIDDE + + A +I E + A ERVQ+LI+ Y+ +LE LPG+T++ETLE KIM L +
Sbjct: 70 GIDDESISDAAEAQIDESMDNAYERVQELIDTYENDDLESLPGRTVDETLEMKIMQTLGK 129
Query: 729 ARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVL 788
ARD+AG IA+++ DN VIMA++GARG +LN+TQMAA +GQQ++RG+R+ RG+ GR L
Sbjct: 130 ARDSAGDIADEHFDDDNPAVIMAESGARGSMLNLTQMAACVGQQAVRGERINRGYEGRTL 189
Query: 789 SHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINA 848
SHFKPGDL A A GFV +SY+SGL+P+E+FFHAMGGREGLVDTAVRT++SGY+QRRLINA
Sbjct: 190 SHFKPGDLSAEAHGFVEDSYRSGLTPREFFFHAMGGREGLVDTAVRTSKSGYLQRRLINA 249
Query: 849 LQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK--SWGGKTVDVDRVIMRTL 898
L +L+ YDGTVRD + IVQF +GED P+K S +DVD + R L
Sbjct: 250 LSELETQYDGTVRDTSDNIVQFEFGEDNTSPVKVSSSDDNEIDVDEIADRVL 301
>pir||S73104 DNA-directed RNA polymerase (EC 2.7.7.6) III large chain RPC1 -
Euplotes octocarinatus (fragment)
>gi|1204085|emb|CAA47897.1| (X67660) DNA-directed RNA
polymerase [Euplotes octocarinatus]
Length = 511
Score = 321 bits (814), Expect = 2e-86
Identities = 187/485 (38%), Positives = 277/485 (56%), Gaps = 38/485 (7%)
Query: 13 FGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRMGVIDPGLRCETCGAKAGECP 71
F ++S Q+I ++S +EV YD+D Y P G++D R+GV C+TC + +CP
Sbjct: 31 FELMSTQDIAQISELEVIECKLYDEDSYVPTAYGLLDPRLGVSTKSDICQTCKSNYVDCP 90
Query: 72 GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYM-KKLELAKN-RRSE 129
GH+G+I+L PV H+GF K I IL+ C+ C R L+++E + + KK+++ +R E
Sbjct: 91 GHYGYIKLELPVYHIGFFKHIITILQCICKGCSRFLLSEKERKIILDKKIKITDPMQRDE 150
Query: 130 VNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWEL---------RKDEQG------ 174
+ + + + KK + C CG +K E P I ++ RKD++
Sbjct: 151 IRRKMIDDCKKV---INCEFCGYFNGTVKKE-PGIACKITHDLYNIKKRKDDEMDNITQS 206
Query: 175 ---------------NEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLP 219
N+ + + P + L+ I D+PL ++ + P M++ +
Sbjct: 207 FENILKINKDVEWGLNKMQQDINPLIAYNLLKNIRKDDIPLFDMNGKNINPCDMIVYYII 266
Query: 220 VPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHV 279
VPPV RPS+ + R EDDLT KL +I+++N +K I G + W+ LQY +
Sbjct: 267 VPPVCLRPSVAVTETKRNEDDLTVKLSEILQLNMIIKSFIVGGPNYSKLATTWNQLQYTL 326
Query: 280 TTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMIS 339
YIN +T G+P + ++ QRLKGK+GRFRGNLSGKRV+FS RTVISPDP
Sbjct: 327 AQYINADTPGLP-LNMVGNKAIRAFCQRLKGKQGRFRGNLSGKRVDFSGRTVISPDPNAE 385
Query: 340 INEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR 399
I +V VP+ +A T P V +NIE L+K++ NG + +PGAN+V G +++I E+N
Sbjct: 386 IGQVIVPVDMAKIFTFPVCVNSYNIEFLKKLIKNGSEVHPGANFVQFQNGIKMKIRENNS 445
Query: 400 ENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYN 459
+ + + G VERHL+DGD VLFNRQPSLHR+SIM H+ +VMP++T R N C PYN
Sbjct: 446 SVICKELKYGDIVERHLIDGDSVLFNRQPSLHRLSIMCHKAKVMPWKTLRFNECCCGPYN 505
Query: 460 ADFDG 464
ADFDG
Sbjct: 506 ADFDG 510
>pir||T03179 probable DNA-directed RNA polymerase (EC 2.7.7.6) largest chain -
Chilo iridescent virus >gi|2738450|gb|AAB94477.1|
(AF003534) putative DNA-dependent RNA polymerase largest
subunit [Chilo iridescent virus]
Length = 1026
Score = 319 bits (809), Expect = 8e-86
Identities = 302/1063 (28%), Positives = 454/1063 (42%), Gaps = 254/1063 (23%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M+S K I SI FG++S ++IR+MS+ EV + + V D + G I C
Sbjct: 7 MESEIKEIESISFGMMSSEDIRQMSSFEVKTAKISSTN---LLETVHDPKSGPIGSA-PC 62
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIE-EYMKK 119
ETC +CPGHFGHIEL P+IH F + IL+ C +C LT + +E + K
Sbjct: 63 ETCHQNEWDCPGHFGHIELNVPIIHPLFINHVVNILKIFCWKCNEFLLTKDHLELNNILK 122
Query: 120 LELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKF-----EKPTIYW-------- 166
LE K + N +L++I K R C HC P+ K TIY
Sbjct: 123 LEKEK----KFNAVLEKIKKCDR----CVHCTTPRADYKLVLNDITYKTIYRTFSYQGGA 174
Query: 167 -ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTA 225
+ +D++ NE + + ++ + I + + +LG+ S P+ L V PV P
Sbjct: 175 VKTARDKKLNESREIVSAEMVKKIFDNIKLEYVEMLGI----SHPKDFCLEVFPVIPSCC 230
Query: 226 RPSITLETGIRAEDDLTH------------------------------KLVDIIRINNRL 255
RP + I +DDLT+ K+ +I+ ++N
Sbjct: 231 RPHEVQDGNIN-DDDLTYQLMEIVKNNSMIGAIKLEKESMEKQYPECLKVKEILLLSNVE 289
Query: 256 KQNIEAG-------------APQLIIEDLWDLLQY----------------HVTTYINNE 286
KQ E ++ E++ L QY + TY NN
Sbjct: 290 KQKKEIDDFLKKPIKNGLKTKKKINKEEITPLDQYLKLHDKYVKYVNNLKFRIETYCNNS 349
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS------------------- 327
A +GR +K L +RL GKEG+ R NL GKR S
Sbjct: 350 QGKATHAT--TGRAIKGLRERLTGKEGQIRNNLLGKRCEMSARTVIGPDPTLKIDEVIVP 407
Query: 328 ---ARTVISPD--------------------PMISINEVGVPIQIAMELTVPEKVTEF-- 362
A+++ PD ++ NE G I+I + + T
Sbjct: 408 KEIAQSLTFPDFVNKHNIDRLTKLVNSGNAIRLVKKNESGQEIKINLAAAINNHGTPLQH 467
Query: 363 -NIEKLRKMVLNGPDKYPGANY-----------VIDPEGRRIRIMESN---RENLARMID 407
+I K K+ N +K+ NY ++ + + + E + R N + +
Sbjct: 468 DDIIKRPKITNNHEEKH---NYEEKHNFDTFETIVIKDPKNFVLKEGDILFRNNFQQKVV 524
Query: 408 I----------GWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPP 457
+ GW V R+L +GDI++ NRQP+LH+ S+MA RV++M +TF+ NLA P
Sbjct: 525 LPSKKFIKLEEGWIVHRYLQNGDILVLNRQPTLHKASMMALRVKIMDVKTFKFNLACTKP 584
Query: 458 YNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE 517
YNADFDGDEMN H PQ+EE++AE L + I+S + G P + +QD ++G YL+++E
Sbjct: 585 YNADFDGDEMNAHAPQSEESKAELFTLSTPKQCIMSCQSGKPNLTIVQDSLTGAYLMSKE 644
Query: 518 G---AYFTREEVEQMLMFAG---------VDIKELPEPDKYENGKPL------WSGKTIF 559
A T E +LM VD + D K L +GK +
Sbjct: 645 NNNDATLTNGEFNDILMVLTQNDEYNGDVVDYFLKRKEDVSNTLKKLGFSGTVLNGKGLL 704
Query: 560 SLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSG 619
SLL P+DL Y N EE L I G + G
Sbjct: 705 SLLFPNDL---YIN----------------EEDLK----------------INRGVIYDG 729
Query: 620 AIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEA 679
+ KK + ++ ++ +EYGVE FL+ + LT + F+ D +E
Sbjct: 730 CLTKKYLSSTESSLIKILYKEYGVETCATFLNNIQFLTNRWLMISSFSIHAGDCIKQKEV 789
Query: 680 RDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEK 739
+++ + E+E+ + R E KIM L+ A+D IA+
Sbjct: 790 LGTVEQCLMESEKIKMTTQNPFIR---------------EQKIMQTLSNAKDVGMKIAKD 834
Query: 740 YLGMD-------NHTVIMAKTGARGKILNITQMAALLGQQSIRGKR----LYRGFR---- 784
L D N+ + ++G++G LNI Q+ +LLGQQ G+R L G R
Sbjct: 835 ALKRDNVNLHAQNNFLTTVESGSKGDHLNIAQITSLLGQQITEGQRVKPLLSNGKRTLPH 894
Query: 785 ------GRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQS 838
HF ++GF+ +S+ GL+P+E+FFH M GR+G+ DTA+ TA S
Sbjct: 895 YILKEENNDTEHFHDLLEEYESQGFISSSFAQGLNPKEFFFHCMAGRQGVCDTAMSTATS 954
Query: 839 GYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
GY+ RR + +D+KV YDGTV+D G Q YGE G DP K
Sbjct: 955 GYIMRRNVKLTEDIKVAYDGTVQDTRGRRFQMAYGELGYDPSK 997
>gb|AAC49712.1| (U90210) RNA polymerase II largest subunit [Spirogyra sp.]
Length = 613
Score = 315 bits (799), Expect = 1e-84
Identities = 172/421 (40%), Positives = 252/421 (59%), Gaps = 19/421 (4%)
Query: 458 YNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE 517
YNADFDGDEMN+HV QT E +AE LM V ++SP+ P++G +QD + G +T+
Sbjct: 1 YNADFDGDEMNMHVCQTFETRAETMELMMVPKCVVSPQSNRPVMGIVQDTLLGCRKVTKR 60
Query: 518 GAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCD 577
+ ++ +LM+ ++P P + +PLW+GK +FSL++P + +
Sbjct: 61 DTFIEKDVFMNILMWWEDFEGKIPSPTILKP-RPLWTGKQVFSLIIPRAVNL-------- 111
Query: 578 EPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLI 637
ER A PD E D V ++ G+LL+G + KK+ G G ++ +I
Sbjct: 112 --ERYSAWH--------PDSERGDFSPGDTQVRVEKGELLAGILCKKSLGTSGGSLVHII 161
Query: 638 VREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKL 697
E G + AR+FL L + + +GF+ GI D D I E I +A+ V+ L
Sbjct: 162 WEEVGPDAARKFLGHTQWLVNYWLLQQGFSIGIGDTIADASTMDTINETIAKAKTEVKDL 221
Query: 698 IEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARG 757
IEA +LE PG+TL E+ E+++ VL +ARD+AG A+ L N+ M G++G
Sbjct: 222 IEAACEKQLEAQPGRTLMESFENRVNQVLNKARDDAGRAAQSSLSESNNVKAMVTAGSKG 281
Query: 758 KILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEY 817
+NI+QM A +GQQ++ GKR+ GF R L HF D G ++GFV NSY GL+PQE+
Sbjct: 282 SFINISQMIACVGQQNVEGKRIPFGFVDRTLPHFTKDDYGPESRGFVENSYLRGLTPQEF 341
Query: 818 FFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
FFHAMGGREGL+DTAV+T+++GY+QRRL+ A++D+ V YDGTVR+ G ++QF YGEDG+
Sbjct: 342 FFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDVMVKYDGTVRNSLGDVIQFLYGEDGM 401
Query: 878 D 878
D
Sbjct: 402 D 402
>sp|P25202|RPC1_GIALA DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT
>gi|9364|emb|CAA42895.1| (X60325) subunit A of DNA
dependent RNA polymerase III [Giardia intestinalis]
Length = 1741
Score = 305 bits (772), Expect = 2e-81
Identities = 191/544 (35%), Positives = 285/544 (52%), Gaps = 48/544 (8%)
Query: 399 RENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPY 458
R+ +A + V RHLL D +LFNRQPSLHRMSIM + RTF N VC P+
Sbjct: 660 RQAIANSLRPNDIVYRHLLPNDTLLFNRQPSLHRMSIMQFNAVIHENRTFSFNPVVCSPF 719
Query: 459 NADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREG 518
NADFDGDEMN+ Q +EA+AEA ILM +IISPR+G +IG QD ++G YLL+ +G
Sbjct: 720 NADFDGDEMNIFYMQGQEARAEAGILMGSHENIISPRHGECMIGLTQDFLTGIYLLSGKG 779
Query: 519 AYFTREEVEQMLMFA---------GVD--------IKELPEPDKYENG------------ 549
+ TR+E Q + + GV IK + + E
Sbjct: 780 IFMTRQEYCQHVSYGCDGFGDATYGVSLYNYGREFIKSIHDRRGTEEDTVGFVKVPCLSQ 839
Query: 550 ------KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKL 603
+ L+SGK + S+L+ N E +K ++ D +
Sbjct: 840 PCIVYPRQLYSGKQVLSVLMKG-------NDFDSVNINLEHGDKTYKK----DSDRRALS 888
Query: 604 AYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITH 663
D ++ IQN + L G + K I +V+ YG A + + + K+ + +
Sbjct: 889 VNDDYIIIQNSEHLVGRLTKTFLASSKNCIFYFLVQNYGPVSAARIMLRFAKVAARFLMN 948
Query: 664 KGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIM 723
GFT GIDD + + + I++E E+ Q+ I Y+ G+LE +PG T++ETLE+ +
Sbjct: 949 YGFTIGIDDVMPSQRVLGKKEVIVQEGYEKAQEKIRDYESGKLEAIPGSTVQETLEATLN 1008
Query: 724 AVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGF 783
+L+ R++ IA K L N +IM+ G++G +NI QM +LGQQS G R F
Sbjct: 1009 QILSNVRESCAQIALKELHFTNKPLIMSLCGSKGSPINIAQMIIILGQQSFGGSRAPDDF 1068
Query: 784 RGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQR 843
R +F AKGF++NS+ +GL P E+ HA GR+G++D+A +TA +GY+QR
Sbjct: 1069 YTRSTPYFYHYSKEPNAKGFILNSFYTGLLPFEFLAHARAGRDGVIDSACKTADTGYLQR 1128
Query: 844 RLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK--SWGGKTVDVDRVIMRTLIKM 901
RL+ L+DL V YD TVR+ +VQFR+G DG DP+K G+ D+D ++ ++
Sbjct: 1129 RLVKCLEDLSVSYDFTVRNSKKSVVQFRFGHDGFDPIKLEVGTGQCFDLDTLLRHIILLN 1188
Query: 902 RANN 905
R+ +
Sbjct: 1189 RSQD 1192
Score = 200 bits (504), Expect = 5e-50
Identities = 146/461 (31%), Positives = 213/461 (45%), Gaps = 83/461 (18%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K + + F +LS + K+S V++T P Y+ P GV+DKR+G+ D +C TCG
Sbjct: 25 KRVEKLVFSVLSSNALMKLSEVQITTPILYEHYPSPATNGVLDKRLGLSDKVGKCATCGK 84
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYM---KKLEL 122
C GHFG I LA PV H G +L C C R+K+++ + +Y K L
Sbjct: 85 DTKMCIGHFGTISLALPVFHPGLINDARTMLSIVCPFCSRVKISEADRLKYKVLNHKFSL 144
Query: 123 A------KNRRSEVN-----------------KILKEIHKKARERMVC------------ 147
A + + +VN ++L+E+H + R +
Sbjct: 145 AIVKEAQEQAKKQVNCPFCHAPSTICKKSQGFRVLREMHYEERATKILADVIKHQKDIEK 204
Query: 148 -------------------------PHCGAPQYPIKFEKPTIYWELRKDE---------- 172
P C P I ++ +Y + +
Sbjct: 205 IQELDQRLRNHVVDPIQALHILQKVPECDYPYLGIPWQSRNVYASQQTPDSIASNDASQL 264
Query: 173 --QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT 230
+G+ + + + I D+ L H +RP+ ++LT +PVPP RPS+
Sbjct: 265 FSRGSSKLLARTASRFIAQHQGISDRATRLTS-HAFLTRPQDVILTHIPVPPSCLRPSVQ 323
Query: 231 LETGI-RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLI-IEDLWDLLQYHVTT-YINNET 287
+G ED+LT LV I+ IN++LK+ + +GA + WD L V+ YI
Sbjct: 324 SGSGAGTTEDNLTSHLVRILTINDKLKEAMVSGAVATSKVYAKWDQLNMDVSLLYIGKIP 383
Query: 288 SGVPPAKHKSGRPLKT---LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
GV P K+K+ K + RLKGK GRFR NLSGKRVNFS RTVISP+P +S+ +V
Sbjct: 384 GGVQPVKNKTDSGTKEGTGIIDRLKGKAGRFRSNLSGKRVNFSGRTVISPNPYLSMQQVA 443
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVI 385
+P IA LT PE VT NI LR+++LNG YPGAN V+
Sbjct: 444 IPRLIAQNLTFPEIVTSRNIRFLRELILNG-KTYPGANEVL 483
>pir||S22812 DNA-directed RNA polymerase (EC 2.7.7.6) III largest chain - Giardia
lamblia
Length = 1735
Score = 305 bits (772), Expect = 2e-81
Identities = 191/544 (35%), Positives = 285/544 (52%), Gaps = 48/544 (8%)
Query: 399 RENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPY 458
R+ +A + V RHLL D +LFNRQPSLHRMSIM + RTF N VC P+
Sbjct: 660 RQAIANSLRPNDIVYRHLLPNDTLLFNRQPSLHRMSIMQFNAVIHENRTFSFNPVVCSPF 719
Query: 459 NADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREG 518
NADFDGDEMN+ Q +EA+AEA ILM +IISPR+G +IG QD ++G YLL+ +G
Sbjct: 720 NADFDGDEMNIFYMQGQEARAEAGILMGSHENIISPRHGECMIGLTQDFLTGIYLLSGKG 779
Query: 519 AYFTREEVEQMLMFA---------GVD--------IKELPEPDKYENG------------ 549
+ TR+E Q + + GV IK + + E
Sbjct: 780 IFMTRQEYCQHVSYGCDGFGDATYGVSLYNYGREFIKSIHDRRGTEEDTVGFVKVPCLSQ 839
Query: 550 ------KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKL 603
+ L+SGK + S+L+ N E +K ++ D +
Sbjct: 840 PCIVYPRQLYSGKQVLSVLMKG-------NDFDSVNINLEHGDKTYKK----DSDRRALS 888
Query: 604 AYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITH 663
D ++ IQN + L G + K I +V+ YG A + + + K+ + +
Sbjct: 889 VNDDYIIIQNSEHLVGRLTKTFLASSKNCIFYFLVQNYGPVSAARIMLRFAKVAARFLMN 948
Query: 664 KGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIM 723
GFT GIDD + + + I++E E+ Q+ I Y+ G+LE +PG T++ETLE+ +
Sbjct: 949 YGFTIGIDDVMPSQRVLGKKEVIVQEGYEKAQEKIRDYESGKLEAIPGSTVQETLEATLN 1008
Query: 724 AVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGF 783
+L+ R++ IA K L N +IM+ G++G +NI QM +LGQQS G R F
Sbjct: 1009 QILSNVRESCAQIALKELHFTNKPLIMSLCGSKGSPINIAQMIIILGQQSFGGSRAPDDF 1068
Query: 784 RGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQR 843
R +F AKGF++NS+ +GL P E+ HA GR+G++D+A +TA +GY+QR
Sbjct: 1069 YTRSTPYFYHYSKEPNAKGFILNSFYTGLLPFEFLAHARAGRDGVIDSACKTADTGYLQR 1128
Query: 844 RLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK--SWGGKTVDVDRVIMRTLIKM 901
RL+ L+DL V YD TVR+ +VQFR+G DG DP+K G+ D+D ++ ++
Sbjct: 1129 RLVKCLEDLSVSYDFTVRNSKKSVVQFRFGHDGFDPIKLEVGTGQCFDLDTLLRHIILLN 1188
Query: 902 RANN 905
R+ +
Sbjct: 1189 RSQD 1192
Score = 200 bits (504), Expect = 5e-50
Identities = 146/461 (31%), Positives = 213/461 (45%), Gaps = 83/461 (18%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGA 65
K + + F +LS + K+S V++T P Y+ P GV+DKR+G+ D +C TCG
Sbjct: 25 KRVEKLVFSVLSSNALMKLSEVQITTPILYEHYPSPATNGVLDKRLGLSDKVGKCATCGK 84
Query: 66 KAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYM---KKLEL 122
C GHFG I LA PV H G +L C C R+K+++ + +Y K L
Sbjct: 85 DTKMCIGHFGTISLALPVFHPGLINDARTMLSIVCPFCSRVKISEADRLKYKVLNHKFSL 144
Query: 123 A------KNRRSEVN-----------------KILKEIHKKARERMVC------------ 147
A + + +VN ++L+E+H + R +
Sbjct: 145 AIVKEAQEQAKKQVNCPFCHAPSTICKKSQGFRVLREMHYEERATKILADVIKHQKDIEK 204
Query: 148 -------------------------PHCGAPQYPIKFEKPTIYWELRKDE---------- 172
P C P I ++ +Y + +
Sbjct: 205 IQELDQRLRNHVVDPIQALHILQKVPECDYPYLGIPWQSRNVYASQQTPDSIASNDASQL 264
Query: 173 --QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT 230
+G+ + + + I D+ L H +RP+ ++LT +PVPP RPS+
Sbjct: 265 FSRGSSKLLARTASRFIAQHQGISDRATRLTS-HAFLTRPQDVILTHIPVPPSCLRPSVQ 323
Query: 231 LETGI-RAEDDLTHKLVDIIRINNRLKQNIEAGAPQLI-IEDLWDLLQYHVTT-YINNET 287
+G ED+LT LV I+ IN++LK+ + +GA + WD L V+ YI
Sbjct: 324 SGSGAGTTEDNLTSHLVRILTINDKLKEAMVSGAVATSKVYAKWDQLNMDVSLLYIGKIP 383
Query: 288 SGVPPAKHKSGRPLKT---LAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
GV P K+K+ K + RLKGK GRFR NLSGKRVNFS RTVISP+P +S+ +V
Sbjct: 384 GGVQPVKNKTDSGTKEGTGIIDRLKGKAGRFRSNLSGKRVNFSGRTVISPNPYLSMQQVA 443
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVI 385
+P IA LT PE VT NI LR+++LNG YPGAN V+
Sbjct: 444 IPRLIAQNLTFPEIVTSRNIRFLRELILNG-KTYPGANEVL 483
>sp|P16355|RPA1_TRYBB DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT >gi|84003|pir||S19264
DNA-directed RNA polymerase (EC 2.7.7.6) I largest chain
- Trypanosoma brucei >gi|10522|emb|CAA32572.1| (X14399)
RNA polymerase I largest subunit (AA 1 - 1744)
[Trypanosoma brucei]
Length = 1744
Score = 299 bits (757), Expect = 1e-79
Identities = 207/616 (33%), Positives = 319/616 (51%), Gaps = 69/616 (11%)
Query: 311 KEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEF---NIEKL 367
KEG FR N+ GKRVN + R+VISPDP + NEV +P +A L+ PE+VT F + L
Sbjct: 431 KEGLFRMNMMGKRVNQACRSVISPDPFVEPNEVLLPRPLARALSFPEQVTCFAPARMNLL 490
Query: 368 RKMVLNGPDKYPGANYV-IDPEGRRIRIMESN------RENLAR---MIDIGWT--VERH 415
+ V+NGP KYPGA ++ + IR ++ N R++ AR M G T V RH
Sbjct: 491 KHCVVNGPRKYPGATHIELRHANGEIRSVDLNVPEQTRRQHAARFFAMAQSGVTLIVYRH 550
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQT 474
+L+GD V+FNRQP+LH+ S+M +RV+V+ +T R + +NADFDGDEMN+HVPQ+
Sbjct: 551 ILNGDRVIFNRQPTLHKPSMMGYRVKVLSGSKTIRFHYVNGNSFNADFDGDEMNVHVPQS 610
Query: 475 EEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLM--- 531
E +AE LM+ + + P G PI G IQDH++ G L+T +F Q++
Sbjct: 611 IETRAEVETLMDANINYLVPTSGRPIRGLIQDHVAAGVLVTLRDKFFDHSTFVQLVYNGV 670
Query: 532 ------FAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEAL 585
G+ + EL +P+W+GK + S+++ + + E E L
Sbjct: 671 GPYIQENVGITLAELIPIPAILMPRPMWTGKQLISVMVRFSSGLSAASDCGREIEGGITL 730
Query: 586 EKLIEEKLMPDP---------EEVRK---LAYDGFVYIQNGKLLSGAIDKKAYGREDGII 633
+ ++ P + VR D V N +L++G + KK G +
Sbjct: 731 KG--TSQIQPSAFDRIPAGSCDAVRAKSGAVVDSTVMFANSELITGFMCKKQLGASNMSA 788
Query: 634 LDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEER 693
+ YG R Q ++ + + +G + +DD L +E +R +++R+ ++
Sbjct: 789 PHHVYELYGPHRTGQLFAAFGRVLLLALRKEGLSLAMDDMFLVDE--ERRCDLLRKLDDI 846
Query: 694 VQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGM-------DNH 746
+ + EE + ++A D A I ++++ NH
Sbjct: 847 ALDVPD---------------EEATAAPMIA------DYATKIQQEFVPQRMLVPFPKNH 885
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
++M +GA+G LN TQM+ LGQQ G R+ R + L F + AR+ GF +
Sbjct: 886 LLLMTISGAKGSNLNATQMSLQLGQQLFDGLRVKRMNSSKTLPSFFTNEKRARSFGFAMG 945
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ SG+ P EY HAM GR+GL+DTAV+T++SG++QR LI L+ L V +D TVRD G
Sbjct: 946 SFASGIRPAEYTIHAMAGRDGLIDTAVKTSRSGHLQRCLIKGLESLVVHWDRTVRDSNGS 1005
Query: 867 IVQFRYGEDGVDPMKS 882
++QF YG DG+DP K+
Sbjct: 1006 VIQFMYGGDGLDPCKA 1021
>pir||A34374 DNA-directed RNA polymerase (EC 2.7.7.6) I largest chain -
Trypanosoma brucei >gi|162219|gb|AAA30231.1| (M27164) RNA
polymerase I [Trypanosoma brucei]
Length = 1781
Score = 299 bits (757), Expect = 1e-79
Identities = 207/616 (33%), Positives = 319/616 (51%), Gaps = 69/616 (11%)
Query: 311 KEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEF---NIEKL 367
KEG FR N+ GKRVN + R+VISPDP + NEV +P +A L+ PE+VT F + L
Sbjct: 468 KEGLFRMNMMGKRVNQACRSVISPDPFVEPNEVLLPRPLARALSFPEQVTCFAPARMNLL 527
Query: 368 RKMVLNGPDKYPGANYV-IDPEGRRIRIMESN------RENLAR---MIDIGWT--VERH 415
+ V+NGP KYPGA ++ + IR ++ N R++ AR M G T V RH
Sbjct: 528 KHCVVNGPRKYPGATHIELRHANGEIRSVDLNVPEQTRRQHAARFFAMAQSGVTLIVYRH 587
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMP-YRTFRLNLAVCPPYNADFDGDEMNLHVPQT 474
+L+GD V+FNRQP+LH+ S+M +RV+V+ +T R + +NADFDGDEMN+HVPQ+
Sbjct: 588 ILNGDRVIFNRQPTLHKPSMMGYRVKVLSGSKTIRFHYVNGNSFNADFDGDEMNVHVPQS 647
Query: 475 EEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLM--- 531
E +AE LM+ + + P G PI G IQDH++ G L+T +F Q++
Sbjct: 648 IETRAEVETLMDANINYLVPTSGRPIRGLIQDHVAAGVLVTLRDKFFDHSTFVQLVYNGV 707
Query: 532 ------FAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEAL 585
G+ + EL +P+W+GK + S+++ + + E E L
Sbjct: 708 GPYIQENVGITLAELIPIPAILMPRPMWTGKQLISVMVRFSSGLSAASDCGREIEGGITL 767
Query: 586 EKLIEEKLMPDP---------EEVRK---LAYDGFVYIQNGKLLSGAIDKKAYGREDGII 633
+ ++ P + VR D V N +L++G + KK G +
Sbjct: 768 KG--TSQIQPSAFDRIPAGSCDAVRAKSGAVVDSTVMFANSELITGFMCKKQLGASNMSA 825
Query: 634 LDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEER 693
+ YG R Q ++ + + +G + +DD L +E +R +++R+ ++
Sbjct: 826 PHHVYELYGPHRTGQLFAAFGRVLLLALRKEGLSLAMDDMFLVDE--ERRCDLLRKLDDI 883
Query: 694 VQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGM-------DNH 746
+ + EE + ++A D A I ++++ NH
Sbjct: 884 ALDVPD---------------EEATAAPMIA------DYATKIQQEFVPQRMLVPFPKNH 922
Query: 747 TVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN 806
++M +GA+G LN TQM+ LGQQ G R+ R + L F + AR+ GF +
Sbjct: 923 LLLMTISGAKGSNLNATQMSLQLGQQLFDGLRVKRMNSSKTLPSFFTNEKRARSFGFAMG 982
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV 866
S+ SG+ P EY HAM GR+GL+DTAV+T++SG++QR LI L+ L V +D TVRD G
Sbjct: 983 SFASGIRPAEYTIHAMAGRDGLIDTAVKTSRSGHLQRCLIKGLESLVVHWDRTVRDSNGS 1042
Query: 867 IVQFRYGEDGVDPMKS 882
++QF YG DG+DP K+
Sbjct: 1043 VIQFMYGGDGLDPCKA 1058
>gb|AAA92868.1| (L34213) DNA-dependent RNA polymerase largest subunit [lymphocystis
disease virus]
Length = 1199
Score = 298 bits (755), Expect = 2e-79
Identities = 263/911 (28%), Positives = 404/911 (43%), Gaps = 177/911 (19%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAKAGE 69
S F + S I K S E+ + + + D +G I+ GL C TC + +
Sbjct: 5 SFNFSLSSDDIILKNSVTEINKCCLKQE-----KQSIYDPYLGGIE-GL-CPTCTKDSYQ 57
Query: 70 CPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRSE 129
CPGHFGHI LA P++ F K IL+ C CG L+
Sbjct: 58 CPGHFGHINLAIPILI--FYKEAVNILKKHCLNCGLNTLSSP------------------ 97
Query: 130 VNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDR 189
C +C IK + I + + ++ + P +I+
Sbjct: 98 -----------------CENCSVVHPSIKLTENEIGLSKIQLKHKDKKIELLEPDKIKLI 140
Query: 190 LEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDII 249
EKI P P ++LT PV P RP L +DDL+ L I+
Sbjct: 141 FEKITA---------PAHIHPTNLILTKFPVLPPCCRPQTPL-----VDDDLSVFLSQIV 186
Query: 250 RINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKT-LAQRL 308
++NN+LK N PQ+ D L+ + Y++N A H + T + +RL
Sbjct: 187 KLNNKLKLNY---CPQVA-----DQLRLKILCYVDNSKG---KATHNTNHKAMTGIKERL 235
Query: 309 KGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLR 368
K G R N+ GKR N +AR+V+ PD + ++EV +P +IA LT+P K+T FN + +
Sbjct: 236 SKKTGILRQNMMGKRRNQTARSVVGPDTTLKLDEVAIPYEIANNLTIPIKITPFNYKLIS 295
Query: 369 KMVLNGPDKYPGANYVIDPEGRRI-----------------------RIMESNRENLARM 405
+ K GA Y I + ++ ++ N E + ++
Sbjct: 296 SYKIAAVIKANGAKYCIPTDRQKYVLIHGDSIACSKNGQEFMVTDCNAVVPDNFEPIKKL 355
Query: 406 -------IDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPY 458
I+IG T+ER L DGD V+ NRQP+LHR S++ ++ +T R+NLAV +
Sbjct: 356 VPFPLPTIEIGDTIERFLEDGDPVILNRQPTLHRNSMLGMKIVKKLGKTIRVNLAVTHGF 415
Query: 459 NADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREG 518
N DFDGDE NL++PQ+EEA+ E LM + IIS +Y I +QD + G YL+T+
Sbjct: 416 NMDFDGDEGNLYLPQSEEARFEVAELMNPKKLIISNKYPQAEIFPVQDAVLGAYLMTKY- 474
Query: 519 AYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDE 578
T+EE L + K + + ++ + LLLP+D
Sbjct: 475 PNMTQEEYFDCLTALDLFYKPVKQ----------YTTINLIKLLLPNDF----------- 513
Query: 579 PERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIV 638
C L L I NG++++G + G+ II+ +
Sbjct: 514 ---CLDLTSLT---------------------IVNGQIITGFLT----GKTLKIIVQYLA 545
Query: 639 REYGVERARQFLDQVTKLT-IWVITHKGFTTGIDD-EDLPEEARDRIKEIIREAEERVQK 696
EY E+ F+DQ+ LT W++ H F+ GI D +L E IK +A + +
Sbjct: 546 LEYPCEQVVYFIDQIQSLTNKWLLNHP-FSVGIKDCVELKCETHTIIKNYYIKANKAYNE 604
Query: 697 LIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGAR 756
YK E+ + VL +D A I + +N V+MA G++
Sbjct: 605 APFFYK----------------ETAVGIVLNSVKDAATKIIK--TDENNAFVVMANAGSK 646
Query: 757 GKILNITQMAALLGQQSIRGKRL-YRGFRGRVLSHFKP---GDL--GARAKGFVVNSYKS 810
G N+ Q+ LLGQQ + G+R Y R P DL ++GFV + + +
Sbjct: 647 GDCFNLVQIGGLLGQQYVNGQRPGYETDDDRKTLACYPRIVTDLIDKYESRGFVSSCFIN 706
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GL+P+E FFHA GREG+++T+ T +GY +RR++ +++ + YDG+VRD IVQF
Sbjct: 707 GLNPRECFFHAKSGREGMINTSQTTGVTGYAERRMVKLTENIIIAYDGSVRDAKNNIVQF 766
Query: 871 RYGEDGVDPMK 881
YG G++P K
Sbjct: 767 IYGNHGMNPAK 777
>sp|P77879|RPOC_LISIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 286 bits (724), Expect = 8e-76
Identities = 263/921 (28%), Positives = 418/921 (44%), Gaps = 140/921 (15%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G + D K V
Sbjct: 10 MKIGLASPDKIRSWSHGEVKKPETINYRTLKPERDGLFCERIFGPMKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI- 106
G+ C+ CG + + GHIELA PV H+ + K I +++ + R I
Sbjct: 70 YKGVVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVMDMSPRALEEII 129
Query: 107 ----KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKP 162
+ E + ++K +L R ++ +E + K G IK
Sbjct: 130 YFASYVVTEPGDTPLEKKQLLSEREY---RVYREKYGKGFS------AGMGAEAIK---- 176
Query: 163 TIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
I ++ +++ N+ K + + + R I ++ + + P WMVL VLPV P
Sbjct: 177 KILADIDLEKETNDLKEELKSAQGQRRTRAIRRLEV-MEAFRNSGNNPSWMVLDVLPVIP 235
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RP + LE G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 236 PEIRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPNIIVQNEKRMLQEAVDAL 295
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + +
Sbjct: 296 IDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQ 354
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI-RIMESNREN 401
G+P ++A+EL P + E GR + ++S +
Sbjct: 355 CGLPKEMALELFKPFVMKEL-------------------------VGRGLAHNIKSAKRK 389
Query: 402 LARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNAD 461
+ RM W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNAD
Sbjct: 390 IERMAPEIWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNAD 449
Query: 462 FDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYF 521
FDGD+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E
Sbjct: 450 FDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLE---- 505
Query: 522 TREEVEQMLMFAGVDIKELPEPDKYENG-KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
V + +F ++ +L Y+NG L S +F+ +P++ + DE
Sbjct: 506 RENAVGEGTIFKDINEAQL----AYQNGYVHLHSRIAVFAGSIPNE-------RFTDEQR 554
Query: 581 R---CEALEKLIEEKLMP--------------DPEEVRKLAYDGFVYIQNGKLLSGAID- 622
+ + KLI ++P + E K D ++ ID
Sbjct: 555 KQLLITTVGKLIFNTILPKSFPYINEPTKFNLEIETPAKYFVDTTTDVRAHIAAQELIDP 614
Query: 623 --KKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
KK G I+ + +++ + + LD++ L + T G T GI D EE
Sbjct: 615 FKKKILGN----IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGMTVGIADILTLEEKH 670
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
EI+ +A + V+K+ ++++RG + T +E E +++ V A+D
Sbjct: 671 ----EILEKAHDTVEKITKSFRRGLI------TDDERYE-RVIGVWNAAKDEIQGKLILS 719
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N +M +GARG I N TQ+A + G L GR++ P
Sbjct: 720 LDRLNPIFMMQDSGARGNISNFTQLAGMRG--------LMADPSGRIVE--LP------- 762
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
+ ++++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ + D
Sbjct: 763 ---ITSNFREGLTVSEYFISTHGARKGLTDTALKTADSGYLTRRLVDVAQDVIIREDDCG 819
Query: 861 RDPTGVIVQFRYGEDGVDPMK 881
D I R G + ++P++
Sbjct: 820 TDRGLTIKAIREGTEIIEPLE 840
>pir||T09641 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Listeria
innocua (fragment) >gi|1495656|emb|CAA61513.1| (X89229)
DNA-directed RNA polymerase [Listeria innocua]
Length = 1053
Score = 286 bits (724), Expect = 8e-76
Identities = 263/921 (28%), Positives = 418/921 (44%), Gaps = 140/921 (15%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G + D K V
Sbjct: 10 MKIGLASPDKIRSWSHGEVKKPETINYRTLKPERDGLFCERIFGPMKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI- 106
G+ C+ CG + + GHIELA PV H+ + K I +++ + R I
Sbjct: 70 YKGVVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVMDMSPRALEEII 129
Query: 107 ----KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKP 162
+ E + ++K +L R ++ +E + K G IK
Sbjct: 130 YFASYVVTEPGDTPLEKKQLLSEREY---RVYREKYGKGFS------AGMGAEAIK---- 176
Query: 163 TIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
I ++ +++ N+ K + + + R I ++ + + P WMVL VLPV P
Sbjct: 177 KILADIDLEKETNDLKEELKSAQGQRRTRAIRRLEV-MEAFRNSGNNPSWMVLDVLPVIP 235
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RP + LE G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 236 PEIRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPNIIVQNEKRMLQEAVDAL 295
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + +
Sbjct: 296 IDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQ 354
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI-RIMESNREN 401
G+P ++A+EL P + E GR + ++S +
Sbjct: 355 CGLPKEMALELFKPFVMKEL-------------------------VGRGLAHNIKSAKRK 389
Query: 402 LARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNAD 461
+ RM W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNAD
Sbjct: 390 IERMAPEIWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNAD 449
Query: 462 FDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYF 521
FDGD+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E
Sbjct: 450 FDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLE---- 505
Query: 522 TREEVEQMLMFAGVDIKELPEPDKYENG-KPLWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
V + +F ++ +L Y+NG L S +F+ +P++ + DE
Sbjct: 506 RENAVGEGTIFKDINEAQL----AYQNGYVHLHSRIAVFAGSIPNE-------RFTDEQR 554
Query: 581 R---CEALEKLIEEKLMP--------------DPEEVRKLAYDGFVYIQNGKLLSGAID- 622
+ + KLI ++P + E K D ++ ID
Sbjct: 555 KQLLITTVGKLIFNTILPKSFPYINEPTKFNLEIETPAKYFVDTTTDVRAHIAAQELIDP 614
Query: 623 --KKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
KK G I+ + +++ + + LD++ L + T G T GI D EE
Sbjct: 615 FKKKILGN----IIAEVFKKFHITETSKMLDRMKDLGFKISTKAGMTVGIADILTLEEKH 670
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
EI+ +A + V+K+ ++++RG + T +E E +++ V A+D
Sbjct: 671 ----EILEKAHDTVEKITKSFRRGLI------TDDERYE-RVIGVWNAAKDEIQGKLILS 719
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N +M +GARG I N TQ+A + G L GR++ P
Sbjct: 720 LDRLNPIFMMQDSGARGNISNFTQLAGMRG--------LMADPSGRIVE--LP------- 762
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
+ ++++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ + D
Sbjct: 763 ---ITSNFREGLTVSEYFISTHGARKGLTDTALKTADSGYLTRRLVDVAQDVIIREDDCG 819
Query: 861 RDPTGVIVQFRYGEDGVDPMK 881
D I R G + ++P++
Sbjct: 820 TDRGLTIKAIREGTEIIEPLE 840
>dbj|BAA88487.1| (AB025334) RNA polymerase III largest subunit [Lampetra reissneri]
Length = 538
Score = 283 bits (717), Expect = 5e-75
Identities = 169/420 (40%), Positives = 244/420 (57%), Gaps = 24/420 (5%)
Query: 468 NLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVE 527
NLH+PQTEEA+AEA ILM + ++++PR G P+I IQD I+GGYLLT + +F R
Sbjct: 1 NLHLPQTEEAKAEALILMGTKANLVTPRNGEPLIAAIQDFITGGYLLTHKDTFFDRARAS 60
Query: 528 QML--MFAGVDIK---ELPEPDKYENGKP--LWSGKTIFSLLLPDDLTVWYRNKLCDEPE 580
Q+ M AG D LP P KP LW+GK +FSL+L + +P
Sbjct: 61 QIAASMLAGCDSAVRITLPRPAVV---KPVSLWTGKQVFSLILRPNPR---------DPV 108
Query: 581 RCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGR-EDGIILDLIVR 639
R + ++ E++ D FV I+N +LL+G++DK G + L++R
Sbjct: 109 RLNLRTR--GKQYTGHGEDL--CTSDSFVVIENSELLAGSLDKSTLGSGSKASVFYLLLR 164
Query: 640 EYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIE 699
++G E A + ++ ++T ++++GF+ GI D ++++ E + + I
Sbjct: 165 DWGQEAAACGMSRLARMTPAFLSNRGFSVGIGDVTPGRGLLRAKQQLLSEGYSKCRDFIA 224
Query: 700 AYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKI 759
G L+ PG + E+TLE+ I+ L+ RD+AG+ + L N + MA G++G
Sbjct: 225 QLHSGRLQQQPGCSAEQTLEAVILKELSVIRDHAGTACLRELHKTNSPLTMALCGSKGSF 284
Query: 760 LNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFF 819
+NI+QM A +GQQ+I G R+ GF R L HF AKGFV NS+ SGLSP E+FF
Sbjct: 285 INISQMIACVGQQAISGSRIPNGFEDRSLPHFDKHSKIPAAKGFVANSFYSGLSPTEFFF 344
Query: 820 HAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDP 879
H MGGREGLVDTAV+TA++GYMQRRL+ +L+DL YD TVR TG +VQF YG D +DP
Sbjct: 345 HTMGGREGLVDTAVKTAETGYMQRRLVKSLEDLCAQYDLTVRSSTGDVVQFVYGGDNLDP 404
>pir||T10908 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Staphylococcus aureus (fragment)
>gi|1495791|emb|CAA61517.1| (X89233) DNA-directed RNA
polymerase [Staphylococcus aureus]
Length = 1057
Score = 283 bits (716), Expect = 7e-75
Identities = 265/938 (28%), Positives = 419/938 (44%), Gaps = 174/938 (18%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP++IR S EV P+T + DG E G D K V
Sbjct: 10 MKIGLASPEKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE 111
G+ C+ CG + + GHIELA PV H+ + K I R+ L
Sbjct: 70 YKGMVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIP----------SRMGLL-- 117
Query: 112 EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELR-- 169
L+++ + L+E+ A +V P P EK T+ E
Sbjct: 118 --------LDMSP-------RALEEVIYFASYVVVDPG------PTGLEKKTLLSEAEFR 156
Query: 170 --KDEQGNEYKHRMMPTEIRDRLEKIP-DKDLPLLGLHPEKS------------------ 208
D+ ++ +M I+D LE+I D++L LL E +
Sbjct: 157 DYYDKYPGQFVAKMGAEGIKDLLEEIDLDEELKLLRDELESATGQRLTRAIKRLEVVESF 216
Query: 209 -----RPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGA 263
+P WM+L VLP+ P RP L+ G A DL +I NNRLK+ ++ GA
Sbjct: 217 RNSGNKPSWMILDVLPIIPPEIRPMAQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGA 276
Query: 264 PQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKR 323
P +I+++ +LQ V I+N G P RPLK+L+ LKGK+GRFR NL GKR
Sbjct: 277 PGIIVQNEKRMLQEAVDALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKR 335
Query: 324 VNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANY 383
V++S R+VI+ P + + + G+P ++A+EL P + E ++ + N K
Sbjct: 336 VDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELVQREIATNIKNAKSK------ 389
Query: 384 VIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVM 443
+ RM D W V ++ VL NR P+LHR+ I A ++
Sbjct: 390 ------------------IERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLV 431
Query: 444 PYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGG 503
R RL+ V YNADFDGD+M +HVP ++EAQAEAR+LM +I++P+ G P++
Sbjct: 432 EGRAIRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTP 491
Query: 504 IQDHISGGYLLTRE-------GAYFTREEVEQMLMFA----------GVDIKELPEP--D 544
QD + G Y LT E GA F E + +A GV P
Sbjct: 492 SQDMVLGNYYLTLERKDAVNTGAIFNNTN-EVLKAYANGFVHLHTRIGVHASSFNNPTFT 550
Query: 545 KYENGKPLWS--GKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
+ +N K L + GK IF+ ++PD +EP + E LE+ + DP + +
Sbjct: 551 EEQNKKILATSVGKIIFNEIIPDSFA------YINEPTQ-ENLERKTPNRNFIDPTTLGE 603
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVIT 662
Y +N +L+ +KK G I+ + + + LD++ L +
Sbjct: 604 GGLK--EYFENEELIE-PFNKKFLGN----IIAEVFNRFSITDTSMMLDRMKDLGFKFSS 656
Query: 663 HKGFTTGIDD-EDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
G T G+ D LP++ ++I+ E E+ V ++ + + RG + EE +
Sbjct: 657 KAGITVGVADIVVLPDK-----QQILDEHEKLVDRITKQFNRGLI-------TEEERYNA 704
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
++ + +A+D + L N +M+ +GARG N TQ+A + G L
Sbjct: 705 VVEIWTDAKDQIQGELMQSLDKTNPIFMMSDSGARGNASNFTQLAGMRG--------LMA 756
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+++ P + +S++ GL+ EYF G R+GL DTA++TA SGY+
Sbjct: 757 APSGKIIE--LP----------ITSSFREGLTVLEYFISTHGARKGLADTALKTADSGYL 804
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDP 879
RRL++ QD+ V + D ++ + G + ++P
Sbjct: 805 TRRLVDVAQDVIVREEDCGTDRGLLVSDIKEGTEMIEP 842
>sp|P47770|RPOC_STAAU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1057
Score = 283 bits (716), Expect = 7e-75
Identities = 265/938 (28%), Positives = 419/938 (44%), Gaps = 174/938 (18%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP++IR S EV P+T + DG E G D K V
Sbjct: 10 MKIGLASPEKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE 111
G+ C+ CG + + GHIELA PV H+ + K I R+ L
Sbjct: 70 YKGMVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIP----------SRMGLL-- 117
Query: 112 EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELR-- 169
L+++ + L+E+ A +V P P EK T+ E
Sbjct: 118 --------LDMSP-------RALEEVIYFASYVVVDPG------PTGLEKKTLLSEAEFR 156
Query: 170 --KDEQGNEYKHRMMPTEIRDRLEKIP-DKDLPLLGLHPEKS------------------ 208
D+ ++ +M I+D LE+I D++L LL E +
Sbjct: 157 DYYDKYPGQFVAKMGAEGIKDLLEEIDLDEELKLLRDELESATGQRLTRAIKRLEVVESF 216
Query: 209 -----RPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGA 263
+P WM+L VLP+ P RP L+ G A DL +I NNRLK+ ++ GA
Sbjct: 217 RNSGNKPSWMILDVLPIIPPEIRPMAQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGA 276
Query: 264 PQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKR 323
P +I+++ +LQ V I+N G P RPLK+L+ LKGK+GRFR NL GKR
Sbjct: 277 PGIIVQNEKRMLQEAVDALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKR 335
Query: 324 VNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANY 383
V++S R+VI+ P + + + G+P ++A+EL P + E ++ + N K
Sbjct: 336 VDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELVQREIATNIKNAKSK------ 389
Query: 384 VIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVM 443
+ RM D W V ++ VL NR P+LHR+ I A ++
Sbjct: 390 ------------------IERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLV 431
Query: 444 PYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGG 503
R RL+ V YNADFDGD+M +HVP ++EAQAEAR+LM +I++P+ G P++
Sbjct: 432 EGRAIRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTP 491
Query: 504 IQDHISGGYLLTRE-------GAYFTREEVEQMLMFA----------GVDIKELPEP--D 544
QD + G Y LT E GA F E + +A GV P
Sbjct: 492 SQDMVLGNYYLTLERKDAVNTGAIFNNTN-EVLKAYANGFVHLHTRIGVHASSFNNPTFT 550
Query: 545 KYENGKPLWS--GKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRK 602
+ +N K L + GK IF+ ++PD +EP + E LE+ + DP + +
Sbjct: 551 EEQNKKILATSVGKIIFNEIIPDSFA------YINEPTQ-ENLERKTPNRNFIDPTTLGE 603
Query: 603 LAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVIT 662
Y +N +L+ +KK G I+ + + + LD++ L +
Sbjct: 604 GGLK--EYFENEELIE-PFNKKFLGN----IIAEVFNRFSITDTSMMLDRMKDLGFKFSS 656
Query: 663 HKGFTTGIDD-EDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
G T G+ D LP++ ++I+ E E+ V ++ + + RG + EE +
Sbjct: 657 KAGITVGVADIVVLPDK-----QQILDEHEKLVDRITKQFNRGLI-------TEEERYNA 704
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
++ + +A+D + L N +M+ +GARG N TQ+A + G L
Sbjct: 705 VVEIWTDAKDQIQGELMQSLDKTNPIFMMSDSGARGNASNFTQLAGMRG--------LMA 756
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G+++ P + +S++ GL+ EYF G R+GL DTA++TA SGY+
Sbjct: 757 APSGKIIE--LP----------ITSSFREGLTVLEYFISTHGARKGLADTALKTADSGYL 804
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDP 879
RRL++ QD+ V + D ++ + G + ++P
Sbjct: 805 TRRLVDVAQDVIVREEDCGTDRGLLVSDIKEGTEMIEP 842
>sp|P95405|RPOC_OENOE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1839020|emb|CAA65248.1| (X96384) DNA-dependent RNA
polymerase [Oenococcus oeni]
Length = 1004
Score = 283 bits (716), Expect = 7e-75
Identities = 243/862 (28%), Positives = 387/862 (44%), Gaps = 127/862 (14%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEI 113
G+ C+ CG + GHIELA PV H+ + K I + + ++ +
Sbjct: 6 GIVCDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLI------LDMSPRSL 59
Query: 114 EE--YMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI---YWEL 168
EE Y + + + K K++ +A R G + K I E+
Sbjct: 60 EEIIYFASYVVINPGNTPLEK--KQLITEAEYRQYQDQYGTDTFDAKMGAEAIKELLAEV 117
Query: 169 RKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPS 228
++ E K+ + + R + D+ + ++PEWMV+ V+PV P RP
Sbjct: 118 DLEKHAKELKNELKDATGQKRTRAVRRLDI-VEAFIQSGNKPEWMVMDVVPVIPPDLRPM 176
Query: 229 ITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETS 288
+ LE G A DL +I NNRLK+ ++ AP +I+++ +LQ V I+N
Sbjct: 177 VQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLNAPGIIVQNEKRMLQEAVDALIDNGRR 236
Query: 289 GVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQ 348
G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +N++G+P Q
Sbjct: 237 G-RPVSGPGNRPLKSLSHLLKGKQGRFRQNLLGKRVDYSGRSVIDVGPFLKMNQMGLPRQ 295
Query: 349 IAMELTVP---EKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARM 405
+A+EL P ++ E E NG GAN + S R + R
Sbjct: 296 MAVELFKPFIYNRLIELGTE-------NG-----GANN-----------LRSARRLVERH 332
Query: 406 IDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGD 465
D+ V ++ VL NR P+LHR+ I A ++ + RL+ V YNADFDGD
Sbjct: 333 EDVVQDVLEEVVKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTTAYNADFDGD 392
Query: 466 EMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGA------ 519
+M +HVP ++EAQAEAR+LM +HI++P+ G PI+ QD G Y LT E A
Sbjct: 393 QMAIHVPLSDEAQAEARLLMLAASHILAPKDGKPIVAPSQDMTIGNYYLTTEEAGIKGEG 452
Query: 520 --YFTREEVEQMLMFAGVDIKEL--PEPDKYENGKPLWS-----------GKTIFSLLLP 564
+ + +EV+ L V++ ++ KP GK IF+ +LP
Sbjct: 453 MIFSSADEVKMALQNHEVELHTRIGIAASSFDKAKPFTDHQRARIMVTTVGKVIFNEILP 512
Query: 565 DDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKK 624
DD Y N +P+ DG ++ G + G +
Sbjct: 513 DDFP--YIN----------------------EPKSENFNGIDGRFFLDPGTDIVGWFKNE 548
Query: 625 AYGR--EDGIILDLIVR---EYGVERARQFLDQVTKLTIWVITHKGFTTGIDD-EDLPEE 678
+ + G + D+I + Y V R LD + L + T G T + D +LPE+
Sbjct: 549 SLNGPFKSGFLSDIIAQIYARYQVTRTSVLLDDMKDLGYNISTRSGLTVRMSDVTELPEK 608
Query: 679 ARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAE 738
E+++EA E+V K+ + ++RG L ++ ++ ++A+D S+
Sbjct: 609 G-----EVLKEAHEKVAKITKQFRRGLL-------TDDERYIQVTQTWSDAQDKIKSMLI 656
Query: 739 KYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
N +M+ +GARG I N Q+A + G L G+V+ P
Sbjct: 657 ASFDSKNPIFMMSDSGARGNISNSFQLAGMRG--------LMAAPNGKVIE--LP----- 701
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDG 858
V +++ GL E F G R+G+ DTA++TA SGY+ RRL++ Q++ V +
Sbjct: 702 -----VTANFREGLCVLEMFISTHGARKGMTDTALKTANSGYLTRRLVDVAQEVIVREED 756
Query: 859 TVRDPTGVIVQFRYGEDGVDPM 880
D + G + ++P+
Sbjct: 757 CGTDRGLDVSAIMDGNEVIEPL 778
>sp|P96178|RPOC_WEIPA DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1839050|emb|CAA65080.1| (X95813) DNA-dependent RNA
polymerase [Weissella paramesenteroides]
Length = 1054
Score = 282 bits (715), Expect = 9e-75
Identities = 238/831 (28%), Positives = 380/831 (45%), Gaps = 126/831 (15%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEI 113
G+ C+ CG + GHIELA PV H+ + K I + + ++ +
Sbjct: 6 GIVCDRCGVEVTSAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLV------LDMSPRSL 59
Query: 114 EEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEK-------PTIYW 166
EE + + + K++ + R + +Y FE T+
Sbjct: 60 EEIIYFASYVVTKGGDTPLTEKQLLSEREYREL-----KAEYGNAFEAGMGAEAVQTLLA 114
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ +E+ E K + + R+ + D+ + ++PEWMV+ V+P+ P R
Sbjct: 115 NVDLEEEVTELKAELREATGQKRVRAVRRLDI-IEAFVKSGNKPEWMVMDVIPIIPPDLR 173
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
P + LE G A DL +I NNRLK+ +E AP +I+++ +LQ ++N
Sbjct: 174 PMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLELNAPGIIVQNEKRMLQEAADALVDNG 233
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +N++G+P
Sbjct: 234 RRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIDVGPFLKMNQMGLP 292
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
Q+AMEL P F +++L K L G + + + + R
Sbjct: 293 RQMAMELFRP-----FIMKELVKRDLAGN-------------------IRAAKRKIDRRD 328
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
D V ++ VL NR P+LHR+ I A ++ + RL+ V YNADFDGD+
Sbjct: 329 DDVMDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQ 388
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT-----REGAYF 521
M +HVP ++EAQAEAR+LM HI++P+ G PI+ QD + G Y LT REG
Sbjct: 389 MAIHVPLSDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTTEEAGREGEGM 448
Query: 522 TREEVEQMLMF-----------AGVDIKELP--EPDKYENGKPLW---SGKTIFSLLLPD 565
++V ++ G+ LP +P E + GK F+ +LP+
Sbjct: 449 IFKDVNEVRTAYQNKYVHLHTRIGIQTSSLPAAKPFTAEQRSRIMLTSVGKLFFNDILPE 508
Query: 566 DLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKA 625
D +EP E I+ + +P E K Y + K
Sbjct: 509 DF------PFLNEPTEANLHE--IDNRFFLEPGEDIKAHYAETPILPPFK---------- 550
Query: 626 YGREDGIILDLIVREYGVERARQ---FLDQVTKLTIWVITHKGFTTGIDD-EDLPEEARD 681
G + D+I Y + + + LD++ L T G T G+ D DL E+
Sbjct: 551 ----KGYLSDIIAEVYKIYKVTETSLLLDRMKDLGYDESTKSGLTVGVSDVTDLKEK--- 603
Query: 682 RIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYL 741
EII +A ++V + + ++RG + T E E +++A+ +A+D+ ++
Sbjct: 604 --PEIIADAHKQVATVTKQFRRGLI------TDSERYE-RVIAIWNKAKDDITEKLIEHF 654
Query: 742 GMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAK 801
DN+ +M+ +GARG I N TQ+A + G L GR++ P
Sbjct: 655 EPDNNIFMMSDSGARGNISNFTQLAGMRG--------LMAAPNGRIME--LP-------- 696
Query: 802 GFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
++ +++ GLS E FF G R+G+ DTA++TA SGYM RRL++ QD+
Sbjct: 697 --IIANFREGLSVLEMFFSTHGARKGMTDTALKTADSGYMTRRLVDVAQDV 745
>dbj|BAA82753.1| (AB018418) largest subunit of the DNA-dependent RNA polymerase [Red
sea bream iridovirus]
Length = 1159
Score = 282 bits (713), Expect = 2e-74
Identities = 245/852 (28%), Positives = 402/852 (46%), Gaps = 137/852 (16%)
Query: 59 RCETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMK 118
RC TC + CPGHFGHIELA+ VI K L C CG + E ++
Sbjct: 48 RCVTCDSVT--CPGHFGHIELAQDVIL--HYKECVAFLRVICHSCGA-HVPGTRFESALR 102
Query: 119 KLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI--YWELRKDEQGNE 176
+L + + C CG Q ++ + + +D G
Sbjct: 103 RLP--------------------PQHIQCQVCGLYQPVVRCGSSVTDPAYIVTEDYCGAS 142
Query: 177 YKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIR 236
+ H + R +++ + L ++G P+ + P +++ V P RP + G
Sbjct: 143 HVHSDVEYA-RSVFQRVTPQTLAIVG--PKLTHPLNLIMKRFMVLPSCCRPPNKVG-GSM 198
Query: 237 AEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKH- 295
DDLT + I++ N LK Q I+ + L+ + Y++N A H
Sbjct: 199 VHDDLTLLISYIVKRN--LKLAAATSPEQRIL--YYQALKGDILCYMDNSKGR---AVHV 251
Query: 296 KSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTV 355
S + L + + + K G R NL GKR N++AR+V+ P+ +++++VGVP Q+A LT+
Sbjct: 252 TSNKSLMGIKECISKKGGLLRQNLMGKRRNYTARSVVGPESTLALDQVGVPPQVADTLTI 311
Query: 356 PEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERH 415
E VT++NIE +R+M G K A Y +D + R + + G T+ R
Sbjct: 312 EEPVTKYNIEHVRRMRATGHLK---ALYDVDGQVRHV-------------VRCGLTLHRS 355
Query: 416 LLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTE 475
L DGD+V+ NRQP+LHR S++ RV+V+P T R+NLAV +N DFDGDE NL++P++
Sbjct: 356 LRDGDVVVLNRQPTLHRNSMLGMRVKVLPGNTIRVNLAVTHGFNMDFDGDEGNLYLPRSL 415
Query: 476 EAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTR-EGAYFTREEVEQMLMFAG 534
A+AE LM +I+S G + +QD + Y+++ ++ V M G
Sbjct: 416 SARAEVATLMSPYTNILSDCSKGVEVLLVQDTVLALYMMSMWPHTRLEQQFVSMCCMAVG 475
Query: 535 VDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLM 594
V Y + + + +F L++P+ T W R
Sbjct: 476 V----------YHH--RICTAGDLFRLMVPEGFT-WRR---------------------- 500
Query: 595 PDPEEVRKLAYDGFVYIQNGKLL--SGAIDKKAYGREDGIILDLIVREYGVERARQFLDQ 652
DG V++ NG L SG + K+A I+ + +G + A +F+D
Sbjct: 501 -----------DGIVFV-NGHLADNSGPVTKRALSGGYNSIIRTMALHHGQKAAGRFIDC 548
Query: 653 VTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGK 712
+ ++ F+ G+DD +P AR+ EA R ++ R E+E +
Sbjct: 549 AQFVAREWLSWFPFSMGLDDMVVP-GARN-----TAEAVYRHHMMLMESARDEIEVV--- 599
Query: 713 TLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQ 772
++ E++++ +MA+ +A + +M G++G NI Q+ LLGQQ
Sbjct: 600 SILESIKNTLMAI---------PLAPTCMS------VMTSAGSKGDAFNIMQIFMLLGQQ 644
Query: 773 SIRGKRLYR--GFRGRVLSHFKPGDLGA-----RAKGFVVNSYKSGLSPQEYFFHAMGGR 825
+ G R+ R + R L H+KP ++ + ++GFV +S+ GL+P+E FFHA GR
Sbjct: 645 YVDGMRVQREIDYGYRSLPHYKPVEVHSVEAKYESRGFVRSSFMDGLNPREAFFHAKCGR 704
Query: 826 EGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSW-G 884
EG++ T+ T +GY +RR++ +DL++ D +VRD G IVQ YG G+DPM W
Sbjct: 705 EGMISTSQMTGVTGYAERRMVKFSEDLRIANDLSVRDANGNIVQLLYGGHGMDPMMCWQD 764
Query: 885 GKTVDVDRVIMR 896
G+ V+ +R+ M+
Sbjct: 765 GRPVNFERMAMQ 776
>dbj|BAA88486.1| (AB025333) RNA polymerase III largest subunit [Eptatretus burgeri]
Length = 537
Score = 281 bits (711), Expect = 3e-74
Identities = 166/418 (39%), Positives = 243/418 (57%), Gaps = 21/418 (5%)
Query: 468 NLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVE 527
NLH+PQTEEA+AEA +LM + ++++PR G P+I IQD ++ YLLT + + R
Sbjct: 1 NLHLPQTEEAKAEALVLMGTKANMVTPRNGEPLIAAIQDFLTAAYLLTHKDTFLDRSRAC 60
Query: 528 QML--MFAGVDIK---ELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERC 582
Q++ + AG D+ ELP P LW+GK IFSLLL + L R
Sbjct: 61 QLIAAILAGQDVAMRLELPPP-AILCPVCLWTGKQIFSLLLRPSQSCPIMPNL-----RT 114
Query: 583 EALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGR-EDGIILDLIVREY 641
+ + E L P+ D FV + NG+LL+G++DK G I ++++++
Sbjct: 115 KGKQYSGGEDLCPN---------DSFVVLHNGELLAGSLDKATLGSGSKNSIFYVLLQDW 165
Query: 642 GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAY 701
G A + ++ +++ ++H+GF+ GI D E++ ++ + I A
Sbjct: 166 GQTAATDAMSRLARISPAYLSHRGFSIGIGDVTPGPGLLCAKHELLSAGYKKCDEYISAL 225
Query: 702 KRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILN 761
K G+L+ PG + EETLE+ I+ L+ RD+AG + L N ++MA G++G +N
Sbjct: 226 KAGKLQQQPGCSAEETLEAVILKELSVIRDHAGKACLRELHKSNSPMVMALCGSKGSFIN 285
Query: 762 ITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHA 821
I+QM A +GQQ+I G R+ GF R L HF AKGFV NS+ SGL+P E+FFH
Sbjct: 286 ISQMIACVGQQAISGSRIPDGFEDRSLPHFPRSSKLPAAKGFVANSFYSGLTPTEFFFHT 345
Query: 822 MGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDP 879
MGGREGLVDTAV+TA++GYMQRRL+ +L+DL + YD TVR T +VQF YG DG+DP
Sbjct: 346 MGGREGLVDTAVKTAETGYMQRRLVKSLEDLCLAYDLTVRSATADVVQFIYGGDGLDP 403
>sp|P77882|RPOC_LISMU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1053
Score = 280 bits (710), Expect = 3e-74
Identities = 258/919 (28%), Positives = 414/919 (44%), Gaps = 136/919 (14%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G + D K V
Sbjct: 10 MKIGLASPDKIRSWSHGEVKKPETINYRTLKPERDGLFCERIFGPMKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI- 106
G+ C+ CG + + GHIELA PV H+ + K I +++ + R I
Sbjct: 70 YKGVVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVMDMSPRALEEII 129
Query: 107 ----KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKP 162
+ E + ++K +L + ++ +E + K H G IK
Sbjct: 130 YFASYVVTEPGDTPLEKKQLLSEKEY---RVYREKYGKNF------HAGMGAEAIK---- 176
Query: 163 TIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
I ++ +++ E K + + + R I ++ + + P WM+L VLPV P
Sbjct: 177 KILSDIDLEKETQELKAELQTAQGQRRTRAIRRLEV-MEAFRNSGNEPSWMILDVLPVIP 235
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RP + LE G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 236 PEIRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPNIIVQNEKRMLQEAVDAL 295
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + +
Sbjct: 296 IDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQ 354
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENL 402
G+P ++A+EL P + E L + +S + +
Sbjct: 355 CGLPKEMALELFKPFIMKELVSRGLAHNI------------------------KSAKRKI 390
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
RM W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNADF
Sbjct: 391 ERMAAEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNADF 450
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE----- 517
DGD+M +HVP + EAQAEAR+LM +I++P+ G P++ QD + G Y LT E
Sbjct: 451 DGDQMAVHVPLSAEAQAEARLLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERENAV 510
Query: 518 GAYFTREEVEQML---------------MFAGVDIKELPEPDKYENGKPLWSGKTIFSLL 562
G +++ + + ++AG E ++ + GK +F+ +
Sbjct: 511 GEGLVFKDINEAMIAYTNGYVHLHSRIGVYAGSIQNERFTEEQRKQLLITTVGKLVFNTI 570
Query: 563 LPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAID 622
LP+ +EP + LE K D D +I N L ID
Sbjct: 571 LPESF------PYINEPTKYN-LEIETPTKYFVD------TTTDVKTHIANQPL----ID 613
Query: 623 KKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDR 682
G II + + +++ + + LD++ L + T G T GI D +E
Sbjct: 614 PFKKGILGNIIAE-VFKKFHITETSKMLDRMKDLGFKISTKAGITVGIADILTLQEK--- 669
Query: 683 IKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLG 742
EI+ +A ++V+K+ + ++RG + T +E E +++ V A+D + L
Sbjct: 670 -PEILEKAHDKVEKITKQFRRGLI------TGDERYE-RVIGVWNAAKDEIQNKLILSLE 721
Query: 743 MDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKG 802
N +M +GARG I N TQ+A + G L GR++ P
Sbjct: 722 RLNPIFMMQDSGARGNISNFTQLAGMRG--------LMADPSGRIVE--LP--------- 762
Query: 803 FVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRD 862
+ ++++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ + D D
Sbjct: 763 -ITSNFREGLTVLEYFISTHGARKGLTDTALKTADSGYLTRRLVDVAQDVIIREDDCGTD 821
Query: 863 PTGVIVQFRYGEDGVDPMK 881
I R G + ++P++
Sbjct: 822 RGLTIKAIREGTEIIEPLE 840
>pir||T09645 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain - Listeria
murrayi (fragment) >gi|1495658|emb|CAA61512.1| (X89228)
DNA-directed RNA polymerase [Listeria murrayi]
Length = 1053
Score = 280 bits (710), Expect = 3e-74
Identities = 258/919 (28%), Positives = 414/919 (44%), Gaps = 136/919 (14%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G + D K V
Sbjct: 10 MKIGLASPDKIRSWSHGEVKKPETINYRTLKPERDGLFCERIFGPMKDWECSCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI- 106
G+ C+ CG + + GHIELA PV H+ + K I +++ + R I
Sbjct: 70 YKGVVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVMDMSPRALEEII 129
Query: 107 ----KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKP 162
+ E + ++K +L + ++ +E + K H G IK
Sbjct: 130 YFASYVVTEPGDTPLEKKQLLSEKEY---RVYREKYGKNF------HAGMGAEAIK---- 176
Query: 163 TIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPP 222
I ++ +++ E K + + + R I ++ + + P WM+L VLPV P
Sbjct: 177 KILSDIDLEKETQELKAELQTAQGQRRTRAIRRLEV-MEAFRNSGNEPSWMILDVLPVIP 235
Query: 223 VTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTY 282
RP + LE G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 236 PEIRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPNIIVQNEKRMLQEAVDAL 295
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + +
Sbjct: 296 IDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQ 354
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENL 402
G+P ++A+EL P + E L + +S + +
Sbjct: 355 CGLPKEMALELFKPFIMKELVSRGLAHNI------------------------KSAKRKI 390
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
RM W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNADF
Sbjct: 391 ERMAAEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNADF 450
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE----- 517
DGD+M +HVP + EAQAEAR+LM +I++P+ G P++ QD + G Y LT E
Sbjct: 451 DGDQMAVHVPLSAEAQAEARLLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERENAV 510
Query: 518 GAYFTREEVEQML---------------MFAGVDIKELPEPDKYENGKPLWSGKTIFSLL 562
G +++ + + ++AG E ++ + GK +F+ +
Sbjct: 511 GEGLVFKDINEAMIAYTNGYVHLHSRIGVYAGSIQNERFTEEQRKQLLITTVGKLVFNTI 570
Query: 563 LPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAID 622
LP+ +EP + LE K D D +I N L ID
Sbjct: 571 LPESF------PYINEPTKYN-LEIETPTKYFVD------TTTDVKTHIANQPL----ID 613
Query: 623 KKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDR 682
G II + + +++ + + LD++ L + T G T GI D +E
Sbjct: 614 PFKKGILGNIIAE-VFKKFHITETSKMLDRMKDLGFKISTKAGITVGIADILTLQEK--- 669
Query: 683 IKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLG 742
EI+ +A ++V+K+ + ++RG + T +E E +++ V A+D + L
Sbjct: 670 -PEILEKAHDKVEKITKQFRRGLI------TGDERYE-RVIGVWNAAKDEIQNKLILSLE 721
Query: 743 MDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKG 802
N +M +GARG I N TQ+A + G L GR++ P
Sbjct: 722 RLNPIFMMQDSGARGNISNFTQLAGMRG--------LMADPSGRIVE--LP--------- 762
Query: 803 FVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRD 862
+ ++++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ + D D
Sbjct: 763 -ITSNFREGLTVLEYFISTHGARKGLTDTALKTADSGYLTRRLVDVAQDVIIREDDCGTD 821
Query: 863 PTGVIVQFRYGEDGVDPMK 881
I R G + ++P++
Sbjct: 822 RGLTIKAIREGTEIIEPLE 840
>emb|CAA61514.1| (X89230) DNA-directed RNA polymerase [Bacillus anthracis]
Length = 1052
Score = 280 bits (709), Expect = 5e-74
Identities = 256/917 (27%), Positives = 409/917 (43%), Gaps = 134/917 (14%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G D K V
Sbjct: 10 MKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWECHCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE 111
G+ C+ CG + GHIELA PV H+ + K I + + ++
Sbjct: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLV------LDMSPR 123
Query: 112 EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAP-QYPIKFEK-PTIYWELR 169
+EE + + K++ + R G+ Q + E + ++
Sbjct: 124 ALEEVIYFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQDID 183
Query: 170 KDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSI 229
D++ + K + + + R I ++ L + P WM+L VLPV P RP +
Sbjct: 184 LDKEVDFLKEELKTAQGQRRTRAIKRLEV-LEAFRNSGNEPSWMILDVLPVIPPELRPMV 242
Query: 230 TLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSG 289
L+ G A DL +I NNRLK+ ++ GAP +I+++ +LQ V I+N G
Sbjct: 243 QLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGRRG 302
Query: 290 VPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQI 349
P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + + G+P ++
Sbjct: 303 -RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEM 361
Query: 350 AMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIG 409
A+EL P + E +EK G + I +S + + R+
Sbjct: 362 ALELFKPFVMKEL-VEK-------------GLAHNI----------KSAKRKIERVQPEV 397
Query: 410 WTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNL 469
W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNADFDGD+M +
Sbjct: 398 WDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNADFDGDQMAV 457
Query: 470 HVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT--REGA----YFTR 523
HVP + EAQAEAR+LM +I++P+ G P++ QD + G Y LT REGA +
Sbjct: 458 HVPLSSEAQAEARLLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLEREGAIGEGMVFK 517
Query: 524 EEVEQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFSLLLPDDLTV 569
+ E +L + A + + ++ +N L + GK IF+ +LP+
Sbjct: 518 DANEALLAYQNGYVHLHTRVAVAASAVNNVTFTEEQKNMLLLTTVGKLIFNEILPESFP- 576
Query: 570 WYRNKLCDEPERCEALEKLIEEK------LMPDPEEVRKLAYDGFVYIQNGKLLSGAIDK 623
Y N+ + E K EK ++ EEV K
Sbjct: 577 -YINEPTNSNLEKETPAKYFVEKGANIKEIIASREEV------------------APFSK 617
Query: 624 KAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRI 683
K G I+ + + + + + LD++ L T G T G+ D + E
Sbjct: 618 KILGN----IIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVGVSDILVLGEK---- 669
Query: 684 KEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGM 743
EI+ EA+ +V +I+ ++RG + EE +++++ + A+D K L
Sbjct: 670 DEILHEAQAKVDNVIKQFRRGLI-------TEEERYDRVISIWSNAKDVIQGKLMKSLNK 722
Query: 744 DNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGF 803
N +M+ +GARG N TQ+A + G L GR++ P
Sbjct: 723 RNPIFMMSDSGARGNXSNFTQLAGMRG--------LMANPSGRIIE--LP---------- 762
Query: 804 VVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDP 863
+ +S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ V D D
Sbjct: 763 IKSSFREGLTVLEYFISTHGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDR 822
Query: 864 TGVIVQFRYGEDGVDPM 880
+I + G + ++ +
Sbjct: 823 GLLIGAIKEGNEVIESL 839
>sp|P77819|RPOC_BACAN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1052
Score = 280 bits (709), Expect = 5e-74
Identities = 256/917 (27%), Positives = 409/917 (43%), Gaps = 134/917 (14%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP +IR S EV P+T + DG E G D K V
Sbjct: 10 MKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWECHCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE 111
G+ C+ CG + GHIELA PV H+ + K I + + ++
Sbjct: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLV------LDMSPR 123
Query: 112 EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAP-QYPIKFEK-PTIYWELR 169
+EE + + K++ + R G+ Q + E + ++
Sbjct: 124 ALEEVIYFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQDID 183
Query: 170 KDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSI 229
D++ + K + + + R I ++ L + P WM+L VLPV P RP +
Sbjct: 184 LDKEVDFLKEELKTAQGQRRTRAIKRLEV-LEAFRNSGNEPSWMILDVLPVIPPELRPMV 242
Query: 230 TLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSG 289
L+ G A DL +I NNRLK+ ++ GAP +I+++ +LQ V I+N G
Sbjct: 243 QLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGRRG 302
Query: 290 VPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQI 349
P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + + + G+P ++
Sbjct: 303 -RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEM 361
Query: 350 AMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIG 409
A+EL P + E +EK G + I +S + + R+
Sbjct: 362 ALELFKPFVMKEL-VEK-------------GLAHNI----------KSAKRKIERVQPEV 397
Query: 410 WTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNL 469
W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNADFDGD+M +
Sbjct: 398 WDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNADFDGDQMAV 457
Query: 470 HVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT--REGA----YFTR 523
HVP + EAQAEAR+LM +I++P+ G P++ QD + G Y LT REGA +
Sbjct: 458 HVPLSSEAQAEARLLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLEREGAIGEGMVFK 517
Query: 524 EEVEQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFSLLLPDDLTV 569
+ E +L + A + + ++ +N L + GK IF+ +LP+
Sbjct: 518 DANEALLAYQNGYVHLHTRVAVAASAVNNVTFTEEQKNMLLLTTVGKLIFNEILPESFP- 576
Query: 570 WYRNKLCDEPERCEALEKLIEEK------LMPDPEEVRKLAYDGFVYIQNGKLLSGAIDK 623
Y N+ + E K EK ++ EEV K
Sbjct: 577 -YINEPTNSNLEKETPAKYFVEKGANIKEIIASREEV------------------APFSK 617
Query: 624 KAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRI 683
K G I+ + + + + + LD++ L T G T G+ D + E
Sbjct: 618 KILGN----IIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVGVSDILVLGEK---- 669
Query: 684 KEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGM 743
EI+ EA+ +V +I+ ++RG + EE +++++ + A+D K L
Sbjct: 670 DEILHEAQAKVDNVIKQFRRGLI-------TEEERYDRVISIWSNAKDVIQGKLMKSLNK 722
Query: 744 DNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGF 803
N +M+ +GARG N TQ+A + G L GR++ P
Sbjct: 723 RNPIFMMSDSGARGNXSNFTQLAGMRG--------LMANPSGRIIE--LP---------- 762
Query: 804 VVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDP 863
+ +S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+ V D D
Sbjct: 763 IKSSFREGLTVLEYFISTHGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDR 822
Query: 864 TGVIVQFRYGEDGVDPM 880
+I + G + ++ +
Sbjct: 823 GLLIGAIKEGNEVIESL 839
>gb|AAB59112.1| (L43593) RNA polymerase beta' subunit [Bacillus subtilis]
Length = 933
Score = 279 bits (705), Expect = 1e-73
Identities = 251/892 (28%), Positives = 393/892 (43%), Gaps = 140/892 (15%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
+ G+ SP +IR S EV P+T + DG E G D K V
Sbjct: 10 MNIGLASPDKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECHCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIH-----------RILESTC 100
G+ C+ CG + GHIELA PV H+ + K I R LE
Sbjct: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRALEEVI 129
Query: 101 RECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFE 160
+ K+L K R+ ++K + + H + E
Sbjct: 130 YFASYVVTDPANTPLEKKQLLSEKEYRAYLDKYGNKFQASMGAEAI--HKLLQDIDLVKE 187
Query: 161 KPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
+ EL K QG + E+ + +K P WM+L VLPV
Sbjct: 188 VDMLKEEL-KTSQGQRRTRAIKRLEVLEAFRNSGNK-------------PSWMILDVLPV 233
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
P RP + L+ G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 234 IPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVD 293
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +
Sbjct: 294 ALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKM 352
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+ G+P ++A+EL P + E +EK G + I +S +
Sbjct: 353 YQCGLPKEMALELFKPFVMKEL-VEK-------------GLAHNI----------KSAKR 388
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
+ R+ W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNA
Sbjct: 389 KIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNA 448
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGD+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E A
Sbjct: 449 DFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERAG 508
Query: 521 FTREEV------EQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFS 560
E + E +L + A +K + ++ + + + GK +F+
Sbjct: 509 AVGEGMVFKNTDEALLAYQNGYVHLHTRVAVAANSLKNVTFTEEQRSKLLITTVGKLVFN 568
Query: 561 LLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGA 620
+LP+ Y N EP + EK + + +V+ + + N G
Sbjct: 569 EILPESFP--YMN----EPTKSNIEEKTPDRFFLEKGADVKAVIAQQPI---NAPFKKGI 619
Query: 621 IDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
+ K I+ I + + + + LD++ L T G T G+ D + ++
Sbjct: 620 LGK---------IIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVLDDK- 669
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
+EI+ EA+ +V +++ ++RG + EE +++++ + A+D K
Sbjct: 670 ---QEILEEAQSKVDNVMKQFRRGLI-------TEEERYERVISIWSAAKDVIQGKLMKS 719
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N +M+ +GARG N TQ+A + G L GR++ P
Sbjct: 720 LDELNPIYMMSDSGARGNASNFTQLAGMRG--------LMANPAGRIIE--LP------- 762
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ +S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 763 ---IKSSFREGLTVLEYFISTHGARKGLADTALKTADSGYLTRRLVDVAQDV 811
>sp|P37871|RPOC_BACSU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1199
Score = 279 bits (705), Expect = 1e-73
Identities = 251/892 (28%), Positives = 393/892 (43%), Gaps = 140/892 (15%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
+ G+ SP +IR S EV P+T + DG E G D K V
Sbjct: 10 MNIGLASPDKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECHCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIH-----------RILESTC 100
G+ C+ CG + GHIELA PV H+ + K I R LE
Sbjct: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRALEEVI 129
Query: 101 RECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFE 160
+ K+L K R+ ++K + + H + E
Sbjct: 130 YFASYVVTDPANTPLEKKQLLSEKEYRAYLDKYGNKFQASMGAEAI--HKLLQDIDLVKE 187
Query: 161 KPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
+ EL K QG + E+ + +K P WM+L VLPV
Sbjct: 188 VDMLKEEL-KTSQGQRRTRAIKRLEVLEAFRNSGNK-------------PSWMILDVLPV 233
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
P RP + L+ G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 234 IPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVD 293
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +
Sbjct: 294 ALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKM 352
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+ G+P ++A+EL P + E +EK G + I +S +
Sbjct: 353 YQCGLPKEMALELFKPFVMKEL-VEK-------------GLAHNI----------KSAKR 388
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
+ R+ W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNA
Sbjct: 389 KIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNA 448
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGD+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E A
Sbjct: 449 DFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERAG 508
Query: 521 FTREEV------EQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFS 560
E + E +L + A +K + ++ + + + GK +F+
Sbjct: 509 AVGEGMVFKNTDEALLAYQNGYVHLHTRVAVAANSLKNVTFTEEQRSKLLITTVGKLVFN 568
Query: 561 LLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGA 620
+LP+ Y N EP + EK + + +V+ + + N G
Sbjct: 569 EILPESFP--YMN----EPTKSNIEEKTPDRFFLEKGADVKAVIAQQPI---NAPFKKGI 619
Query: 621 IDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
+ K I+ I + + + + LD++ L T G T G+ D + ++
Sbjct: 620 LGK---------IIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVLDDK- 669
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
+EI+ EA+ +V +++ ++RG + EE +++++ + A+D K
Sbjct: 670 ---QEILEEAQSKVDNVMKQFRRGLI-------TEEERYERVISIWSAAKDVIQGKLMKS 719
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N +M+ +GARG N TQ+A + G L GR++ P
Sbjct: 720 LDELNPIYMMSDSGARGNASNFTQLAGMRG--------LMANPAGRIIE--LP------- 762
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ +S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 763 ---IKSSFREGLTVLEYFISTHGARKGLADTALKTADSGYLTRRLVDVAQDV 811
>pir||G69698 RNA polymerase (beta' subunit) rpoC - Bacillus subtilis
>gi|2632375|emb|CAB11884.1| (Z99104) RNA polymerase
(beta' subunit) [Bacillus subtilis]
Length = 1199
Score = 279 bits (705), Expect = 1e-73
Identities = 251/892 (28%), Positives = 393/892 (43%), Gaps = 140/892 (15%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
+ G+ SP +IR S EV P+T + DG E G D K V
Sbjct: 10 MNIGLASPDKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECHCGKYKRVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIH-----------RILESTC 100
G+ C+ CG + GHIELA PV H+ + K I R LE
Sbjct: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRALEEVI 129
Query: 101 RECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFE 160
+ K+L K R+ ++K + + H + E
Sbjct: 130 YFASYVVTDPANTPLEKKQLLSEKEYRAYLDKYGNKFQASMGAEAI--HKLLQDIDLVKE 187
Query: 161 KPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPV 220
+ EL K QG + E+ + +K P WM+L VLPV
Sbjct: 188 VDMLKEEL-KTSQGQRRTRAIKRLEVLEAFRNSGNK-------------PSWMILDVLPV 233
Query: 221 PPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVT 280
P RP + L+ G A DL +I NNRLK+ ++ GAP +I+++ +LQ V
Sbjct: 234 IPPELRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVD 293
Query: 281 TYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISI 340
I+N G P RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +
Sbjct: 294 ALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPHLKM 352
Query: 341 NEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRE 400
+ G+P ++A+EL P + E +EK G + I +S +
Sbjct: 353 YQCGLPKEMALELFKPFVMKEL-VEK-------------GLAHNI----------KSAKR 388
Query: 401 NLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNA 460
+ R+ W V ++ VL NR P+LHR+ I A ++ R RL+ VC YNA
Sbjct: 389 KIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPTLVEGRAIRLHPLVCTAYNA 448
Query: 461 DFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAY 520
DFDGD+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E A
Sbjct: 449 DFDGDQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERAG 508
Query: 521 FTREEV------EQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFS 560
E + E +L + A +K + ++ + + + GK +F+
Sbjct: 509 AVGEGMVFKNTDEALLAYQNGYVHLHTRVAVAANSLKNVTFTEEQRSKLLITTVGKLVFN 568
Query: 561 LLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGA 620
+LP+ Y N EP + EK + + +V+ + + N G
Sbjct: 569 EILPESFP--YMN----EPTKSNIEEKTPDRFFLEKGADVKAVIAQQPI---NAPFKKGI 619
Query: 621 IDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEAR 680
+ K I+ I + + + + LD++ L T G T G+ D + ++
Sbjct: 620 LGK---------IIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVLDDK- 669
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
+EI+ EA+ +V +++ ++RG + EE +++++ + A+D K
Sbjct: 670 ---QEILEEAQSKVDNVMKQFRRGLI-------TEEERYERVISIWSAAKDVIQGKLMKS 719
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
L N +M+ +GARG N TQ+A + G L GR++ P
Sbjct: 720 LDELNPIYMMSDSGARGNASNFTQLAGMRG--------LMANPAGRIIE--LP------- 762
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ +S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 763 ---IKSSFREGLTVLEYFISTPGARKGLADTALKTADSGYLTRRLVDVAQDV 811
>sp|P96177|RPOC_WEIHE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1839048|emb|CAA65322.1| (X96470) DNA-dependent RNA
polymerase [Weissella hellenica]
Length = 1046
Score = 277 bits (702), Expect = 3e-73
Identities = 233/824 (28%), Positives = 385/824 (46%), Gaps = 102/824 (12%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEI 113
G+ C+ CG + GHIELA PV H+ + K I + + ++ +
Sbjct: 6 GIVCDRCGVEVTSAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLV------LDMSPRSL 59
Query: 114 EEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEK-------PTIYW 166
EE + + + + K++ + R + +Y FE T+
Sbjct: 60 EEVIYFASYVVTKPGDTSLTEKQLLSEREYRQL-----KAEYGNAFEAGMGAEAVQTLLS 114
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ +E+ E K ++ + R+ + D+ + ++PEWMV+ V+P+ P R
Sbjct: 115 NVDLEEEVTELKAQLREATGQKRVRAVRRLDI-IEAFVKSGNKPEWMVMDVIPIIPPDLR 173
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
P + LE G A DL +I NNRLK+ +E AP +I+++ +LQ ++N
Sbjct: 174 PMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLELNAPGIIVQNEKRMLQEAADALVDNG 233
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G P RPLK+L+ LKGK+GRFR +L GKRV++S R+VI P + +N++G+P
Sbjct: 234 RRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQDLLGKRVDYSGRSVIDVGPFLKMNQMGLP 292
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
+AMEL P F +++L K L G + + + + R
Sbjct: 293 RPMAMELFRP-----FIMKELVKRDLAGN-------------------IRAAKRKIDRHD 328
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
+ V ++ VL NR P+LHR+ I A ++ + RL+ V YNADFDGD+
Sbjct: 329 EDVMDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQ 388
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEV 526
M +HVP ++EAQAEAR+LM HI++P+ G PI+ QD + G Y LT E A E
Sbjct: 389 MAIHVPLSDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTTEEA---GREG 445
Query: 527 EQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALE 586
E M+ F V+ +KY + +T SL T R+++ ++
Sbjct: 446 EGMI-FKDVNEVRTAYQNKYVHLHTRIGIQTA-SLSAEKPFTAEQRSRI-----MMTSVG 498
Query: 587 KLIEEKLMP-------DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY--GREDGIILDLI 637
KL ++P +P E D +++ G+ + + + G + D+I
Sbjct: 499 KLFFNDILPADFPYLNEPTEANLHEIDNRFFLEPGEDIKARYAETPILPPFKKGYLSDII 558
Query: 638 VREYGVERARQ---FLDQVTKLTIWVITHKGFTTGIDD-EDLPEEARDRIKEIIREAEER 693
Y + + + LD++ L T G T G+ D DL E+ EII +A ++
Sbjct: 559 AEVYKIYKVTETSLLLDRMKDLGYDESTKSGLTVGVADVTDLKEK-----PEIIEDAHKQ 613
Query: 694 VQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKT 753
V + + ++RG + T E E +++A+ +A+D+ ++ DN+ +M+ +
Sbjct: 614 VATVTKQFRRGLI------TDSERYE-RVIAIWNKAKDDITEKLIEHFEPDNNIFMMSDS 666
Query: 754 GARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLS 813
GARG I N TQ+A + G L GR++ P ++ +++ GLS
Sbjct: 667 GARGNISNFTQLAGMRG--------LMAAPNGRIME--LP----------IIANFREGLS 706
Query: 814 PQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
E FF G R+G+ DTA++TA SGYM RRL++ QD+ + D
Sbjct: 707 VLEMFFSTHGARKGMTDTALKTADSGYMTRRLVDVAQDVIIRED 750
>dbj|BAA88485.1| (AB025332) RNA polymerase II largest subunit [Lampetra reissneri]
Length = 595
Score = 277 bits (701), Expect = 4e-73
Identities = 151/415 (36%), Positives = 242/415 (57%), Gaps = 25/415 (6%)
Query: 468 NLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVE 527
NLH+PQ+ E +AE + L V II+P+ P++G +QD ++ T+ + R EV
Sbjct: 1 NLHLPQSLETRAEIQELAMVPRMIITPQSNRPVMGIVQDTLTAVRKFTKRDVFLDRAEVM 60
Query: 528 QMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEK 587
+LM+ ++P+P + +PLW+GK +FSL++P +
Sbjct: 61 TLLMYLSTWNGKMPQPAVLKP-QPLWTGKQVFSLVIPGQINC------------------ 101
Query: 588 LIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGV 643
+ PD E+ + D V ++NG+L+ G + K++ G G ++ ++ E G
Sbjct: 102 VRTHSTHPDNEDTGPYRHISPGDTKVIVENGELIMGILCKRSLGTSAGSLVHIVFLEMGH 161
Query: 644 ERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
+ R F + T + W++ +G + GI D + I+ I++A++ V ++IE
Sbjct: 162 DTTRLFYSNIQTVVNNWLLI-EGHSIGIGDSIADAKTYQDIQNTIKKAKQDVIEVIEKAH 220
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M G++G +NI
Sbjct: 221 NNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSMVVAGSKGSKINI 280
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +GL+P E+FFHAM
Sbjct: 281 SQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLAGLTPTEFFFHAM 340
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GGREGL+DTAV+TA++GY+QRRLI +++ + V YDGTVR+ ++Q RYGEDG+
Sbjct: 341 GGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDGTVRNGINQVIQLRYGEDGL 395
>pir||T10432 DNA-directed RNA polymerase (EC 2.7.7.6) - Pediococcus acidilactici
(fragment) >gi|1495742|emb|CAA61516.1| (X89232)
DNA-directed RNA polymerase [Pediococcus acidilactici]
Length = 1055
Score = 275 bits (697), Expect = 1e-72
Identities = 259/953 (27%), Positives = 419/953 (43%), Gaps = 165/953 (17%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRM---------------GV 53
S++ G+ SP +IR S EV P+T + P + G+ D+R+ +
Sbjct: 9 SMQIGLASPDKIRMWSYGEVKKPETINYRTLKPEKDGLFDERIFGPTKDYECACGKYKRI 68
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIH-----------RILEST 99
G+ C+ CG + + GHIELA PV H+ + K I R LE
Sbjct: 69 RYKGIVCDRCGVEVTKSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEI 128
Query: 100 CRECGRIKLTDEEIEEYMKKLELAKNRRSEV----NKILKEIHKKARERMVCPHCGAPQY 155
+ + + K+L + R+++ N+ + +I +A + ++
Sbjct: 129 IYFASYVVVDPGDTPLEKKQLLTEREYRAKLDEYGNRFVAKIGGEAIQALL--------Q 180
Query: 156 PIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
+ EK + N K + + R + D+ + + P+WMV+
Sbjct: 181 SVDLEK-----------EANLLKEELKEASGQKRTRAVRRLDI-IEAFIKSGNHPDWMVM 228
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
+PV P RP + L+ G A DL H +I NNRLK+ ++ AP +I+++ +L
Sbjct: 229 DAIPVMPPDLRPMVQLDGGRFATSDLKHLYRRVINRNNRLKRLLDLNAPGIIVQNEKRML 288
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q V I+N G P A RPLK+L+ LKGK+ FR NL GKRV++S R+VI
Sbjct: 289 QEAVDALIDNGRRGRPVAG-PGNRPLKSLSHMLKGKQEGFRQNLLGKRVDYSGRSVIDVG 347
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P + +N++G+P+ +AMEL P + E L + N K ID + +
Sbjct: 348 PSLKMNQMGLPVPMAMELFKPFIMKELVSRNLASNIKNAKRK-------IDRKDEEV--- 397
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ V ++ VL NR P+LHR+ I A ++ + RL+ C
Sbjct: 398 --------------YDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLAC 443
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
YNADFDGD+M +HVP + EAQAEAR+LM +HI++P+ G P++ QD + G Y LT
Sbjct: 444 EAYNADFDGDQMAIHVPLSNEAQAEARLLMLAAHHILAPKDGKPVVTPSQDMVIGNYWLT 503
Query: 516 REGA--------YFTREEVEQMLMFA--------GVDIKELPEPDKYENGKP----LWSG 555
E A + +EV+ L GV +PE + + +G
Sbjct: 504 MERAESVGEGMIFNDLDEVKLALQNGYVSIHTRIGVRASSMPEKPFTDQQRQQILITTAG 563
Query: 556 KTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGK 615
K +F+ +LP D Y N EKL+ PD E + D +
Sbjct: 564 KMLFNDILPKDFV--YLN--------APTNEKLVNG--TPD-EYFLEAGEDIHEQLNQRP 610
Query: 616 LLSGAIDKKAYGREDGIILDLIV---REYGVERARQFLDQVTKLTIWVITHKGFTTGIDD 672
LLS + G + D+I ++Y V LD++ L + T G T GI D
Sbjct: 611 LLSPF--------KSGFLSDVIAEVYKQYKVTETSLLLDRMKDLGFYRSTLSGLTVGIAD 662
Query: 673 -EDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARD 731
+LP++ II A ++V + + ++RG + T +E E +++ + +A+D
Sbjct: 663 ITNLPDK-----PAIIAAAHKKVATVTKQFRRGLI------TDDERYE-RVIGIWNDAKD 710
Query: 732 NAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHF 791
N +M+ +GARG I N TQ+A + G L G+++
Sbjct: 711 EIQQRLMDTFDPQNPIFMMSDSGARGNISNFTQLAGMRG--------LMAAPNGKIME-- 760
Query: 792 KPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQD 851
P ++++++ GLS E F G R+G+ DTA++TA SGY+ RRL++ QD
Sbjct: 761 LP----------ILSNFREGLSVLEMFISTHGARKGMTDTALKTANSGYLTRRLVDVAQD 810
Query: 852 LKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIKMRAN 904
+ V D +I G + ++P+ DR++ R +K N
Sbjct: 811 VIVREKDCGTDRGLLITAIAEGNEMIEPL---------YDRILGRYTMKSVIN 854
>sp|P77917|RPOC_PEDAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
Length = 1055
Score = 275 bits (697), Expect = 1e-72
Identities = 259/953 (27%), Positives = 419/953 (43%), Gaps = 165/953 (17%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRM---------------GV 53
S++ G+ SP +IR S EV P+T + P + G+ D+R+ +
Sbjct: 9 SMQIGLASPDKIRMWSYGEVKKPETINYRTLKPEKDGLFDERIFGPTKDYECACGKYKRI 68
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIH-----------RILEST 99
G+ C+ CG + + GHIELA PV H+ + K I R LE
Sbjct: 69 RYKGIVCDRCGVEVTKSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEI 128
Query: 100 CRECGRIKLTDEEIEEYMKKLELAKNRRSEV----NKILKEIHKKARERMVCPHCGAPQY 155
+ + + K+L + R+++ N+ + +I +A + ++
Sbjct: 129 IYFASYVVVDPGDTPLEKKQLLTEREYRAKLDEYGNRFVAKIGGEAIQALL--------Q 180
Query: 156 PIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
+ EK + N K + + R + D+ + + P+WMV+
Sbjct: 181 SVDLEK-----------EANLLKEELKEASGQKRTRAVRRLDI-IEAFIKSGNHPDWMVM 228
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
+PV P RP + L+ G A DL H +I NNRLK+ ++ AP +I+++ +L
Sbjct: 229 DAIPVMPPDLRPMVQLDGGRFATSDLKHLYRRVINRNNRLKRLLDLNAPGIIVQNEKRML 288
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q V I+N G P A RPLK+L+ LKGK+ FR NL GKRV++S R+VI
Sbjct: 289 QEAVDALIDNGRRGRPVAG-PGNRPLKSLSHMLKGKQEGFRQNLLGKRVDYSGRSVIDVG 347
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P + +N++G+P+ +AMEL P + E L + N K ID + +
Sbjct: 348 PSLKMNQMGLPVPMAMELFKPFIMKELVSRNLASNIKNAKRK-------IDRKDEEV--- 397
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
+ V ++ VL NR P+LHR+ I A ++ + RL+ C
Sbjct: 398 --------------YDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLAC 443
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
YNADFDGD+M +HVP + EAQAEAR+LM +HI++P+ G P++ QD + G Y LT
Sbjct: 444 EAYNADFDGDQMAIHVPLSNEAQAEARLLMLAAHHILAPKDGKPVVTPSQDMVIGNYWLT 503
Query: 516 REGA--------YFTREEVEQMLMFA--------GVDIKELPEPDKYENGKP----LWSG 555
E A + +EV+ L GV +PE + + +G
Sbjct: 504 MERAESVGEGMIFNDLDEVKLALQNGYVSIHTRIGVRASSMPEKPFTDQQRQQILITTAG 563
Query: 556 KTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGK 615
K +F+ +LP D Y N EKL+ PD E + D +
Sbjct: 564 KMLFNDILPKDFV--YLN--------APTNEKLVNG--TPD-EYFLEAGEDIHEQLNQRP 610
Query: 616 LLSGAIDKKAYGREDGIILDLIV---REYGVERARQFLDQVTKLTIWVITHKGFTTGIDD 672
LLS + G + D+I ++Y V LD++ L + T G T GI D
Sbjct: 611 LLSPF--------KSGFLSDVIAEVYKQYKVTETSLLLDRMKDLGFYRSTLSGLTVGIAD 662
Query: 673 -EDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARD 731
+LP++ II A ++V + + ++RG + T +E E +++ + +A+D
Sbjct: 663 ITNLPDK-----PAIIAAAHKKVATVTKQFRRGLI------TDDERYE-RVIGIWNDAKD 710
Query: 732 NAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHF 791
N +M+ +GARG I N TQ+A + G L G+++
Sbjct: 711 EIQQRLMDTFDPQNPIFMMSDSGARGNISNFTQLAGMRG--------LMAAPNGKIME-- 760
Query: 792 KPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQD 851
P ++++++ GLS E F G R+G+ DTA++TA SGY+ RRL++ QD
Sbjct: 761 LP----------ILSNFREGLSVLEMFISTHGARKGMTDTALKTANSGYLTRRLVDVAQD 810
Query: 852 LKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLIKMRAN 904
+ V D +I G + ++P+ DR++ R +K N
Sbjct: 811 VIVREKDCGTDRGLLITAIAEGNEMIEPL---------YDRILGRYTMKSVIN 854
>dbj|BAA88484.1| (AB025331) RNA polymerase II largest subunit [Eptatretus burgeri]
Length = 595
Score = 270 bits (683), Expect = 5e-71
Identities = 149/415 (35%), Positives = 238/415 (56%), Gaps = 25/415 (6%)
Query: 468 NLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVE 527
NLH+PQ+ E +AE L V I++P+ P++G +QD ++ T+ + R V
Sbjct: 1 NLHLPQSLETKAEIHELAMVPRMIVTPQSNRPVMGIVQDTLTAVRKFTKRDVFLDRGTVM 60
Query: 528 QMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEK 587
+LM ++P+P + +PLW+GK +FSL++P +
Sbjct: 61 NLLMCLSTWNGKMPQPAILKP-QPLWTGKQVFSLIIPGRINC------------------ 101
Query: 588 LIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGV 643
+ PD E+ + D V +++G+L+ G + K++ G G ++ + E G
Sbjct: 102 IRTHSTHPDNEDAGPYKHISPGDTKVVVEDGELIMGILCKRSLGTSAGSLVHICFLEMGH 161
Query: 644 ERARQFLDQV-TKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYK 702
+ R F + T + W++ +G + GI D + I+ I++A+ V ++IE
Sbjct: 162 DVTRLFYSNIQTVINNWLLI-EGHSIGIGDSIADAKTYQDIQNTIKKAKHDVIEVIEKAH 220
Query: 703 RGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNI 762
ELEP PG TL +T E+++ +L +ARD GS A+K L N+ M G++G +NI
Sbjct: 221 NNELEPTPGNTLRQTFENQVNRILNDARDKTGSSAQKSLSEYNNFKSMVVAGSKGSKINI 280
Query: 763 TQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAM 822
+Q+ A++GQQ++ GKR+ GF+ R L HF D G ++GFV NSY +GL+P E+FFHAM
Sbjct: 281 SQVIAVVGQQNVEGKRIPFGFKHRTLPHFIKDDYGPESRGFVENSYLAGLTPSEFFFHAM 340
Query: 823 GGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGV 877
GGREGL+DTAV+TA++GY+QRRLI +++ + V YDGTVR+ T ++Q RYGEDG+
Sbjct: 341 GGREGLIDTAVKTAETGYIQRRLIKSMESVMVKYDGTVRNATNQVIQLRYGEDGL 395
>pir||F81686 DNA-directed RNA polymerase, beta' chain TC0588 [imported] -
Chlamydia muridarum (strain Nigg)
>gi|7190625|gb|AAF39420.1| (AE002327) DNA-directed RNA
polymerase, beta` subunit [Chlamydia muridarum]
Length = 1396
Score = 269 bits (681), Expect = 9e-71
Identities = 241/874 (27%), Positives = 398/874 (44%), Gaps = 119/874 (13%)
Query: 11 IEFGILSPQEIR-KMSAVEVTVPDTYDDDGY-PIEGGVMDKRM---------------GV 53
+E GI S IR K S E+ P+T + + P +GG+ +++ +
Sbjct: 21 LEIGIASDVTIRDKWSCGEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECYCGKYKKI 80
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRI 106
G+ C+ CG + HIELA P++H+ F KT I +L T + R+
Sbjct: 81 KHKGIVCDRCGVEVTLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERV 140
Query: 107 KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYW 166
+E + +L K K++ A+ R V G + K +Y
Sbjct: 141 IYYEEYVVIDPGNTDLVK----------KQLLNDAKYREVVEKWGKDAFVAKMGGEAVYD 190
Query: 167 ELRKDEQGN---EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
L+ ++ + E K R+ T+ + K+ + + G +RPEWMVL +PV P
Sbjct: 191 LLKSEDLESLLGELKDRLRKTKSQQARMKLAKRLKIVEGFVSSSNRPEWMVLKNIPVVPP 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP + L+ G A DL +I NNRLK + P++I+ + +LQ V
Sbjct: 251 DLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLKTPEVIVRNEKRMLQEAVDALF 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N G P RPLK+L++ LKGK GRFR NL GKRV++S R+VI P + N+
Sbjct: 311 DNGRHG-HPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVGPELKFNQC 369
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
G+P ++A+EL P F I++L+ G+ Y I S ++ +
Sbjct: 370 GLPKEMALELFEP-----FIIKRLKDQ---------GSVYTI----------RSAKKMIQ 405
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
R W V ++ G VL NR P+LHR+ I A ++ + R++ VC +NADFD
Sbjct: 406 RGAPEVWDVLEEIIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRVHPLVCAAFNADFD 465
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GD+M +HVP + EAQ EA++LM ++I P G P+ +D G Y L + YF
Sbjct: 466 GDQMAVHVPLSIEAQLEAKVLMMAPDNIFLPSSGKPVATPSKDMTLGIYYLMADPTYFPE 525
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E + +F D+ E + L +G +L D++ R++ E
Sbjct: 526 EHGGKTKVF----------KDEVEVLRALNAG----GFILKDEICGSRRDETGRGIHIHE 571
Query: 584 ALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREY-- 641
A++ I+ +++ G V+ ++ + + Y I +LI++ Y
Sbjct: 572 AIKVRIDGQIIE--------TTPGRVFFNT--IVPKELGFQNYSMPSKRISELILQCYKK 621
Query: 642 -GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
G+E +FLD + +L T + G+ D +PE KEI+++A ++V + +
Sbjct: 622 VGLEATVRFLDDLKELGFVQSTKAAISMGLKDVRIPEIK----KEILKDAYDKVAVVKKQ 677
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNA--GSIAEKYLGMDNHTVIMAKTGARGK 758
Y+ G + G+ +T+ I +++ NA I ++ N +M +GARG
Sbjct: 678 YEDGII--TDGERHSKTI--SIWTEVSDLLSNALYAEIKKQTNSKHNPLFLMIDSGARGN 733
Query: 759 ILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYF 818
+ Q+ AL G + KP GA + + ++++ GL+ EY
Sbjct: 734 KSQLKQLGALRGLMA------------------KPN--GAIIESPITSNFREGLTVLEYS 773
Query: 819 FHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 774 ISSHGARKGLADTALKTADSGYLTRRLVDVAQDV 807
>sp|O84316|RPOC_CHLTR DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|7434734|pir||G71529
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Chlamydia trachomatis (serotype D, strain UW3/Cx)
>gi|3328731|gb|AAC67907.1| (AE001304) RNA Polymerase
Beta' [Chlamydia trachomatis]
Length = 1396
Score = 269 bits (680), Expect = 1e-70
Identities = 256/930 (27%), Positives = 412/930 (43%), Gaps = 148/930 (15%)
Query: 11 IEFGILSPQEIR-KMSAVEVTVPDTYDDDGY-PIEGGVMDKRM---------------GV 53
+E GI S IR K S E+ P+T + + P +GG+ +++ +
Sbjct: 21 LEIGIASDVTIRDKWSCGEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWECYCGKYKKI 80
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRI 106
G+ C+ CG + HIELA P++H+ F KT I +L T + R+
Sbjct: 81 KHKGIVCDRCGVEVTLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGMTASDLERV 140
Query: 107 KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYW 166
+E + +L K K++ A+ R V G + K +Y
Sbjct: 141 IYYEEYVVIDPGNTDLVK----------KQLLNDAKYREVVEKWGKDAFVAKMGGEAVYD 190
Query: 167 ELRKDEQGN---EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
L+ ++ + E K R+ T+ + K+ + + G +RPEWMVL +PV P
Sbjct: 191 LLKSEDLESLLGELKERLRKTKSQQARMKLAKRLKIVEGFVSSSNRPEWMVLKNIPVVPP 250
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP + L+ G A DL +I NNRLK + P++I+ + +LQ V
Sbjct: 251 DLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLKTPEVIVRNEKRMLQEAVDALF 310
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N G P RPLK+L++ LKGK GRFR NL GKRV++S R+VI P + N+
Sbjct: 311 DNGRHG-HPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVGPELKFNQC 369
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
G+P ++A+EL P F I++L+ G+ Y I S ++ +
Sbjct: 370 GLPKEMALELFEP-----FIIKRLKDQ---------GSVYTI----------RSAKKMIQ 405
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
R W V ++ G VL NR P+LHR+ I A ++ + R++ VC +NADFD
Sbjct: 406 RGAPEVWDVLEEIIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRVHPLVCAAFNADFD 465
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GD+M +HVP + EAQ EA++LM ++I P G P+ +D G Y L + YF
Sbjct: 466 GDQMAVHVPLSIEAQLEAKVLMMAPDNIFLPSSGKPVATPSKDMTLGIYYLMADPTYFPE 525
Query: 524 EEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCE 583
E + F D+ E + L +G I ++++C
Sbjct: 526 EHGGKTKAF----------KDEVEVLRALNAGGFIL------------KDEICGSRRDET 563
Query: 584 ALEKLIEEKLMPDPEEVRKLAYDG-FVYIQNGKLLSGAIDKKA-----YGREDGIILDLI 637
I EK+ K+ DG + G++ I K Y I +LI
Sbjct: 564 GRGIHIHEKI--------KVRIDGQIIETTPGRVFFNTIVPKELGFQNYSMPSKRISELI 615
Query: 638 VREY---GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERV 694
++ Y G+E +FLD + +L T + G+ D +PE KEI+++A ++V
Sbjct: 616 LQCYKKVGLEATVRFLDDLKELGFVQSTKAAISMGLKDVKIPEIK----KEILKDAYDKV 671
Query: 695 QKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNA--GSIAEKYLGMDNHTVIMAK 752
+ + Y+ G + G+ +T+ I +++ NA I ++ N +M
Sbjct: 672 AVVKKQYEDGII--TDGERHSKTI--SIWTEVSDLLSNALYSEIKKQTNSKHNPLFLMID 727
Query: 753 TGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGL 812
+GARG + Q+ AL G + KP GA + + ++++ GL
Sbjct: 728 SGARGNKSQLKQLGALRGLMA------------------KPN--GAIIESPITSNFREGL 767
Query: 813 SPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGV----IV 868
+ EY + G R+GL DTA++TA SGY+ RRL++ QD+ + T RD + +
Sbjct: 768 TVLEYSISSHGARKGLADTALKTADSGYLTRRLVDVAQDVII----TERDCGTLNHIEVS 823
Query: 869 QFRYGEDGVDPMKSWGGKTVDVDRVIMRTL 898
R G + + P+K DRV RT+
Sbjct: 824 TIRQGSEELLPLK---------DRVYGRTV 844
>sp|P95816|RPOC_STRPY DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1839027|emb|CAA65249.1| (X96385) DNA-dependent RNA
polymerase [Streptococcus pyogenes]
Length = 989
Score = 267 bits (676), Expect = 3e-70
Identities = 234/838 (27%), Positives = 384/838 (44%), Gaps = 130/838 (15%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEI 113
G+ C+ CG + GHIEL PV H+ + K I + T R EE+
Sbjct: 6 GIVCDRCGVEVTRAKVRRERMGHIELKAPVSHIWYFKGIPSRMGLTLDMSPRAL---EEV 62
Query: 114 EEYMKKLEL-AKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDE 172
+ + + K+ E +L E ++ RE++ G + K I L++ +
Sbjct: 63 IYFAAYVVIDPKDTPLEPKSLLTE--REYREKL--QEYGHGSFVAKMGAEAIQDLLKRVD 118
Query: 173 QGNEY---KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSI 229
E K + + R++ + D+ L + ++PEWMVL +LPV P RP +
Sbjct: 119 LAAEIAELKEELKSASGQKRIKAVRRLDV-LDAFNKSGNKPEWMVLNILPVIPPDLRPMV 177
Query: 230 TLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSG 289
L+ G A DL +I NNRL + +E AP +I+++ +LQ V I+N G
Sbjct: 178 QLDGGRFAASDLNDLYRRVINRNNRLARLLELNAPGIIVQNEKRMLQEAVDALIDNGRRG 237
Query: 290 VPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQI 349
P RPLK+L+ LKGK+GRFR NL GKRV+FS R+VI+ P + + + GVP ++
Sbjct: 238 -RPITGPGSRPLKSLSHMLKGKQGRFRQNLLGKRVDFSGRSVIAVGPTLKMYQCGVPREM 296
Query: 350 AMELTVPEKVTEF-------NIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENL 402
A+EL P + E N++ ++MV G ++
Sbjct: 297 AIELFKPFVMREIVAKEYAGNVKAAKRMVERGDERI------------------------ 332
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
W + ++ VL NR P+LHR+ I A ++ RL+ VC NADF
Sbjct: 333 -------WDILEEVIKEHPVLLNRAPTLHRLGIQAFEPVLIDGNLLRLHPLVCEAGNADF 385
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT-----RE 517
DG +M +HVP +EEAQAEAR+LM HI++P+ G P++ QD + G Y LT RE
Sbjct: 386 DG-QMAIHVPLSEEAQAEARLLMLAAEHILNPKDGKPVVTPSQDMVLGNYYLTMEDAGRE 444
Query: 518 GAYFTREEVEQMLMF-----------AGVDIKELP-EPDKYENGKPLW---SGKTIFSLL 562
G ++ ++ +M G+ + +P +P K + GK +F+ +
Sbjct: 445 GEGMIFKDKDEAVMAYRNGYAHLHSRVGIAVDSMPNKPWKDSQRHKIMVTTVGKILFNDI 504
Query: 563 LPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAID 622
+P+DL EP E ++ + +++++ + +G ++
Sbjct: 505 MPEDL------PYLQEPNNANLTEGTPDKYFLEPGQDIQE--------VIDGLDINVPFK 550
Query: 623 KKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDR 682
KK G I+ + + FLD++ L + T G T GI D+P D
Sbjct: 551 KKNLGN----IIAETFKRFRTTETSAFLDRLKDLGYYHSTLAGLTVGI--ADIP--VIDN 602
Query: 683 IKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLG 742
EII A RV+++ +A++RG + T + + +AV R+ ++ ++ +
Sbjct: 603 KAEIIDAAHHRVEEINKAFRRGLM----------TDDDRYVAVTTTWREAKEALEKRLIE 652
Query: 743 MD---NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGAR 799
N V+M +GARG I N +Q+A + G L GR++ P
Sbjct: 653 TQDPKNPFVMMMDSGARGNISNFSQLAGMRG--------LMAAPNGRIME--LP------ 696
Query: 800 AKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
++++++ GLS E FF R+G+ DTA++TA SGY+ RRL++ QD+ + D
Sbjct: 697 ----ILSNFREGLSVLEMFFSTHSARKGMTDTALKTADSGYLTRRLVDVAQDVIIRED 750
>sp|P43739|RPOC_HAEIN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|1074045|pir||G64073
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Haemophilus influenzae (strain Rd KW20)
>gi|1573495|gb|AAC22172.1| (U32733) DNA-directed RNA
polymerase, beta' chain (rpoC) [Haemophilus influenzae
Rd]
Length = 1415
Score = 266 bits (674), Expect = 6e-70
Identities = 248/893 (27%), Positives = 395/893 (43%), Gaps = 146/893 (16%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGVI 54
I+ G+ SP IR S EV P+T + DG I G V D K +
Sbjct: 21 IKIGLASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYECLCGKYKRLK 80
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRIK 107
G+ CE CG + + GHIELA PV H+ F K+ I +L+ R+ R+
Sbjct: 81 HRGVICEKCGVEVTQTKVRRERMGHIELASPVAHIWFLKSLPSRIGLLLDMPLRDIERVL 140
Query: 108 LTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWE 167
+ I +L + + + +E + A +R ++ K I
Sbjct: 141 YFEMYIVTEPGMTDLERGQL-----LTEEQYLDAEDRW------QDEFEAKMGAEAIQDL 189
Query: 168 LRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVT 224
L+ + + + + + T + +KI + L ++PEWMV+TVLPV P
Sbjct: 190 LKGMDLEAECEKLREELQETNSETKRKKITKRLKLLEAFVQSGNKPEWMVMTVLPVLPPD 249
Query: 225 ARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYIN 284
RP + L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V ++
Sbjct: 250 LRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLIAPDIIVRNEKRMLQESVDALLD 309
Query: 285 NETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+ P + +++ G
Sbjct: 310 NGRRG-RAITGSNRRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLHLHQCG 368
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLAR 404
+P ++A+EL P F KL + G I ++ ++ + R
Sbjct: 369 LPKKMALELFRP-----FIYAKL------------------ESRGYATTI-KAAKKMVER 404
Query: 405 MIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
I W + ++ +L NR P+LHR+ I A ++ + +L+ VC +NADFDG
Sbjct: 405 EDAIVWDILAEVIREHPILLNRAPTLHRLGIQAFEPILIEGKAIQLHPLVCAAFNADFDG 464
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
D+M +HVP T EAQ EAR LM N+++SP G PII QD + G Y +TRE
Sbjct: 465 DQMAVHVPLTLEAQLEARALMMSTNNVLSPANGDPIIVPSQDVVLGLYYMTREKV---NG 521
Query: 525 EVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEA 584
+ E ML+ D E K +G+ + +T + +N+ + +
Sbjct: 522 KGEGMLL-----------QDPREAEKAYRTGEAELHSRVKVRITEYVKNEAGEFDAKTTL 570
Query: 585 LEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE 644
+ I ++ +A G Y L + + KKA + +++ R G++
Sbjct: 571 TDTTIGRAIL------WMIAPKGMPY----SLFNQTLGKKAISK----LINEAYRRLGLK 616
Query: 645 RARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRG 704
A F DQ+ G + GIDD ++P + EII AEE V ++ E ++ G
Sbjct: 617 EAVMFADQIMYTGFAYAARSGSSVGIDDMEIPAKKY----EIISAAEEEVAEIQEQFQSG 672
Query: 705 ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD---------------NHTVI 749
+ T E +K++ + A A + + L + N +
Sbjct: 673 LV------TAGERY-NKVIDIWAAANERVAKAMMENLSQEEVINREGNPEKQASFNSIFM 725
Query: 750 MAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNS-- 807
MA +GARG I Q+A + G L AR G ++ +
Sbjct: 726 MADSGARGSAAQIRQLAGMRG-------------------------LMARPDGSIIETPI 760
Query: 808 ---YKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL + D
Sbjct: 761 TANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVIVED 813
>pir||G83112 DNA-directed RNA polymerase beta* chain PA4269 [imported] -
Pseudomonas aeruginosa (strain PAO1)
>gi|9950487|gb|AAG07657.1|AE004842_6 (AE004842)
DNA-directed RNA polymerase beta* chain [Pseudomonas
aeruginosa]
Length = 1399
Score = 266 bits (673), Expect = 8e-70
Identities = 265/928 (28%), Positives = 420/928 (44%), Gaps = 133/928 (14%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGV 53
+I G+ SP+ IR S EV P+T + DG I G V D K +
Sbjct: 19 AIRIGLASPEMIRSWSFGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGKYKRL 78
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRI 106
G+ CE CG + GHIELA PV H+ F K+ I +L+ T R+ R+
Sbjct: 79 KHRGVICEKCGVEVALAKVRRERMGHIELASPVAHIWFLKSLPSRIGLLLDMTLRDIERV 138
Query: 107 KLTDEE--IEEYMKKLELAKNRRSEVN-KILKEIHKKARERMVCPHCGAPQYPIKFEKPT 163
+ I+ M LE + E + L+E RM GA
Sbjct: 139 LYFESYVVIDPGMTTLEKGQLLNDEQYFEALEEFGDDFDARM-----GAEAVHELLNAID 193
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
+ E+ + + + T +++K+ + + ++PEWMVLTVLPV P
Sbjct: 194 LEHEIGR------LREEIPQTNSETKIKKLSKRLKLMEAFQGSGNKPEWMVLTVLPVLPP 247
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
RP + L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V +
Sbjct: 248 DLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALL 307
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+ P + +++
Sbjct: 308 DNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPTLRLHQC 366
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRI-MESNRENL 402
G+P ++A+EL P F KL EGR + +++ ++ +
Sbjct: 367 GLPKKMALELFKP-----FIFGKL--------------------EGRGMATTIKAAKKMV 401
Query: 403 ARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADF 462
R + W V ++ VL NR P+LHR+ I A ++ + +L+ VC YNADF
Sbjct: 402 ERELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADF 461
Query: 463 DGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFT 522
DGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y +TRE
Sbjct: 462 DGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVMGLYYMTREAINAK 521
Query: 523 REEVEQMLMFAGVDIKELPEPDK-YENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPER 581
E G+ +L E D+ Y +G+ + + V K+ E +
Sbjct: 522 GE---------GMAFADLQEVDRAYRSGQASLHAR----------VKVRINEKIKGEDGQ 562
Query: 582 CEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREY 641
A +++ D R L + +++ ++ KKA + +++ R
Sbjct: 563 LTANTRIV------DTTVGRALLFQVVPAGLPFDVVNQSMKKKAISK----LINHCYRVV 612
Query: 642 GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEE-------ARDRIKEIIREAEERV 694
G++ F DQ+ T G + G++D +P+E A D +KEI E++
Sbjct: 613 GLKDTVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKARIINAATDEVKEI--ESQYAS 670
Query: 695 QKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEAR--DNAGSIAEKYLGMDNHTVIMAK 752
+ + K ++ L K +E + +MA L++ + D G ++ N +MA
Sbjct: 671 GLVTQGEKYNKVIDLWSKANDE-VSKAMMANLSKEKVVDREGKEVDQ--ESFNSMYMMAD 727
Query: 753 TGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGL 812
+GARG I Q+A + G + KP G+ + + +++ GL
Sbjct: 728 SGARGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANFREGL 767
Query: 813 SPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRY 872
+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V + ++
Sbjct: 768 NVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTEHGLLMSPHIE 827
Query: 873 GEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
G D V+P+ G+ V + RVI R + K
Sbjct: 828 GGDVVEPL----GERV-LGRVIARDVFK 850
>gb|AAC43086.1| (U00006) DNA-directed RNA polymerase, beta'-subunit [Escherichia
coli]
Length = 1407
Score = 265 bits (671), Expect = 1e-69
Identities = 251/899 (27%), Positives = 403/899 (43%), Gaps = 140/899 (15%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIELA P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEE--IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
R+ R+ + IE M LE R ++ + +E + A E ++
Sbjct: 131 PLRDIERVLYFESYVVIEGGMTNLE-----RQQI--LTEEQYLDALEEF------GDEFD 177
Query: 157 IKFEKPTIYWELRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
K I L+ +++ + + + T + +K+ + L ++PEWM
Sbjct: 178 AKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+LTVLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + +++ G+P ++A+EL P + + L +
Sbjct: 357 VGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTI---------------------- 394
Query: 394 IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLA 453
++ ++ + R + W + ++ VL NR P+LHR+ I A ++ + +L+
Sbjct: 395 --KAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL 452
Query: 454 VCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYL 513
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y
Sbjct: 453 VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYY 512
Query: 514 LTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRN 573
+TR+ + E M++ + + L Y +G + SL + +
Sbjct: 513 MTRD---CVNAKGEGMVLTGPKEAERL-----YRSG--------LASLXARVKVRITEYE 556
Query: 574 KLCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRE 629
K +A +L+ + + D R + + G Y +++ A+ KKA +
Sbjct: 557 K--------DANGELVAKTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK- 603
Query: 630 DGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
+L+ R G++ F DQ+ G + GIDD +PE+ EII E
Sbjct: 604 ---MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISE 656
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAE 738
AE V ++ E ++ G + G+ + ++ SK M + E N E
Sbjct: 657 AEAEVAEIQEQFQSGLV--TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEE 714
Query: 739 KYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
K + N +MA +GARG I Q+A + G + KP G+
Sbjct: 715 KQVSF-NSIYMMADSGARGSAAQIRQLAGMRGLMA------------------KPD--GS 753
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+ + +++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 754 IIEXPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 812
>sp|P00577|RPOC_ECOLI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|66981|pir||RNECC
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Escherichia coli >gi|581221|emb|CAA23626.1| (V00339)
rpoC [Escherichia coli] >gi|2367335|gb|AAC76962.1|
(AE000472) RNA polymerase, beta prime subunit
[Escherichia coli K12]
Length = 1407
Score = 265 bits (669), Expect = 2e-69
Identities = 250/899 (27%), Positives = 402/899 (43%), Gaps = 140/899 (15%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIELA P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEE--IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
R+ R+ + IE M LE R ++ + +E + A E ++
Sbjct: 131 PLRDIERVLYFESYVVIEGGMTNLE-----RQQI--LTEEQYLDALEEF------GDEFD 177
Query: 157 IKFEKPTIYWELRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
K I L+ +++ + + + T + +K+ + L ++PEWM
Sbjct: 178 AKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+LTVLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + +++ G+P ++A+EL P + + L +
Sbjct: 357 VGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTI---------------------- 394
Query: 394 IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLA 453
++ ++ + R + W + ++ VL NR P+LHR+ I A ++ + +L+
Sbjct: 395 --KAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL 452
Query: 454 VCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYL 513
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y
Sbjct: 453 VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYY 512
Query: 514 LTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRN 573
+TR+ + E M++ + + L Y +G ++ R
Sbjct: 513 MTRD---CVNAKGEGMVLTGPKEAERL-----YRSGL----------------ASLHARV 548
Query: 574 KLCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRE 629
K+ +A +L+ + + D R + + G Y +++ A+ KKA +
Sbjct: 549 KVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK- 603
Query: 630 DGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
+L+ R G++ F DQ+ G + GIDD +PE+ EII E
Sbjct: 604 ---MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISE 656
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAE 738
AE V ++ E ++ G + G+ + ++ SK M + E N E
Sbjct: 657 AEAEVAEIQEQFQSGLV--TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEE 714
Query: 739 KYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
K + N +MA +GARG I Q+A + G + KP G+
Sbjct: 715 KQVSF-NSIYMMADSGARGSAAQIRQLAGMRGLMA------------------KPD--GS 753
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+ + +++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 754 IIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 812
>prf||0808241A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 265 bits (669), Expect = 2e-69
Identities = 250/899 (27%), Positives = 402/899 (43%), Gaps = 140/899 (15%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIELA P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEE--IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
R+ R+ + IE M LE R ++ + +E + A E ++
Sbjct: 131 PLRDIERVLYFESYVVIEGGMTNLE-----RQQI--LTEEQYLDALEEF------GDEFD 177
Query: 157 IKFEKPTIYWELRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
K I L+ +++ + + + T + +K+ + L ++PEWM
Sbjct: 178 AKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+LTVLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + +++ G+P ++A+EL P + + L +
Sbjct: 357 VGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTI---------------------- 394
Query: 394 IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLA 453
++ ++ + R + W + ++ VL NR P+LHR+ I A ++ + +L+
Sbjct: 395 --KAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL 452
Query: 454 VCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYL 513
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y
Sbjct: 453 VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYY 512
Query: 514 LTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRN 573
+TR+ + E M++ + + L Y +G ++ R
Sbjct: 513 MTRD---CVNAKGEGMVLTGPKEAERL-----YRSGL----------------ASLHARV 548
Query: 574 KLCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRE 629
K+ +A +L+ + + D R + + G Y +++ A+ KKA +
Sbjct: 549 KVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK- 603
Query: 630 DGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
+L+ R G++ F DQ+ G + GIDD +PE+ EII E
Sbjct: 604 ---MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISE 656
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAE 738
AE V ++ E ++ G + G+ + ++ SK M + E N E
Sbjct: 657 AEAEVAEIQEQFQSGLV--TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEE 714
Query: 739 KYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
K + N +MA +GARG I Q+A + G + KP G+
Sbjct: 715 KQVSF-NSIYMMADSGARGSAAQIRQLAGMRGLMA------------------KPD--GS 753
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+ + +++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 754 IIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 812
>gb|AAF33515.1| (AF170176) 99% identity over 1407 amino acids with E. coli
DNA-directed RNA polymerase beta subunit (RPOC)
(SW:P00577); contains similarity to Pfam domain PF00623
(RNA_pol_A), Score=1064.7, E=0, N=1 [Salmonella
typhimurium LT2]
Length = 1407
Score = 262 bits (663), Expect = 1e-68
Identities = 253/920 (27%), Positives = 396/920 (42%), Gaps = 182/920 (19%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIELA P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEE--IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
R+ R+ + IE M LE R ++ + +E + A E ++
Sbjct: 131 PLRDIERVLYFESYVVIEGGMTNLE-----RQQI--LTEEQYLDALEEF------GDEFD 177
Query: 157 IKFEKPTIYWELRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
K I L+ +++ + + T + +K+ + L ++PEWM
Sbjct: 178 AKMGAEAIQALLKSMDLEQECETLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+LTVLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + +++ G+P ++A+EL P + + L +
Sbjct: 357 VGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTI---------------------- 394
Query: 394 IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLA 453
++ ++ + R + W + ++ VL NR P+LHR+ I A ++ + +L+
Sbjct: 395 --KAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL 452
Query: 454 VCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYL 513
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y
Sbjct: 453 VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYY 512
Query: 514 LTR-------EGAYFTREEVEQMLMFAGV-----DIK-ELPEPDKYENG--------KPL 552
+TR EG T + + + AG+ +K + E +K ENG K
Sbjct: 513 MTRDCVNAKGEGMVLTGPKEAERIYRAGLASLHARVKVRITEYEKDENGEFVAHTSLKDT 572
Query: 553 WSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQ 612
G+ I +++P L
Sbjct: 573 TVGRAILWMIVPKGLPF------------------------------------------- 589
Query: 613 NGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDD 672
+++ A+ KKA + +L+ R G++ F DQ G + GIDD
Sbjct: 590 --SIVNQALGKKAISK----MLNTCYRILGLKPTVIFADQTMYTGFAYAARSGASVGIDD 643
Query: 673 EDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDN 732
+PE+ EII EAE V ++ E ++ G + T E +K++ + A A D
Sbjct: 644 MVIPEKKH----EIISEAEAEVAEIQEQFQSGLV------TAGERY-NKVIDIWAAANDR 692
Query: 733 AGSI------AEKYLGMD---------NHTVIMAKTGARGKILNITQMAALLGQQSIRGK 777
E + D N +MA +GARG I Q+A + G +
Sbjct: 693 VSKAMMDNLQTETVINRDGQEEQQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMA---- 748
Query: 778 RLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQ 837
KP G+ + + +++ GL+ +YF G R+GL DTA++TA
Sbjct: 749 --------------KPD--GSIIETPITANFREGLNVLQYFISTHGARKGLADTALKTAN 792
Query: 838 SGYMQRRLINALQDLKVDYD 857
SGY+ RRL++ QDL V D
Sbjct: 793 SGYLTRRLVDVAQDLVVTED 812
>sp|P57145|RPOC_BUCAI DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|10038725|dbj|BAB12760.1| (AP001118) DNA-directed RNA
polymerase beta' chain [Buchnera sp. APS]
Length = 1407
Score = 262 bits (662), Expect = 1e-68
Identities = 241/889 (27%), Positives = 394/889 (44%), Gaps = 120/889 (13%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKNEDFDAIKISLASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIEL+ P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQSKVRRERMGHIELSSPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK 158
R+ R+ + + L K + + L + + E A Q+ +K
Sbjct: 131 PLRDIERVLYFESYVVIETGMTNLEKRQILTEEQYLDSLEEFGDEFHATMGAEAIQFLLK 190
Query: 159 FEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVL 218
++ ++ N + + T + +K+ + L ++PEWM+L VL
Sbjct: 191 --------DINLVQECNVLRIELNETNSETKRKKLTKRIKLLESFIQSHNKPEWMILNVL 242
Query: 219 PVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYH 278
PV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ
Sbjct: 243 PVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEA 302
Query: 279 VTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMI 338
V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+ P +
Sbjct: 303 VDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYL 361
Query: 339 SINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN 398
+++ G+P ++A+EL P + + L + ++
Sbjct: 362 HLHQCGLPKKMALELFKPFIYGKLEVRGLATTI------------------------KAA 397
Query: 399 RENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPY 458
++ + R I W + ++ VL NR P+LHR+ I A ++ + +L+ VC Y
Sbjct: 398 KKMVEREEAIVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAY 457
Query: 459 NADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREG 518
NADFDGD+M +HVP T E+Q EAR LM N+I+SP G PII QD + G Y +TRE
Sbjct: 458 NADFDGDQMAVHVPLTLESQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTREK 517
Query: 519 AYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDE 578
+ E ML+ E K G L+ + + +N E
Sbjct: 518 ---INGKGEGMLL-----------NGSNEAEKVYRLGIAELHSLVKVRIIEYKKN----E 559
Query: 579 PERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGRED-GIILDLI 637
+ A++K+I P + + +++ K L +I + G++D +L+
Sbjct: 560 DKSFTAIKKII-------PTTIGR----AILWMIIPKGLPFSIVNQTLGKKDISKMLNTC 608
Query: 638 VREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKL 697
R G++ F DQ+ G + GIDD +PE+ + II EAE V ++
Sbjct: 609 YRILGLKSTVFFADQIMYTGFAYAARSGASVGIDDMVIPEKKAN----IINEAEIEVAEI 664
Query: 698 IEAYKRG---------ELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTV 748
E ++ G ++ + E ++ + + E+ N +K + N
Sbjct: 665 QEQFQSGLVTAGERYNKVIDIWAAANERVAKAMMQNLSTESVINKKGYKQKQISF-NSIF 723
Query: 749 IMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSY 808
+MA +GARG I Q+A + G + KP G+ + + ++
Sbjct: 724 MMADSGARGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANF 763
Query: 809 KSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 764 REGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTQD 812
>sp|P94899|RPOC_LEUPS DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1838980|emb|CAA65079.1| (X95812) DNA-dependent RNA
polymerase [Leuconostoc pseudomesenteroides]
Length = 989
Score = 262 bits (662), Expect = 1e-68
Identities = 234/819 (28%), Positives = 376/819 (45%), Gaps = 98/819 (11%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEI 113
G+ C+ CG + GHIELA PV H+ + K I + + ++ +
Sbjct: 6 GIVCDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLV------LDMSPRSL 59
Query: 114 EE--YMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKD 171
EE Y + + + V K K++ + R + GA + I L
Sbjct: 60 EEIIYFASYVVIEPGDAPVEK--KQMVTEREYRQLKKEYGAG-FKAGMGAEAIKELLANV 116
Query: 172 E---QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPS 228
+ + +E K + + R+ + D+ L + ++PEWMV+ V+PV P RP
Sbjct: 117 DLAGERDELKRELQEATGQKRVRAVRRLDIVEAFLQSD-NKPEWMVMDVVPVIPPDLRPM 175
Query: 229 ITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETS 288
+ LE G A DL +I NNRLK+ ++ AP +I+++ +LQ V I+N
Sbjct: 176 VQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLNAPGIIVQNEKRMLQEAVDALIDNGRR 235
Query: 289 GVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQ 348
G P A RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +N++G+P+
Sbjct: 236 GRPVAG-PGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIDVGPFLKMNQMGLPVP 294
Query: 349 IAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDI 408
+A+EL P + E KL V + K A +G + ++E
Sbjct: 295 MAIELFRPFIMKELTTRKLAGNVKSAKRKIDKA------DGDVMDVLED----------- 337
Query: 409 GWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMN 468
++ H VL NR P+LHR+ I A ++ + RL+ V YNADFDGD+M
Sbjct: 338 --VIKEHP-----VLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQMA 390
Query: 469 LHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQ 528
+HVP ++EAQAEAR+LM HI++P+ G PI+ QD + G Y LT E A E E
Sbjct: 391 IHVPLSDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTTEEA---GREGEG 447
Query: 529 MLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKL 588
M+ F+GVD + K + G S T R+K+ ++ KL
Sbjct: 448 MI-FSGVDEARIAFARKVVHYHTR-VGIQTSSFPAEKPFTDEQRSKV-----MVTSVGKL 500
Query: 589 IEEKLMP-------DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAY--GREDGIILDLIV- 638
I +++P +P E D +I++G+ + + + + G + D+I
Sbjct: 501 IFNEILPTDFPFINEPSEDNFKGVDDRFFIESGEDIHDYLAETPIIGAFKKGFLSDIIAE 560
Query: 639 --REYGVERARQFLDQVTKLTIWVITHKGFTTGIDD-EDLPEEARDRIKEIIREAEERVQ 695
+ Y V LD++ L T G T + D DL E+ I+ +A +V
Sbjct: 561 VYKRYKVTETSLLLDRMKDLGYEKSTESGLTVAMTDVTDLKEK-----PAILEDAHNQVA 615
Query: 696 KLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGA 755
+ + ++RG + ++ ++ + +A+D + N +M +GA
Sbjct: 616 TVTKQFRRGLI-------TDDERYQRVTEIWTKAKDIIQDKLIESFEPTNPIFMMQDSGA 668
Query: 756 RGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQ 815
RG I N Q+A + G L G G+++ P V +++ GL+
Sbjct: 669 RGNISNFVQLAGMRG--------LMAGPGGKIIE--LP----------VTANFREGLTVM 708
Query: 816 EYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKV 854
E F G R+G+ DTA++TA SGY+ RRL++ QD+ V
Sbjct: 709 EMFISTHGARKGMSDTALKTANSGYLTRRLVDVAQDVIV 747
>prf||1008145A polymerase beta',RNA [Escherichia coli]
Length = 1407
Score = 261 bits (661), Expect = 2e-68
Identities = 251/899 (27%), Positives = 401/899 (43%), Gaps = 140/899 (15%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--- 48
Q+ + +I+ + SP IR S EV P+T + DG I G V D
Sbjct: 11 QTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHIELA P H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDM 130
Query: 99 TCRECGRIKLTDEE--IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
R+ R+ + IE M LE R ++ + +E + A E ++
Sbjct: 131 PLRDIERVLYFESYVVIEGGMTNLE-----RQQI--LTEEQYLDALEEF------GDEFD 177
Query: 157 IKFEKPTIYWELRK---DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWM 213
K I L+ +++ + + + T + +K+ + L ++PEWM
Sbjct: 178 AKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVESGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+LTVLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILTVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNGKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQEAVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + + + G+P ++A+EL P + + L +
Sbjct: 357 VGPYLRLKQCGLPKKMALELFKPFIYGKLELRGLATTI---------------------- 394
Query: 394 IMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLA 453
++ ++ + R + W + ++ VL NR P+LHR+ I A ++ + +L+
Sbjct: 395 --KAAKKMVEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL 452
Query: 454 VCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYL 513
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G PII QD + G Y
Sbjct: 453 VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYY 512
Query: 514 LTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRN 573
+TR+ + E M++ + + L Y +G ++ R
Sbjct: 513 MTRD---CVNAKGEGMVLTGPKEAERL-----YRSGL----------------ASLHARV 548
Query: 574 KLCDEPERCEALEKLIEEKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGRE 629
K+ +A +L+ + + D R + + G Y +++ A+ KKA +
Sbjct: 549 KVRITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK- 603
Query: 630 DGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIRE 689
+L+ R G++ F DQ+ G + GIDD +PE+ EII E
Sbjct: 604 ---MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISE 656
Query: 690 AEERVQKLIEAYKRGELEPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAE 738
AE V ++ E ++ G + G+ + ++ SK M + E N E
Sbjct: 657 AEAEVAEIQEQFQSGLV--TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEE 714
Query: 739 KYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGA 798
K + N +MA +GARG I Q+A + RG KP G+
Sbjct: 715 KQVSF-NSIYMMADSGARGSAAQIRQLAG-----------MRRGLA-------KPD--GS 753
Query: 799 RAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+ + +++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 754 IIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 812
>sp|Q9Z999|RPOC_CHLPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|7434729|pir||E72122
RNA polymerase beta' - Chlamydophila pneumoniae (strain
CWL029) >gi|4376340|gb|AAD18235.1| (AE001593) RNA
Polymerase Beta' [Chlamydophila pneumoniae CWL029]
Length = 1393
Score = 261 bits (661), Expect = 2e-68
Identities = 246/891 (27%), Positives = 393/891 (43%), Gaps = 139/891 (15%)
Query: 3 SVKKVIGSIEFGILSPQEIR-KMSAVEVTVPDTYDDDGY-PIEGGVMDKRM--------- 51
S + + +E GI S IR K S E+ P+T + + P +GG+ +++
Sbjct: 13 SKEGLFDKLEIGIASDITIRDKWSCGEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWEC 72
Query: 52 ------GVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
+ G+ C+ CG + HIELA P++H+ F KT I +L
Sbjct: 73 CCGKYKKIKHKGIVCDRCGVEVTLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGM 132
Query: 99 TCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK 158
T + R+ +E + K +L K K++ A+ R V G + K
Sbjct: 133 TASDLERVIYYEEYVVIDPGKTDLTK----------KQLLNDAQYREVVEKWGKDAFVAK 182
Query: 159 FEKPTIYWELRKDEQGN---EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
IY L+ ++ + + K R+ T+ + K+ + + G + PEWMVL
Sbjct: 183 MGGEAIYDLLKSEDLQSLLKDLKERLRKTKSQQARMKLAKRLKIIEGFVSSSNHPEWMVL 242
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
+PV P RP + L+ G A DL +I NNRLK + P++I+ + +L
Sbjct: 243 KNIPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLKTPEVIVRNEKRML 302
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q V +N G P RPLK+L++ LKGK GRFR NL GKRV++S R+VI
Sbjct: 303 QEAVDALFDNGRHG-HPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVG 361
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P + N+ G+P ++A+EL P F I++L+ G+ Y I
Sbjct: 362 PELKFNQCGLPKEMALELFEP-----FIIKRLKDQ---------GSVYTI---------- 397
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
S ++ + R W V ++ G VL NR P+LHR+ I A ++ + R++ VC
Sbjct: 398 RSAKKMIQRGAPEVWDVLEEIIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVC 457
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
+NADFDGD+M +HVP + EAQ EA++LM ++I P G P+ +D G Y L
Sbjct: 458 AAFNADFDGDQMAVHVPLSVEAQLEAKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYLM 517
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ YF E + +F D+ E + L +G I DD+ R
Sbjct: 518 ADPTYFPEEHGGKTKIF----------KDEIEVLRALNNGGFI------DDVFGDRR--- 558
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAYDG-FVYIQNGKLLSGAIDKKA-----YGRE 629
DE R + + I K+ DG + G++L I K Y
Sbjct: 559 -DETGRGIHIHEKI------------KVRIDGQIIETTPGRVLFNRIVPKELGFQNYSMP 605
Query: 630 DGIILDLIVREY---GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
I +LI++ Y G+E +FLD + L T + G+ D +P D I
Sbjct: 606 SKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIP----DIKSHI 661
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAG-----SIAEKYL 741
+++A ++V + + Y G + E SK +++ E + I+++
Sbjct: 662 LKDAYDKVAIVKKQYDDGII-------TEGERHSKTISIWTEVSEQLSDALYVEISKQTR 714
Query: 742 GMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAK 801
N +M +GARG + Q+ AL G + KP GA +
Sbjct: 715 SKHNPLFLMIDSGARGNKSQLKQLGALRGLMA------------------KPN--GAIIE 754
Query: 802 GFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ ++++ GL+ EY + G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 755 SPITSNFREGLTVLEYSISSHGARKGLADTALKTADSGYLTRRLVDVAQDV 805
>pir||E81548 DNA-directed RNA polymerase, beta' chain CP0693 [imported] -
Chlamydophila pneumoniae (strain AR39)
>gi|7189607|gb|AAF38501.1| (AE002228) DNA-directed RNA
polymerase, beta` subunit [Chlamydophila pneumoniae
AR39]
Length = 1397
Score = 261 bits (661), Expect = 2e-68
Identities = 246/891 (27%), Positives = 393/891 (43%), Gaps = 139/891 (15%)
Query: 3 SVKKVIGSIEFGILSPQEIR-KMSAVEVTVPDTYDDDGY-PIEGGVMDKRM--------- 51
S + + +E GI S IR K S E+ P+T + + P +GG+ +++
Sbjct: 17 SKEGLFDKLEIGIASDITIRDKWSCGEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWEC 76
Query: 52 ------GVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
+ G+ C+ CG + HIELA P++H+ F KT I +L
Sbjct: 77 CCGKYKKIKHKGIVCDRCGVEVTLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGM 136
Query: 99 TCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK 158
T + R+ +E + K +L K K++ A+ R V G + K
Sbjct: 137 TASDLERVIYYEEYVVIDPGKTDLTK----------KQLLNDAQYREVVEKWGKDAFVAK 186
Query: 159 FEKPTIYWELRKDEQGN---EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
IY L+ ++ + + K R+ T+ + K+ + + G + PEWMVL
Sbjct: 187 MGGEAIYDLLKSEDLQSLLKDLKERLRKTKSQQARMKLAKRLKIIEGFVSSSNHPEWMVL 246
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
+PV P RP + L+ G A DL +I NNRLK + P++I+ + +L
Sbjct: 247 KNIPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLKTPEVIVRNEKRML 306
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q V +N G P RPLK+L++ LKGK GRFR NL GKRV++S R+VI
Sbjct: 307 QEAVDALFDNGRHG-HPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVG 365
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P + N+ G+P ++A+EL P F I++L+ G+ Y I
Sbjct: 366 PELKFNQCGLPKEMALELFEP-----FIIKRLKDQ---------GSVYTI---------- 401
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
S ++ + R W V ++ G VL NR P+LHR+ I A ++ + R++ VC
Sbjct: 402 RSAKKMIQRGAPEVWDVLEEIIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVC 461
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
+NADFDGD+M +HVP + EAQ EA++LM ++I P G P+ +D G Y L
Sbjct: 462 AAFNADFDGDQMAVHVPLSVEAQLEAKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYLM 521
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ YF E + +F D+ E + L +G I DD+ R
Sbjct: 522 ADPTYFPEEHGGKTKIF----------KDEIEVLRALNNGGFI------DDVFGDRR--- 562
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAYDG-FVYIQNGKLLSGAIDKKA-----YGRE 629
DE R + + I K+ DG + G++L I K Y
Sbjct: 563 -DETGRGIHIHEKI------------KVRIDGQIIETTPGRVLFNRIVPKELGFQNYSMP 609
Query: 630 DGIILDLIVREY---GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
I +LI++ Y G+E +FLD + L T + G+ D +P D I
Sbjct: 610 SKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIP----DIKSHI 665
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAG-----SIAEKYL 741
+++A ++V + + Y G + E SK +++ E + I+++
Sbjct: 666 LKDAYDKVAIVKKQYDDGII-------TEGERHSKTISIWTEVSEQLSDALYVEISKQTR 718
Query: 742 GMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAK 801
N +M +GARG + Q+ AL G + KP GA +
Sbjct: 719 SKHNPLFLMIDSGARGNKSQLKQLGALRGLMA------------------KPN--GAIIE 758
Query: 802 GFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ ++++ GL+ EY + G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 759 SPITSNFREGLTVLEYSISSHGARKGLADTALKTADSGYLTRRLVDVAQDV 809
>dbj|BAA98292.1| (AP002545) RNA polymerase beta' [Chlamydophila pneumoniae J138]
Length = 1393
Score = 261 bits (661), Expect = 2e-68
Identities = 246/891 (27%), Positives = 393/891 (43%), Gaps = 139/891 (15%)
Query: 3 SVKKVIGSIEFGILSPQEIR-KMSAVEVTVPDTYDDDGY-PIEGGVMDKRM--------- 51
S + + +E GI S IR K S E+ P+T + + P +GG+ +++
Sbjct: 13 SKEGLFDKLEIGIASDITIRDKWSCGEIKKPETINYRTFKPEKGGLFCEKIFGPTKDWEC 72
Query: 52 ------GVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
+ G+ C+ CG + HIELA P++H+ F KT I +L
Sbjct: 73 CCGKYKKIKHKGIVCDRCGVEVTLSKVRRERMAHIELAVPIVHIWFFKTTPSRIGNVLGM 132
Query: 99 TCRECGRIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK 158
T + R+ +E + K +L K K++ A+ R V G + K
Sbjct: 133 TASDLERVIYYEEYVVIDPGKTDLTK----------KQLLNDAQYREVVEKWGKDAFVAK 182
Query: 159 FEKPTIYWELRKDEQGN---EYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVL 215
IY L+ ++ + + K R+ T+ + K+ + + G + PEWMVL
Sbjct: 183 MGGEAIYDLLKSEDLQSLLKDLKERLRKTKSQQARMKLAKRLKIIEGFVSSSNHPEWMVL 242
Query: 216 TVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLL 275
+PV P RP + L+ G A DL +I NNRLK + P++I+ + +L
Sbjct: 243 KNIPVVPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKAILRLKTPEVIVRNEKRML 302
Query: 276 QYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPD 335
Q V +N G P RPLK+L++ LKGK GRFR NL GKRV++S R+VI
Sbjct: 303 QEAVDALFDNGRHG-HPVMGAGNRPLKSLSEMLKGKNGRFRQNLLGKRVDYSGRSVIIVG 361
Query: 336 PMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIM 395
P + N+ G+P ++A+EL P F I++L+ G+ Y I
Sbjct: 362 PELKFNQCGLPKEMALELFEP-----FIIKRLKDQ---------GSVYTI---------- 397
Query: 396 ESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVC 455
S ++ + R W V ++ G VL NR P+LHR+ I A ++ + R++ VC
Sbjct: 398 RSAKKMIQRGAPEVWDVLEEIIKGHPVLLNRAPTLHRLGIQAFEPVLIEGKAIRIHPLVC 457
Query: 456 PPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLT 515
+NADFDGD+M +HVP + EAQ EA++LM ++I P G P+ +D G Y L
Sbjct: 458 AAFNADFDGDQMAVHVPLSVEAQLEAKVLMMAPDNIFLPSSGKPVAIPSKDMTLGLYYLM 517
Query: 516 REGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKL 575
+ YF E + +F D+ E + L +G I DD+ R
Sbjct: 518 ADPTYFPEEHGGKTKIF----------KDEIEVLRALNNGGFI------DDVFGDRR--- 558
Query: 576 CDEPERCEALEKLIEEKLMPDPEEVRKLAYDG-FVYIQNGKLLSGAIDKKA-----YGRE 629
DE R + + I K+ DG + G++L I K Y
Sbjct: 559 -DETGRGIHIHEKI------------KVRIDGQIIETTPGRVLFNRIVPKELGFQNYSMP 605
Query: 630 DGIILDLIVREY---GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEI 686
I +LI++ Y G+E +FLD + L T + G+ D +P D I
Sbjct: 606 SKRISELILQCYKKVGLEATVRFLDDLKDLGFIQATKAAISMGLKDVRIP----DIKSHI 661
Query: 687 IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAG-----SIAEKYL 741
+++A ++V + + Y G + E SK +++ E + I+++
Sbjct: 662 LKDAYDKVAIVKKQYDDGII-------TEGERHSKTISIWTEVSEQLSDALYVEISKQTR 714
Query: 742 GMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAK 801
N +M +GARG + Q+ AL G + KP GA +
Sbjct: 715 SKHNPLFLMIDSGARGNKSQLKQLGALRGLMA------------------KPN--GAIIE 754
Query: 802 GFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+ ++++ GL+ EY + G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 755 SPITSNFREGLTVLEYSISSHGARKGLADTALKTADSGYLTRRLVDVAQDV 805
>dbj|BAA99393.1| (AB045725) RNA polymease beta' subunit [Shewanella violacea]
Length = 1409
Score = 261 bits (660), Expect = 3e-68
Identities = 255/930 (27%), Positives = 411/930 (43%), Gaps = 154/930 (16%)
Query: 2 QSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIE----------GGVMD--- 48
QS + I+ G+ SP IR S EV P+T + + E G V D
Sbjct: 11 QSKTEEFNGIKIGLASPDLIRSWSFGEVKKPETINYRTFKPEREGLFCARIFGPVKDYEC 70
Query: 49 ---KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILES 98
K + G+ CE CG + + GHI+LA PV H+ F K+ I +L+
Sbjct: 71 LCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIDLASPVAHIWFLKSLPSRIGLMLDM 130
Query: 99 TCRECGRIKLTDE--EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYP 156
T R+ R+ + IE M LE + + +E + A E ++
Sbjct: 131 TLRDIERVLYFESFVVIEPGMTSLERGQ-------MLTEESYLDALEEY------GDEFE 177
Query: 157 IKFEKPTIYWELRKDEQGNEYK--HRMMPTEIRDRLEKIPDKDLPLL-GLHPEKSRPEWM 213
K + LR E E + +P+ + K K L L+ ++PEWM
Sbjct: 178 AKMGAEAVLELLRAIELEKEIESLREELPSINSETRRKKMTKRLKLIEAFFHSGNKPEWM 237
Query: 214 VLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWD 273
+L VLPV P RP + L+ G A DL +I NNRLK+ ++ AP +I+ +
Sbjct: 238 ILKVLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKR 297
Query: 274 LLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVIS 333
+LQ V ++N G + RPLK+LA +KGK+GRFR NL GKRV++S R+VI+
Sbjct: 298 MLQESVDALLDNGRRG-RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVIT 356
Query: 334 PDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIR 393
P + +++ G+P ++A+EL P F KL EGR +
Sbjct: 357 VGPTLRLHQCGLPKKMALELFKP-----FIYGKL--------------------EGRGLA 391
Query: 394 I-MESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL 452
+++ ++ + R + W V ++ V+ NR P+LHR+ I A ++ + +L+
Sbjct: 392 TTIKAAKKMVEREVPEVWDVLDDVIREHPVMLNRAPTLHRLGIQAFEPVLIEGKAIQLHP 451
Query: 453 AVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGY 512
VC YNADFDGD+M +HVP T EAQ EAR LM N+I+SP G P+I QD + G Y
Sbjct: 452 LVCAAYNADFDGDQMAVHVPLTLEAQLEARSLMMSTNNILSPANGEPVITPSQDVVLGLY 511
Query: 513 LLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYR 572
+R+ E G+ + + E +K + +T F+ +
Sbjct: 512 YASRKCVNGKGE---------GMVFESIDEVEK--------AYRTGFAAIHAQVKVRITE 554
Query: 573 NKLCDEPERCEA-------LEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKA 625
+ + ER EA + + + +++P + L++D L++ + KK
Sbjct: 555 THIAENGERTEARRIVDTTVGRSLLSRVLP-----KGLSFD---------LVNQNMGKKQ 600
Query: 626 YGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKE 685
G+ +L+ R+ G++ F DQ+ T G + GIDD +P
Sbjct: 601 IGK----LLNTCYRQLGLKDTVVFADQLMYAGFHYATVSGASVGIDDMVIPAAK----YT 652
Query: 686 IIREAEERVQKLIEAYKRG------------ELEPLPGKTLEETLESKIMAVLAEARDNA 733
++ +AE V ++ E ++ G ++ + + + + + RD
Sbjct: 653 LVADAEAEVLEIQEQFQSGLVTAGERYNKVIDIWASANEKISKAMMDNLSVETVINRDGE 712
Query: 734 GSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKP 793
E + N +MA +GARG I Q+A + G + KP
Sbjct: 713 EEEQESF----NSIYMMADSGARGSAAQIRQLAGMRGLMA------------------KP 750
Query: 794 GDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLK 853
G+ + +V +++ GL+ +YF G R+GL DTA++TA SGY+ RRL++ QDL
Sbjct: 751 D--GSIIETPIVANFREGLNVSQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLV 808
Query: 854 VDYD--GTVRDPTGVIVQFRYGEDGVDPMK 881
V D GT T + G D V+P++
Sbjct: 809 VIEDDCGTFEGLT--MKPLIEGGDVVEPLR 836
>sp|P94892|RPOC_LEUME DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT)
>gi|1838978|emb|CAA65077.1| (X95810) DNA-dependent RNA
polymerase [Leuconostoc mesenteroides]
Length = 989
Score = 257 bits (649), Expect = 5e-67
Identities = 233/822 (28%), Positives = 369/822 (44%), Gaps = 104/822 (12%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI--- 106
G+ C+ CG + GHIELA PV H+ + K I +L+ + R I
Sbjct: 6 GIVCDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSLEEIIYF 65
Query: 107 --KLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI 164
+ E + ++K ++ R E ++ KE + M + + T
Sbjct: 66 ASYVVIEPGDAPVEKKQMMTER--EYRQLKKEYGAGFKAGMGAE--AIKELLANVDLATE 121
Query: 165 YWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVT 224
EL+++ Q + R+ D +E D ++PEWMV+ V+PV P
Sbjct: 122 ADELKRELQEATGQKRVRAVRRLDIIEAFLQSD----------NKPEWMVMEVIPVIPPD 171
Query: 225 ARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYIN 284
RP + LE G A DL +I NNRLK+ ++ AP +I+++ +LQ V I+
Sbjct: 172 LRPMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLNAPGIIVQNEKRMLQEAVDALID 231
Query: 285 NETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVG 344
N G P A RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +N++G
Sbjct: 232 NGRRGRPVAG-PGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIDVGPFLKMNQMG 290
Query: 345 VPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLAR 404
+P+ +A+EL P + E KL V + K A +G + ++E
Sbjct: 291 LPVPMAIELFRPFIMKELTTRKLAGNVKSAKRKIDKA------DGDVMDVLED------- 337
Query: 405 MIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDG 464
++ H VL NR P+LHR+ I A ++ + RL+ V YNADFDG
Sbjct: 338 ------VIKEHP-----VLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDG 386
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
D+M +HVP ++EAQAEAR+LM HI++P+ G PI+ QD + G Y LT E A
Sbjct: 387 DQMAIHVPLSDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTTEEA---GR 443
Query: 525 EVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEA 584
E E M+ F+ VD + K + G S T R+K+ +
Sbjct: 444 EGEGMI-FSSVDEARIAFASKVVHYHTR-VGIQTSSFPSEKPFTDEQRSKI-----MITS 496
Query: 585 LEKLIEEKLMP-------DPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGR--EDGIILD 635
+ KL +++P +P E D +I G+ + + + + G + D
Sbjct: 497 VGKLFFNEILPSDFPYINEPSEDNFKRVDDSFFIDAGENIHDYLADTSIVNPFKKGFLSD 556
Query: 636 LIV---REYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEE 692
+I + Y V LD++ L T G T + D EE I+ +A
Sbjct: 557 IIAEVYKRYKVTETSLLLDRMKDLGYDKSTESGLTVSMTDVLELEEK----PAILEDAHS 612
Query: 693 RVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAK 752
+V + + ++RG + + ++ + +A+D + N +M
Sbjct: 613 QVATVTKQFRRGLI-------TDSERYQRVTEIWTKAKDIIQDKLIESFEPTNPIFMMQD 665
Query: 753 TGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGL 812
+GARG I N Q+A + G L G G+++ P V +++ GL
Sbjct: 666 SGARGNISNFVQLAGMRG--------LMAGPGGKIIE--LP----------VTANFREGL 705
Query: 813 SPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKV 854
+ E F G R+G+ DTA++TA SGY+ RRL++ QD+ V
Sbjct: 706 TVMEMFISTHGARKGMSDTALKTANSGYLTRRLVDVAQDVIV 747
>pir||D82533 RNA polymerase beta' subunit XF2632 [imported] - Xylella fastidiosa
(strain 9a5c) >gi|9107861|gb|AAF85429.1|AE004070_1
(AE004070) RNA polymerase beta' subunit [Xylella
fastidiosa]
Length = 1430
Score = 256 bits (646), Expect = 1e-66
Identities = 263/917 (28%), Positives = 413/917 (44%), Gaps = 144/917 (15%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD--------KRM 51
+I+ G+ SP IR S EV P+T + DG I G + D KRM
Sbjct: 42 AIKIGLASPALIRSWSFGEVKKPETINYRTFKPERDGLFCAAIFGPIKDYECLCGKYKRM 101
Query: 52 GVIDPGLRCETCGAK---AGECPGHFGHIELARPVIHVGFAKT----IHRILESTCRECG 104
G+ CE CG + A G IELA PV H+ F K+ I +L+ T R+
Sbjct: 102 K--HRGVVCEKCGTEVTLAKVRRERMGSIELASPVAHIWFLKSLPSRIGLMLDMTLRDIE 159
Query: 105 RIKLTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTI 164
R+ + + + + L R ++ + +E + +AR+ A + +
Sbjct: 160 RVLYFEAYV---VTEPGLTPLERRQL--LTEEQYLQARQEH------ADDFDATMGAEAV 208
Query: 165 YWELRKDEQGNEY---KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVP 221
Y LR + +E + ++ T +L+++ + + +RPEWM+LTVLPV
Sbjct: 209 YELLRMIDLQSEMARLREEIVVTGSETKLKRLTKRIKLIEAFIESGNRPEWMILTVLPVL 268
Query: 222 PVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTT 281
P RP + L+ G A DL +I NNRL + +E AP +I+ + +LQ V
Sbjct: 269 PPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLCRLLELSAPDIIVRNEKRMLQESVDA 328
Query: 282 YINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISIN 341
++N G + RPLK+LA +KGK+GRFR NL GKRV++SAR+VI P + ++
Sbjct: 329 LLDNGRRG-RAITGTNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSARSVIIVGPNLRLH 387
Query: 342 EVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNREN 401
+ G+P ++A+EL P F KL++ L K A +++ E +
Sbjct: 388 QCGLPKKMALELFKP-----FVFAKLQRRGLATTIK--AAKKLVEREEAEV--------- 431
Query: 402 LARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNAD 461
W + ++ V+ NR P+LHR I A ++ + +L+ VC +NAD
Sbjct: 432 --------WDILEEVISEHPVVLNRAPTLHRQGIQAFEPVLIEGKAIQLHPLVCTAFNAD 483
Query: 462 FDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYF 521
FDGD+M +HVP + EAQ EAR LM N+I+SP G PII QD + G Y ++R
Sbjct: 484 FDGDQMAVHVPLSLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMSRA---L 540
Query: 522 TREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPER 581
++ E M+ ++K + E + K + + DD + + L +
Sbjct: 541 ENKKGEGMVFANTSELKRAYDNSVVELHAKV---KVRITEIETDDRGLRSKASLIVDTTV 597
Query: 582 CEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREY 641
AL + ++ +G ++ L++ + KK R +++ R
Sbjct: 598 GRAL--------------LSEILPEGLPFV----LVNTEMTKKNISR----LINSSYRML 635
Query: 642 GVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAY 701
G++ F D++ T G + IDD +P E KEI+ EAE+ V ++ E Y
Sbjct: 636 GLKDTVVFADKLMYTGYAYATRAGVSICIDDMLIPIEK----KEILGEAEQEVLEIQEQY 691
Query: 702 KRGELEPLPGKTLEETLESKIMAVLAEA-RDNAGSIAEKYLGMD---------NHTVIMA 751
+ G + + S+ +A+A D G+ EK + D N IMA
Sbjct: 692 QSGLVTAGERYNKVVDIWSRTNERIAKAMMDTIGT--EKVVNTDGEIVDQKSMNSLYIMA 749
Query: 752 KTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN----- 806
+GARG I Q+AA+ G L R G ++
Sbjct: 750 DSGARGSPQQIRQLAAMRG-------------------------LMVRPDGSIIETPIKA 784
Query: 807 SYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL-KVDYD-GTVRDPT 864
+++ GLS QEYF G R+GL DTA++TA SGY+ RRL++ QDL V D GT T
Sbjct: 785 NFREGLSVQEYFNSTHGARKGLADTALKTANSGYLTRRLVDVTQDLCVVQLDCGTAGGLT 844
Query: 865 GVIVQFRYGEDGVDPMK 881
+ G D V+P+K
Sbjct: 845 --MTPIVEGGDVVEPLK 859
>emb|CAA65078.1| (X95811) DNA-dependent RNA polymerase [Leuconostoc carnosum]
Length = 772
Score = 254 bits (641), Expect = 4e-66
Identities = 233/834 (27%), Positives = 373/834 (43%), Gaps = 128/834 (15%)
Query: 57 GLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRIKLT 109
G+ C+ CG + GHIELA PV H+ + K I +L+ + R
Sbjct: 6 GIVCDRCGVEVTSSKVRRERMGHIELAAPVTHIWYFKGIPSRMGLVLDMSPRSL------ 59
Query: 110 DEEIEEYMKKLELAKNRRSEVNKIL---KEIHKKARERMVCPHCGAPQYPIKFEKPTIYW 166
EEI + + + K L +E + RE G IK +
Sbjct: 60 -EEIIYFASYVVIEPGDAPVEKKQLLTEREYRELKREFGASFKAGMGAEAIK----DLLA 114
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTAR 226
+ + ++ K + + R+ + D+ L + ++P+WMV+ V+PV P R
Sbjct: 115 NVDLAGEADQLKRELQEATGQKRVRAVRRFDIIEAFLQSD-NKPQWMVMDVVPVIPPDLR 173
Query: 227 PSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNE 286
P + LE G A DL +I NNRLK+ ++ AP +I+++ +LQ V I+N
Sbjct: 174 PMVQLEGGRFATSDLNDLYRRVINRNNRLKRLLDLNAPGIIVQNEKRMLQEAVDALIDNG 233
Query: 287 TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVP 346
G P A RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +N++G+P
Sbjct: 234 RRGRPVAG-PGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIDVGPFLKMNQMGLP 292
Query: 347 IQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMI 406
+A+EL P + E L V + K A+ + + ++E
Sbjct: 293 RPMAIELFRPFIMKELTTRSLAGNVKSAKRKIDKADEDV------MDVLED--------- 337
Query: 407 DIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDE 466
++ H VL NR P+LHR+ I A ++ + RL+ V YNADFDGD+
Sbjct: 338 ----VIKEHP-----VLLNRAPTLHRLGIQAFEPVLVSGKAMRLHPLVTEAYNADFDGDQ 388
Query: 467 MNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTR-------EGA 519
M +HVP ++EAQAEAR+LM HI++P+ G PI+ QD + G Y LT EG
Sbjct: 389 MAIHVPLSDEAQAEARLLMLAAGHILAPKDGKPIVAPSQDMVIGNYYLTTEEVGREGEGM 448
Query: 520 YFTREEVEQMLMFAGVDI----KELPEPDKYENGKPLWS-----------GKTIFSLLLP 564
F+ E E + FA + + + + + KP S GK IF+ +LP
Sbjct: 449 IFSSVE-EAKIAFASKVVHYHTRVGIQTSAFPSAKPFTSEQREKILVTSVGKLIFNEILP 507
Query: 565 DDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKK 624
D +EP E + + ++ M E++ + D + GA K
Sbjct: 508 VDF------PYINEPSE-ENFKGIDDQFFMAPGEDINEFLSDAPII--------GAFKK- 551
Query: 625 AYGREDGIILDLIV---REYGVERARQFLDQVTKLTIWVITHKGFTTGIDD-EDLPEEAR 680
G + D+I + Y V LD++ L T G T ++D +L E+
Sbjct: 552 ------GFLSDVIAEVYKRYKVTETSLLLDRMKDLGYDKSTESGLTVSMNDVTELTEK-- 603
Query: 681 DRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKY 740
I+ +A ++V + + ++RG + + ++ + +A+D +
Sbjct: 604 ---PAILEDAHKQVATVTKQFRRGLI-------TDTERYQRVTEIWTKAKDIIQDKLIES 653
Query: 741 LGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
N +M +GARG I N Q+A + G L G G+++ P
Sbjct: 654 FEPTNPIFMMQDSGARGNISNFVQLAGMRG--------LMAGPGGKIIE--LP------- 696
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKV 854
V +++ GL+ E F G R+G+ DTA++TA SGY+ RRL++ QD+ V
Sbjct: 697 ---VTANFREGLTVMEMFISTHGARKGMSDTALKTANSGYLTRRLVDVAQDVIV 747
>sp|O67763|RPOC_AQUAE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|7434733|pir||G70466
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Aquifex aeolicus >gi|2984193|gb|AAC07724.1| (AE000764)
RNA polymerase beta prime subunit [Aquifex aeolicus]
Length = 1574
Score = 253 bits (639), Expect = 7e-66
Identities = 222/719 (30%), Positives = 335/719 (45%), Gaps = 139/719 (19%)
Query: 202 GLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEA 261
G +RPEWM+L VLPV P RP + L+ G A DL +I NNRLK+ IE
Sbjct: 357 GFKKSGNRPEWMILEVLPVLPPELRPLVALDGGRFATSDLNDFYRRVINRNNRLKRLIEL 416
Query: 262 GAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSG 321
AP +II + +LQ V I+N G P ++ GRPLK+LA LKGK+GRFR NL G
Sbjct: 417 NAPDIIIRNEKRMLQEAVDALIDNGKRGNPVKQN--GRPLKSLADYLKGKQGRFRQNLLG 474
Query: 322 KRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGA 381
KRV++S R+VI P + +++ G+P +A+EL P F +L +
Sbjct: 475 KRVDYSGRSVIVVGPELQMHQCGLPKIMALELFKP-----FVYRRLEE------------ 517
Query: 382 NYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVR 441
+G I + R + ++ W ++ VL NR P+LHR SI A
Sbjct: 518 ------KGYATSIKHAKRLVEQKTPEV-WECLEEVVKEHPVLLNRAPTLHRPSIQAFEPV 570
Query: 442 VMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPII 501
++ + +L+ VCPP+NADFDGD+M +HVP EAQ E+ ILM +++SP +G P+
Sbjct: 571 LVEGKAIQLHPLVCPPFNADFDGDQMAVHVPLGIEAQLESYILMLSTQNVLSPAHGKPLT 630
Query: 502 GGIQDHISGGYLLT------REG---AYFTREEVEQMLMFAGVDIKELPEPDKYENGKPL 552
QD + G Y +T R+G A+ T EEV + L VDI +
Sbjct: 631 MPSQDMVLGTYYITHDPIPGRKGEGKAFGTFEEVLKALELGHVDIHAKIKVKVGNEWIET 690
Query: 553 WSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQ 612
G+ +F+ ++P+ + NK D+ + L KLI E +YI+
Sbjct: 691 TPGRVLFNSIMPEGQP--FVNKTLDK----KGLSKLITE-----------------LYIR 727
Query: 613 NGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDD 672
G E +FLD+V +L T G + G++D
Sbjct: 728 VGN----------------------------EETVKFLDRVKELGFLRSTLAGISIGVED 759
Query: 673 EDLPEEARDRIKEIIREAEE----RVQKLI---EAYKR-----GELEPLPGKTLEETLES 720
+P+ + I+E +++ EE VQ +I E Y R E L K + E +E
Sbjct: 760 LQVPKAKKKIIEEALKKTEEIWNQYVQGIITNKERYNRIIDVWSEATNLVSKAMFEEIEK 819
Query: 721 KIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLY 780
++ +N ++Y G N +MA +GARG I Q+A
Sbjct: 820 ------SKRIEN----GKEYPGTFNPIYMMAISGARGNRDQIRQLA-------------- 855
Query: 781 RGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGY 840
G RG + H G + ++++++ GLS EYF G R+GL DTA++TA +GY
Sbjct: 856 -GMRGLMAKH-----SGEFIETPIISNFREGLSVLEYFISTYGARKGLADTALKTAFAGY 909
Query: 841 MQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSWGGKTVDV-DRVIMRTL 898
+ RRL++ QD+ + T RD G + F ++P+ G + V + DR+ R L
Sbjct: 910 LTRRLVDVAQDITI----TERD-CGTVKGFE-----MEPIVEAGEERVPLKDRIFGRVL 958
>pir||F81233 DNA-directed RNA polymerase, beta' chain NMB0133 [imported] -
Neisseria meningitidis (group B strain MD58)
>gi|7225351|gb|AAF40592.1| (AE002372) DNA-directed RNA
polymerase, beta' subunit [Neisseria meningitidis MC58]
Length = 1391
Score = 249 bits (630), Expect = 8e-65
Identities = 250/915 (27%), Positives = 397/915 (43%), Gaps = 188/915 (20%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGV 53
+I+ GI SP+ IR S EV P+T + DG I G V D K +
Sbjct: 21 AIKIGIASPETIRSWSYGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGKYKRL 80
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI 106
G+ CE CG + GHIELA PV H+ F K++ +L+ T R+ R+
Sbjct: 81 KFKGVTCEKCGVEVTLSKVRRERMGHIELAAPVAHIWFLKSLPSRLGMVLDMTLRDIERV 140
Query: 107 K------LTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFE 160
+TD + ++ L ++ + + K E + K
Sbjct: 141 LYFEAFVVTDPGMTPLQRRQLLTED----------DYYNKLDEY-------GDDFDAKMG 183
Query: 161 KPTIYWELRKDEQGNEY---KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTV 217
I LR E + + T +++KI + L H + EWM++ V
Sbjct: 184 AEGIRELLRTLNVAGEIEILRQELESTGSDTKIKKIAKRLKVLEAFHRSGMKLEWMIMDV 243
Query: 218 LPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQY 277
LPV P RP + L+ G A DL +I NNRLK+ +E AP +I+ + +LQ
Sbjct: 244 LPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLELHAPDIIVRNEKRMLQE 303
Query: 278 HVTTYINNETSGVPPAKHKSG---RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISP 334
V + ++N G K +G RPLK+LA +KGK GRFR NL GKRV++S R+VI+
Sbjct: 304 AVDSLLDNGRRG----KAMTGANKRPLKSLADMIKGKGGRFRQNLLGKRVDYSGRSVITV 359
Query: 335 DPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRI 394
P + +++ G+P ++A+EL P F KL K L K A +++ E +
Sbjct: 360 GPYLRLHQCGLPKKMALELFKP-----FIFHKLEKQGLASTVK--AAKKLVEQEVPEV-- 410
Query: 395 MESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAV 454
W + ++ ++ NR P+LHR+ I A ++ + +L+ V
Sbjct: 411 ---------------WDILEEVIREHPIMLNRAPTLHRLGIQAFEPILIEGKAIQLHPLV 455
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
C +NADFDGD+M +HVP + EAQ EAR LM N+++SP G PII QD + G Y +
Sbjct: 456 CAAFNADFDGDQMAVHVPLSLEAQMEARTLMLASNNVLSPANGEPIIVPSQDIVLGLYYM 515
Query: 515 TR-------EGAYFTR-EEVEQMLMFAGVDI-------------KELPEPDKYENGKPLW 553
TR EG+ F +EV + V++ E E + N
Sbjct: 516 TRDRINAKGEGSLFADVKEVHRAYHTKQVELGTKITVRLREWVKNEAGEFEPVVNRYETT 575
Query: 554 SGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQN 613
G+ + S +LP L Y NK AL+K +E+ KL F
Sbjct: 576 VGRALLSEILPKGLPFEYVNK---------ALKK----------KEISKLINASF----- 611
Query: 614 GKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDE 673
+ G D +I F D + G + +DD
Sbjct: 612 ----------RLCGLRDTVI---------------FADHLMYTGFGFAAKGGISIAVDDM 646
Query: 674 DLPEEARDRIKEIIREAEERVQKLIEAYKRG---------ELEPLPGKTLEETLESKIMA 724
++P+E ++ EA V+++ + Y++G ++ + G+ + + +M
Sbjct: 647 EIPKEK----AALLAEANAEVKEIEDQYRQGLVTNGERYNKVVDIWGRA-GDKIAKAMMD 701
Query: 725 VLAEAR--DNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRG 782
L++ + D AG+ ++ N +MA +GARG I Q++ + G +
Sbjct: 702 NLSKQKVIDRAGNEVDQ--ESFNSIYMMADSGARGSAAQIKQLSGMRGLMA--------- 750
Query: 783 FRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQ 842
KP G+ + + ++++ GL+ +YF G R+GL DTA++TA SGY+
Sbjct: 751 ---------KPD--GSIIETPITSNFREGLTVLQYFIATHGARKGLADTALKTANSGYLT 799
Query: 843 RRLINALQDLKVDYD 857
RRL++ QDL V D
Sbjct: 800 RRLVDVTQDLVVVED 814
>pir||C82007 DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain NMA0141
[imported] - Neisseria meningitidis (group A strain
Z2491) >gi|7378913|emb|CAB83456.1| (AL162752)
DNA-directed RNA polymerase beta' chain [Neisseria
meningitidis Z2491]
Length = 1391
Score = 249 bits (629), Expect = 1e-64
Identities = 248/916 (27%), Positives = 389/916 (42%), Gaps = 190/916 (20%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGV 53
+I+ GI SP+ IR S EV P+T + DG I G V D K +
Sbjct: 21 AIKIGIASPETIRSWSYGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGKYKRL 80
Query: 54 IDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRI 106
G+ CE CG + GHIELA PV H+ F K++ +L+ T R+ R+
Sbjct: 81 KFKGVTCEKCGVEVTLSKVRRERMGHIELAAPVAHIWFLKSLPSRLGMVLDMTLRDIERV 140
Query: 107 K------LTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFE 160
+TD + ++ L ++ + + K E + K
Sbjct: 141 LYFEAFVVTDPGMTPLQRRQLLTED----------DYYNKLDEY-------GDDFDAKMG 183
Query: 161 KPTIYWELRKDEQGNEY---KHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTV 217
I LR E + + T +++KI + L H + EWM++ V
Sbjct: 184 AEGIRELLRTLNVAGEIEILRQELESTGSDTKIKKIAKRLKVLEAFHRSGMKLEWMIMDV 243
Query: 218 LPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQY 277
LPV P RP + L+ G A DL +I NNRLK+ +E AP +I+ + +LQ
Sbjct: 244 LPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLELHAPDIIVRNEKRMLQE 303
Query: 278 HVTTYINNETSGVPPAKHKSG---RPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISP 334
V + ++N G K +G RPLK+LA +KGK GRFR NL GKRV++S R+VI+
Sbjct: 304 AVDSLLDNGRRG----KAMTGANKRPLKSLADMIKGKGGRFRQNLLGKRVDYSGRSVITV 359
Query: 335 DPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRI 394
P + +++ G+P ++A+EL P F KL K L K A +++ E +
Sbjct: 360 GPYLRLHQCGLPKKMALELFKP-----FIFHKLEKQGLASTVK--AAKKLVEQEVPEV-- 410
Query: 395 MESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAV 454
W + ++ ++ NR P+LHR+ I A ++ + +L+ V
Sbjct: 411 ---------------WDILEEVIREHPIMLNRAPTLHRLGIQAFEPILIEGKAIQLHPLV 455
Query: 455 CPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLL 514
C +NADFDGD+M +HVP + EAQ EAR LM N+++SP G PII QD + G Y +
Sbjct: 456 CAAFNADFDGDQMAVHVPLSLEAQMEARTLMLASNNVLSPANGEPIIVPSQDIVLGLYYM 515
Query: 515 TR-------EGAYFTR-EEVEQMLMFAGVDI-------------KELPEPDKYENGKPLW 553
TR EG+ F +EV + V++ E E + N
Sbjct: 516 TRDRINAKGEGSLFADVKEVHRAYHTKQVELGTKITVRLREWVKNEAGEFEPVVNRYETT 575
Query: 554 SGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQN 613
G+ + S +LP L Y NK AL+K +E+ KL F
Sbjct: 576 VGRALLSEILPKGLPFEYVNK---------ALKK----------KEISKLINASF----- 611
Query: 614 GKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDE 673
+ G D +I F D + G + +DD
Sbjct: 612 ----------RLCGLRDTVI---------------FADHLMYTGFGFAAKGGISIAVDDM 646
Query: 674 DLPEEARDRIKEIIREAEERVQKLIEAYKRG------------ELEPLPGKTLEETLESK 721
++P+E ++ EA V+++ + Y++G ++ G + + +
Sbjct: 647 EIPKEK----AALLAEANAEVKEIEDQYRQGLVTNGERYNKVVDIWGRAGDKIAKAMMDN 702
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
+ RD E + N +MA +GARG I Q++ + G +
Sbjct: 703 LSKQKVIDRDGNEVDQESF----NSIYMMADSGARGSAAQIKQLSGMRGLMA-------- 750
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
KP G+ + + ++++ GL+ +YF G R+GL DTA++TA SGY+
Sbjct: 751 ----------KPD--GSIIETPITSNFREGLTVLQYFIATHGARKGLADTALKTANSGYL 798
Query: 842 QRRLINALQDLKVDYD 857
RRL++ QDL V D
Sbjct: 799 TRRLVDVTQDLVVVED 814
>prf||1605164A RNA polymerase beta' [Pseudomonas putida]
Length = 1409
Score = 248 bits (626), Expect = 2e-64
Identities = 261/930 (28%), Positives = 407/930 (43%), Gaps = 137/930 (14%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGV 53
+I G+ SP+ IR S EV P+T + DG I G V D K +
Sbjct: 30 AIRIGLASPEMIRSWSFGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGKYKRL 89
Query: 54 IDPGLRCETCGAKAG---ECPGHFGHIELARPVIHVGFAKT----IHRILESTCRECGRI 106
G+ CE CG + GHIELA + H+ F K+ I +++ T R+ R+
Sbjct: 90 KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLLMDMTLRDIERV 149
Query: 107 KLTDEE--IEEYMKKLELAKNRRSEVN-KILKEIHKKARERMVCPHCGAPQYPIKFEKPT 163
+ I+ M LE + E + L+E M + I E
Sbjct: 150 LYFESYVVIDPGMTTLEKGQLLNDEQYFEALEEFGDDFDAAMGAEAVRELLHAIDLE--- 206
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
+ + + T +++K+ + + + PEWMVLTVLPV P
Sbjct: 207 --------HEIGPLREEIPQTNSETKIKKLSKRLKLMEAFQGIGNLPEWMVLTVLPVVPA 258
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
P + L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V +
Sbjct: 259 PLGPLVPLDGGRFATSDLNDLYRRVINRNNRLKRQLDLSAPDIIVRNEKPMLQEAVEPLL 318
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N GV + RPLK+LA +KGK+GRFR NL GKRV++S R+VIS P + +++
Sbjct: 319 DNGACGVA-ITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVISVGPTLRLHQC 377
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
G+P ++A+EL P F KL L +++ ++ +
Sbjct: 378 GLPKKMALELFKP-----FIFGKLEMRGL-------------------ATTIKAAKKMVE 413
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
R + W V ++ VL NR P+LHR+ I A ++ + +L+ VC YNADFD
Sbjct: 414 RELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCARYNADFD 473
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GD+M + VP T EAQ E LM N+I+SP G PII QD + G Y +TRE
Sbjct: 474 GDQMAVDVPLTLEAQLENGALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTREAINAKG 533
Query: 524 EEVEQMLMFAGVDIKELPEPDK-YENGKPLWSGK---TIFSLLLPDDLTVWYRNKLCDEP 579
E G +L E D+ + G+ K I + D +V ++ D
Sbjct: 534 E---------GRVFADLQEVDRVFRAGEAALHAKIKVRINETVKERDGSVVKNTRIVD-- 582
Query: 580 ERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
+ + + +++P L YD + N + AI K +++ R
Sbjct: 583 ---TTVGRALLFQVVPG-----GLPYD----VVNQPMKKKAISK---------LINQCYR 621
Query: 640 EYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEE-------ARDRIKEIIREAEE 692
G++ F DQ+ T G + G++D +P+E A D +KEI E++
Sbjct: 622 VVGLKETVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKARIIGNATDEVKEI--ESQY 679
Query: 693 RVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEAR--DNAGSIAEKYLGMDNHTVIM 750
+ + K ++ L K +E + +MA L++ + D G E+ N +M
Sbjct: 680 ASGLVTQGEKYNKVIDLWSKANDE-VSKAMMANLSKEKVIDREGKEVEQ--ESFNSMYMM 736
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
A +GA G I Q+A + G + KP G+ + + +++
Sbjct: 737 ADSGAGGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANFRE 776
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GLS +YF G R+GL DTA++TA SGY+ RRL++ QDL V D V+
Sbjct: 777 GLSVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTDQGLVMTPH 836
Query: 871 RYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
G D V+P+ G+ V + RVI R + K
Sbjct: 837 IEGGDVVEPL----GERV-LGRVIARDVFK 861
>gb|AAA24586.1| (M38305) RNA polymerase (rpoC) [Escherichia coli]
Length = 814
Score = 245 bits (619), Expect = 2e-63
Identities = 201/702 (28%), Positives = 327/702 (45%), Gaps = 99/702 (14%)
Query: 171 DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT 230
+++ + + + T + +K+ + L ++PEWM+LTVLPV P RP +
Sbjct: 21 EQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVP 80
Query: 231 LETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGV 290
L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V ++N G
Sbjct: 81 LDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRG- 139
Query: 291 PPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIA 350
+ RPLK+LA +KGK+GRFR NL GKRV++S R+VI+ P + +++ G+P ++A
Sbjct: 140 RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMA 199
Query: 351 MELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGW 410
+EL P + + L + ++ ++ + R + W
Sbjct: 200 LELFKPFIYGKLELRGLATTI------------------------KAAKKMVEREEAVVW 235
Query: 411 TVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLH 470
+ ++ VL NR P+LHR+ I A ++ + +L+ VC YNADFDGD+M +H
Sbjct: 236 DILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVH 295
Query: 471 VPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQML 530
VP T EAQ EAR LM N+I+SP G PII QD + G Y +TR+ + E M+
Sbjct: 296 VPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRD---CVNAKGEGMV 352
Query: 531 MFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIE 590
+ + + L Y +G ++ R K+ +A +L+
Sbjct: 353 LTGPKEAERL-----YRSGL----------------ASLHARVKVRITEYEKDANGELVA 391
Query: 591 EKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERA 646
+ + D R + + G Y +++ A+ KKA + +L+ R G++
Sbjct: 392 KTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK----MLNTCYRILGLKPT 443
Query: 647 RQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGEL 706
F DQ+ G + GIDD +PE+ EII EAE V ++ E ++ G +
Sbjct: 444 VIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISEAEAEVAEIQEQFQSGLV 499
Query: 707 EPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAEKYLGMDNHTVIMAKTGA 755
G+ + ++ SK M + E N EK + N +MA +GA
Sbjct: 500 --TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSF-NSIYMMADSGA 556
Query: 756 RGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQ 815
RG I Q+A + G + KP G+ + + +++ GL+
Sbjct: 557 RGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANFREGLNVL 596
Query: 816 EYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 597 QYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 638
>prf||0805230A rpoC gene EcoRID fragment [Escherichia coli]
Length = 814
Score = 245 bits (619), Expect = 2e-63
Identities = 201/702 (28%), Positives = 327/702 (45%), Gaps = 99/702 (14%)
Query: 171 DEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT 230
+++ + + + T + +K+ + L ++PEWM+LTVLPV P RP +
Sbjct: 21 EQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVP 80
Query: 231 LETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGV 290
L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V ++N G
Sbjct: 81 LDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRG- 139
Query: 291 PPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIA 350
+ RPLK+LA +KGK+GRFR NL GKRV++S R+VI+ P + +++ G+P ++A
Sbjct: 140 RAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMA 199
Query: 351 MELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGW 410
+EL P + + L + ++ ++ + R + W
Sbjct: 200 LELFKPFIYGKLELRGLATTI------------------------KAAKKMVEREEAVVW 235
Query: 411 TVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLH 470
+ ++ VL NR P+LHR+ I A ++ + +L+ VC YNADFDGD+M +H
Sbjct: 236 DILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVH 295
Query: 471 VPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQML 530
VP T EAQ EAR LM N+I+SP G PII QD + G Y +TR+ + E M+
Sbjct: 296 VPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRD---CVNAKGEGMV 352
Query: 531 MFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIE 590
+ + + L Y +G ++ R K+ +A +L+
Sbjct: 353 LTGPKEAERL-----YRSGL----------------ASLHARVKVRITEYEKDANGELVA 391
Query: 591 EKLMPDPEEVRKLAY----DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERA 646
+ + D R + + G Y +++ A+ KKA + +L+ R G++
Sbjct: 392 KTSLKDTTVGRAILWMIVPKGLPY----SIVNQALGKKAISK----MLNTCYRILGLKPT 443
Query: 647 RQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGEL 706
F DQ+ G + GIDD +PE+ EII EAE V ++ E ++ G +
Sbjct: 444 VIFADQIMYTGFAYAARSGASVGIDDMVIPEKKH----EIISEAEAEVAEIQEQFQSGLV 499
Query: 707 EPLPGKTLEETLE---------SKIMA--VLAEARDNAGSIAEKYLGMDNHTVIMAKTGA 755
G+ + ++ SK M + E N EK + N +MA +GA
Sbjct: 500 --TAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSF-NSIYMMADSGA 556
Query: 756 RGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQ 815
RG I Q+A + G + KP G+ + + +++ GL+
Sbjct: 557 RGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANFREGLNVL 596
Query: 816 EYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYD 857
+YF G R+GL DTA++TA SGY+ RRL++ QDL V D
Sbjct: 597 QYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTED 638
>sp|P19176|RPOC_PSEPU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|45731|emb|CAA34538.1|
(X16538) beta'-subunit of RNA polymerase [Pseudomonas
putida]
Length = 1409
Score = 244 bits (617), Expect = 3e-63
Identities = 260/930 (27%), Positives = 405/930 (42%), Gaps = 137/930 (14%)
Query: 10 SIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------KRMGV 53
+I G+ SP+ IR S EV P+T + DG I G V D K +
Sbjct: 30 AIRIGLASPEMIRSWSFGEVKKPETINYRTFKPERDGLFCAKIFGPVKDYECLCGKYKRL 89
Query: 54 IDPGLRCETCGAKAG---ECPGHFGHIELARPVIHVGFAKT----IHRILESTCRECGRI 106
G+ CE CG + GHIELA + H+ F K+ I +++ T R+ R+
Sbjct: 90 KHRGVICEKCGVEVALGKVAAERMGHIELACGLAHIWFLKSLPSRIGLLMDMTLRDIERV 149
Query: 107 KLTDEE--IEEYMKKLELAKNRRSEVN-KILKEIHKKARERMVCPHCGAPQYPIKFEKPT 163
+ I+ M LE + E + L+E M + I E
Sbjct: 150 LYFESYVVIDPGMTTLEKGQLLNDEQYFEALEEFGDDFDAAMGAEAVRELLHAIDLE--- 206
Query: 164 IYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPV 223
+ + + T +++K+ + + + PEWMVLTVLPV P
Sbjct: 207 --------HEIGPLREEIPQTNSETKIKKLSKRLKLMEAFQGIGNLPEWMVLTVLPVVPA 258
Query: 224 TARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYI 283
P + L+ G A DL +I NNRLK+ ++ AP +I+ + +LQ V +
Sbjct: 259 PLGPLVPLDGGRFATSDLNDLYRRVINRNNRLKRQLDLSAPDIIVRNEKPMLQEAVEPLL 318
Query: 284 NNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEV 343
+N GV RPLK+LA +KGK+G FR NL GKRV++S R+VIS P + +++
Sbjct: 319 DNGACGVAIIGSNK-RPLKSLADMIKGKQGLFRQNLLGKRVDYSGRSVISVGPTLRLHQC 377
Query: 344 GVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNRENLA 403
G+P ++A+EL P F KL L +++ ++ +
Sbjct: 378 GLPKKMALELFKP-----FIFGKLEMRGL-------------------ATTIKAAKKMVE 413
Query: 404 RMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFD 463
R + W V ++ VL NR P+LHR+ I A ++ + +L+ VC YNADFD
Sbjct: 414 RELPEVWDVLAEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCARYNADFD 473
Query: 464 GDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTR 523
GD+M + VP T EAQ E LM N+I+SP G PII QD + G Y +TRE
Sbjct: 474 GDQMAVDVPLTLEAQLENGALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTREAINAKG 533
Query: 524 EEVEQMLMFAGVDIKELPEPDK-YENGKPLWSGK---TIFSLLLPDDLTVWYRNKLCDEP 579
E G +L E D+ + G+ K I + D +V ++ D
Sbjct: 534 E---------GRVFADLQEVDRVFRAGEAALHAKIKVRINETVKERDGSVVKNTRIVD-- 582
Query: 580 ERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVR 639
+ + + +++P L YD + N + AI K +++ R
Sbjct: 583 ---TTVGRALLFQVVPG-----GLPYD----VVNQPMKKKAISK---------LINQCYR 621
Query: 640 EYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEE-------ARDRIKEIIREAEE 692
G++ F DQ+ T G + G++D +P+E A D +KEI E++
Sbjct: 622 VVGLKETVIFADQLMYTGFAYSTISGVSIGVNDFVIPDEKARIIGNATDEVKEI--ESQY 679
Query: 693 RVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEAR--DNAGSIAEKYLGMDNHTVIM 750
+ + K ++ L K +E + +MA L++ + D G E+ N +M
Sbjct: 680 ASGLVTQGEKYNKVIDLWSKANDE-VSKAMMANLSKEKVIDREGKEVEQ--ESFNSMYMM 736
Query: 751 AKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKS 810
A +GA G I Q+A + G + KP G+ + + +++
Sbjct: 737 ADSGAGGSAAQIRQLAGMRGLMA------------------KPD--GSIIETPITANFRE 776
Query: 811 GLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQF 870
GLS +YF G R+GL DTA++TA SGY+ RRL++ QDL V D V+
Sbjct: 777 GLSVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEIDCGTDQGLVMTPH 836
Query: 871 RYGEDGVDPMKSWGGKTVDVDRVIMRTLIK 900
G D V+P+ G+ V + RVI R + K
Sbjct: 837 IEGGDVVEPL----GERV-LGRVIARDVFK 861
>pir||F64669 DNA-directed RNA polymerase, beta subunit - Helicobacter pylori
(strain 26695) >gi|2314357|gb|AAD08242.1| (AE000625)
DNA-directed RNA polymerase, beta subunit (rpoB)
[Helicobacter pylori 26695]
Length = 2890
Score = 241 bits (609), Expect = 2e-62
Identities = 237/921 (25%), Positives = 400/921 (42%), Gaps = 158/921 (17%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------- 48
K S + + SP++I S EV P+T + DG I G D
Sbjct: 1394 KDFSSFQLTLASPEKIHSWSYGEVKKPETINYRTLKPERDGLFCMKIFGPTKDYECLCGK 1453
Query: 49 -KRMGVIDPGLRCETCGAKAGECPGH---FGHIELARPVIHVGFAKTIHRILESTCRECG 104
K+ D G CE CG GHIELA PV H+ + + L S
Sbjct: 1454 YKKPRFKDIGT-CEKCGVAITHSKVRRFRMGHIELATPVAHIWYVNS----LPSRIGTLL 1508
Query: 105 RIKLTDEE----IEEYMKKLELAKNRRSEVNKIL-----------KEIHKKARERMVCPH 149
+K+ D E E Y+ K +E K++ + I ++ +R
Sbjct: 1509 GVKMKDLERVLYYEAYIVKEPGEAAYDNEGTKLVMKYDILNEEQYQNISRRYEDRGFVAQ 1568
Query: 150 CGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSR 209
G E+ + L+ K + T + +K+ + + +R
Sbjct: 1569 MGGEAIKDLLEEIDLITLLQS------LKEEVKDTNSDAKKKKLIKRLKVVESFLNSGNR 1622
Query: 210 PEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIE 269
PEWM+LTVLPV P RP + L+ G A D+ +I N RLK+ +E GAP++I+
Sbjct: 1623 PEWMMLTVLPVLPPDLRPLVALDGGKFAVSDVNELYRRVINRNQRLKRLMELGAPEIIVR 1682
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
+ +LQ V +N S K + RPLK+L++ +KGK+GRFR NL GKRV+FS R
Sbjct: 1683 NEKRMLQEAVDVLFDNGRS-TNAVKGANKRPLKSLSEIIKGKQGRFRQNLLGKRVDFSGR 1741
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEG 389
+VI P + ++E G+P +A+EL P +++ ++ G
Sbjct: 1742 SVIVVGPNLKMDECGLPKNMALELFKPHLLSK-----------------------LEERG 1778
Query: 390 RRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFR 449
+ ++ R + ++ W + + +G VL NR P+LH+ SI A +++ + +
Sbjct: 1779 YATTLKQAKRMIEQKSNEV-WECLQEITEGYPVLLNRAPTLHKQSIQAFHPKLIDGKAIQ 1837
Query: 450 LNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHIS 509
L+ VC +NADFDGD+M +HVP ++EA AE ++LM +I+ P G + QD +
Sbjct: 1838 LHPLVCSAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASGKAVAIPSQDMVL 1897
Query: 510 GGYLLTRE-----GAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLP 564
G Y L+ E G + V +++ +D KEL D + + L G I
Sbjct: 1898 GLYYLSLEKSGVKGEHKLFSSVNEII--TAIDTKEL---DIHAKIRVLDQGNII------ 1946
Query: 565 DDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKK 624
+ ++I + ++PD +I L + + KK
Sbjct: 1947 -----------------ATSAGRMIIKSILPD-------------FIPT-DLWNRPMKKK 1975
Query: 625 AYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIK 684
+ G+++D + + G+ FLD + L T G + ++D P++ +
Sbjct: 1976 ----DIGVLVDYVHKVGGIGITATFLDNLKTLGFRYATKAGISISMEDIITPKDK----Q 2027
Query: 685 EIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD 744
+++ +A+ V+K+ + Y +G L ++ +KI+ E D + D
Sbjct: 2028 KMVEKAKVEVKKIQQQYDQGLL-------TDQERYNKIIDTWTEVNDKMSKEMMTAIAQD 2080
Query: 745 ----NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
N +MA +GARG I Q++A+ G + KP G+
Sbjct: 2081 KEGFNSIYMMADSGARGSAAQIRQLSAMRGLMT------------------KPD--GSII 2120
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
+ +++++K GL+ EYF G R+GL DTA++TA +GY+ R+LI+ Q++KV D
Sbjct: 2121 ETPIISNFKEGLNVLEYFNSTHGARKGLADTALKTANAGYLTRKLIDVSQNVKVVSDDCG 2180
Query: 861 RDPTGVIVQFRYGEDGVDPMK 881
I G + ++P++
Sbjct: 2181 THEGIEITDIAVGSELIEPLE 2201
>pir||B71846 dna-directed RNA polymerase, beta chain - Helicobacter pylori (strain
J99) >gi|4155718|gb|AAD06699.1| (AE001540) DNA-DIRECTED
RNA POLYMERASE, BETA SUBUNIT [Helicobacter pylori J99]
Length = 2890
Score = 241 bits (609), Expect = 2e-62
Identities = 237/921 (25%), Positives = 400/921 (42%), Gaps = 158/921 (17%)
Query: 6 KVIGSIEFGILSPQEIRKMSAVEVTVPDTY-------DDDGY---PIEGGVMD------- 48
K S + + SP++I S EV P+T + DG I G D
Sbjct: 1394 KDFSSFQLTLASPEKIHSWSYGEVKKPETINYRTLKPERDGLFCMKIFGPTKDYECLCGK 1453
Query: 49 -KRMGVIDPGLRCETCGAKAGECPGH---FGHIELARPVIHVGFAKTIHRILESTCRECG 104
K+ D G CE CG GHIELA PV H+ + + L S
Sbjct: 1454 YKKPRFKDIGT-CEKCGVAITHSKVRRFRMGHIELATPVAHIWYVNS----LPSRIGTLL 1508
Query: 105 RIKLTDEE----IEEYMKKLELAKNRRSEVNKIL-----------KEIHKKARERMVCPH 149
+K+ D E E Y+ K +E K++ + I ++ +R
Sbjct: 1509 GVKMKDLERVLYYEAYIVKEPGEAAYDNEGTKLVMKYDILNEEQYQNISRRYEDRGFVAQ 1568
Query: 150 CGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSR 209
G E+ + L+ K + T + +K+ + + +R
Sbjct: 1569 MGGEAIKDLLEEIDLITLLQS------LKEEVKDTNSDAKKKKLIKRLKVVESFLNSGNR 1622
Query: 210 PEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIE 269
PEWM+LTVLPV P RP + L+ G A D+ +I N RLK+ +E GAP++I+
Sbjct: 1623 PEWMMLTVLPVLPPDLRPLVALDGGKFAVSDVNELYRRVINRNQRLKRLMELGAPEIIVR 1682
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
+ +LQ V +N S K + RPLK+L++ +KGK+GRFR NL GKRV+FS R
Sbjct: 1683 NEKRMLQEAVDVLFDNGRS-TNAVKGANKRPLKSLSEIIKGKQGRFRQNLLGKRVDFSGR 1741
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEG 389
+VI P + ++E G+P +A+EL P +++ ++ G
Sbjct: 1742 SVIVVGPNLKMDECGLPKNMALELFKPHLLSK-----------------------LEERG 1778
Query: 390 RRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFR 449
+ ++ R + ++ W + + +G VL NR P+LH+ SI A +++ + +
Sbjct: 1779 YATTLKQAKRMIEQKSNEV-WECLQEITEGYPVLLNRAPTLHKQSIQAFHPKLIDGKAIQ 1837
Query: 450 LNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHIS 509
L+ VC +NADFDGD+M +HVP ++EA AE ++LM +I+ P G + QD +
Sbjct: 1838 LHPLVCSAFNADFDGDQMAVHVPLSQEAIAECKVLMLSSMNILLPASGKAVAIPSQDMVL 1897
Query: 510 GGYLLTRE-----GAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLP 564
G Y L+ E G + V +++ +D KEL D + + L G I
Sbjct: 1898 GLYYLSLEKSGVKGEHKLFSSVNEII--TAIDTKEL---DIHAKIRVLDQGNII------ 1946
Query: 565 DDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKK 624
+ ++I + ++PD +I L + + KK
Sbjct: 1947 -----------------ATSAGRMIIKSILPD-------------FIPT-DLWNRPMKKK 1975
Query: 625 AYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIK 684
+ G+++D + + G+ FLD + L T G + ++D P++ +
Sbjct: 1976 ----DIGVLVDYVHKVGGIGITATFLDHLKTLGFRYATKAGISISMEDIITPKDK----Q 2027
Query: 685 EIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD 744
+++ +A+ V+K+ + Y +G L ++ +KI+ E D + D
Sbjct: 2028 KMVEKAKVEVKKIQQQYDQGLL-------TDQERYNKIIDTWTEVNDRMSKEMMSAIAKD 2080
Query: 745 ----NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARA 800
N +MA +GARG I Q++A+ G + KP G+
Sbjct: 2081 KEGFNSIYMMADSGARGSAAQIRQLSAMRGLMT------------------KPD--GSII 2120
Query: 801 KGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
+ +++++K GL+ EYF G R+GL DTA++TA +GY+ R+LI+ Q++KV D
Sbjct: 2121 ETPIISNFKEGLNVLEYFNSTHGARKGLADTALKTANAGYLTRKLIDVSQNVKVVSDDCG 2180
Query: 861 RDPTGVIVQFRYGEDGVDPMK 881
I G + ++P++
Sbjct: 2181 THEGIEITDIAVGSELIEPLE 2201
>emb|CAB77429.1| (AL160431) DNA-directed RNA polymerase beta' chain (fragment)
[Streptomyces coelicolor A3(2)]
Length = 1059
Score = 237 bits (599), Expect = 4e-61
Identities = 213/739 (28%), Positives = 328/739 (43%), Gaps = 149/739 (20%)
Query: 210 PEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIE 269
P+ MVL +PV P RP + L+ G A DL +I NNRLK+ ++ GAP++I+
Sbjct: 309 PKGMVLDCVPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPEIIVN 368
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
+ +LQ V +N G P RPLK+L+ LKGK+GRFR NL GKRV++SAR
Sbjct: 369 NEKRMLQEAVDALFDNGRRG-RPVTGPGNRPLKSLSDMLKGKQGRFRQNLLGKRVDYSAR 427
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEG 389
+VI P + +++ G+P +A+EL P F +++L + N+
Sbjct: 428 SVIVVGPQLKLHQCGLPKAMALELFKP-----FVMKRLVDL-----------NHA----- 466
Query: 390 RRIRIMESNRENLARMIDIGWTVERHLLDGDI----VLFNRQPSLHRMSIMAHRVRVMPY 445
N ++ RM++ G TV +L+ I VL NR P+LHR+ I A +++
Sbjct: 467 -------QNIKSAKRMVERGRTVVYDVLEEVIAEHPVLLNRAPTLHRLGIQAFEPQLVEG 519
Query: 446 RTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQ 505
+ +++ VC +NADFDGD+M +H+P + EAQAEARILM N+I+ P G P+ Q
Sbjct: 520 KAIQIHPLVCTAFNADFDGDQMAVHLPLSAEAQAEARILMLSSNNILKPADGRPVTMPTQ 579
Query: 506 DHISGGYLLTR---------EGAYFTREEVEQMLMFAG-------VDIK----ELP---- 541
D + G + LT EG F M AG +DI+ +P
Sbjct: 580 DMVLGLFFLTTDSEGRSPKGEGRAFGSSAEAIMAFDAGDLTLQAKIDIRFPVGTIPPRGF 639
Query: 542 EPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVR 601
EP E G+P W F+L L + + +L+P+
Sbjct: 640 EPPAREEGEPEWQQGDTFTLK--------------------TTLGRALFNELLPEDYP-- 677
Query: 602 KLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVI 661
FV + GK ++ I++ + Y LD + +
Sbjct: 678 ------FVDYEVGK------------KQLSEIVNDLAERYPKVIVAATLDNLKAAGFFWA 719
Query: 662 THKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESK 721
T G T I D +P D KEI++ E + +K+ + Y+RG + T EE + +
Sbjct: 720 TRSGVTVAISDIVVP----DAKKEIVKGYEGQDEKVQKQYERGLI------TKEERTQ-E 768
Query: 722 IMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYR 781
++A+ +A + N +M +GARG ++ + Q+A + R
Sbjct: 769 LIAIWTKATNEVAEAMNDNFPKTNPVSMMVNSGARGNMMQMRQIAGM------------R 816
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
G + P + A S++ GLS EYF G R+GL DTA+RTA SGY+
Sbjct: 817 GLVSNAKNETIPRPIKA--------SFREGLSVLEYFISTHGARKGLADTALRTADSGYL 868
Query: 842 QRRLINALQDLKV------------------DYDGTVRDPTGV---IVQFRYGEDGVDPM 880
RRL++ QD+ + D DGT+R V + ED V
Sbjct: 869 TRRLVDVSQDVIIREEDCGTERGLKLPIATRDADGTLRKAEDVETSVYARMLAEDVVIDG 928
Query: 881 KSWGGKTVDVDRVIMRTLI 899
K VD+ V++ L+
Sbjct: 929 KVIAPANVDLGDVLIDALV 947
>sp|O51349|RPOC_BORBU DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|7434732|pir||C70148
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Lyme disease spirochete >gi|2688294|gb|AAB91502.1|
(AE001144) DNA-directed RNA polymerase (rpoC) [Borrelia
burgdorferi]
Length = 1377
Score = 237 bits (598), Expect = 5e-61
Identities = 240/922 (26%), Positives = 403/922 (43%), Gaps = 159/922 (17%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRM---------------GVI 54
I+ I SP +IR S EV +T + P + G+ +R+ V
Sbjct: 10 IKIKIASPDQIRNWSYGEVKKSETINYRTLRPEKDGLFCERIFGTTKEWECYCGKFKSVR 69
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHR----ILESTCRECGRIK 107
G+ C+ C + GHIELA PV H+ + K I +L+ T I
Sbjct: 70 YKGIICDRCNVEVTHFKVRRERMGHIELAAPVAHIWYYKYIPSRIGLLLDITASSLNSIL 129
Query: 108 LTDEEIEEYMKKLELAKNRRSEVNKILKEIHKKARERM-VCPHCGAPQYPIKFEKPTIYW 166
++ + +E ++ + ++ + +ARER + + IK T+
Sbjct: 130 YYEKYVV-----IEPGDTDLKKMQLLNEDEYIEARERYGMSFNASMGAEAIK----TLLE 180
Query: 167 ELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLL-GLHPEKSRPEWMVLTVLPVPPVTA 225
L DE ++ + +M+ + D+ +K + L ++ ++PEWM++ VLPV P
Sbjct: 181 NLDLDELSSKLRIQMIDKD--DKTDKKLLRRLEIIENFKISGNKPEWMIMEVLPVIPPEI 238
Query: 226 RPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINN 285
RP + L+ G A DL +I NNRL++ + AP++I+ + +LQ V + +N
Sbjct: 239 RPMVQLDGGRFATSDLNDLYRRVINRNNRLRKLLLLNAPEIIVRNEKRMLQESVDSLFDN 298
Query: 286 ETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGV 345
K S RPLK+L+ LKGK+GRFR NL GKRV++S R+VI P + +++ G+
Sbjct: 299 SHKR-KVVKGSSSRPLKSLSDALKGKQGRFRQNLLGKRVDYSGRSVIVVGPELKLHQCGL 357
Query: 346 PIQIAMELTVP-------EKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESN 398
P ++A+EL P E FNI++ + ++
Sbjct: 358 PAKMALELFKPFVIRRLIESEAVFNIKRAKNLI--------------------------- 390
Query: 399 RENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPY 458
+ +D W + ++ +L NR P+LHR+ I A ++ + +L+ VC Y
Sbjct: 391 ----EQEVDEVWQILDLVIKEHPILLNRAPTLHRLGIQAFEPVLVEGKAIKLHPLVCHAY 446
Query: 459 NADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREG 518
NADFDGD+M +HVP T AQAE+ LM N++++P G PI+ QD + G Y LT E
Sbjct: 447 NADFDGDQMAVHVPLTPAAQAESWALMLSTNNLLNPANGHPIVFPSQDIVLGLYYLTMEK 506
Query: 519 AYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDE 578
E ++ L F V + N + L +I+ K+ E
Sbjct: 507 KNVVGEG-KKFLNFNNVILA--------INNRSLDYNASIYV-------------KIHGE 544
Query: 579 PERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIV 638
++ A + E L E V K D E I++ +
Sbjct: 545 YKKTTAGRVIFNEALPKGIEFVNKTLSD---------------------LELQILISKVY 583
Query: 639 REYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRI----KEIIREAEERV 694
+G + LD + +L T G T + D +P+E R + KEI + +
Sbjct: 584 VVHGSSIVIEMLDIIKELGFRYATKFGCTISMSDIIVPDEKRTYVERANKEIAKIQNDYA 643
Query: 695 QKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTG 754
+ +I +R E L +K+M +L + RD N +MA +G
Sbjct: 644 KGVITGEERYNNVVSVWLKTNEELTNKMMEILKKDRDGF-----------NVIYMMADSG 692
Query: 755 ARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSP 814
ARG I Q+A + G L GD+ + +++++K GLS
Sbjct: 693 ARGSRNQIRQLAGMRG-----------------LMAKTSGDI---IELPIISNFKEGLSV 732
Query: 815 QEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQD--LKVDYDGTVRDPTGVIVQ-FR 871
E+F G R+GL DTA++TA +GY+ RRL++ QD ++++ GT+ G+ V+ +
Sbjct: 733 IEFFISTNGARKGLADTALKTADAGYLTRRLVDIAQDVVVRIEDCGTI---NGIKVETVK 789
Query: 872 YGEDGVDPMKSWGGKTVDVDRV 893
GE+ ++ +K + ++R+
Sbjct: 790 NGEEILESLKEKAVGSYSIERI 811
>gb|AAA62413.1| (M81388) DNA-directed RNA polymerase I largest subunit [Chilo
iridescent virus] >gi|861468|gb|AAB33907.1| (S75674)
DNA-depenent RNA polymerase largest subunit homolog
[Chilo iridescent virus CIV, insect iridescent virus
type 6, Peptide, 1051 aa]
Length = 1051
Score = 233 bits (587), Expect = 9e-60
Identities = 164/514 (31%), Positives = 248/514 (47%), Gaps = 88/514 (17%)
Query: 406 IDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGD 465
++ GW V R+L +GDI++ NRQP+LH+ S+MA RV++M +TF+ NLA PYNADFDGD
Sbjct: 533 LEEGWIVHRYLQNGDILVLNRQPTLHKASMMALRVKIMDVKTFKFNLACTKPYNADFDGD 592
Query: 466 EMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE- 524
EMN H PQ+EE++AE L + I+S + G P + +QD ++G YL+++E
Sbjct: 593 EMNAHAPQSEESKAELFTLSTPKQCIMSCQSGKPNLTIVQDSLTGAYLMSKENNNDATNN 652
Query: 525 -EVEQMLMFAG---------VDIKELPEPDKYENGKPLW------SGKTIFSLLLPDDLT 568
E +LM VD + D K L +GK + SLL P+DL
Sbjct: 653 GEFNDILMVLTQNDEYNGDVVDYFLKRKEDVSNTLKKLGFSGTVLNGKGLLSLLFPNDLY 712
Query: 569 VWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKKAYGR 628
+ + E+++ I G + G + KK
Sbjct: 713 I--------------------------NEEDLK---------INRGVIYDGCLTKKYLSS 737
Query: 629 EDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIR 688
+ ++ ++ +EYGVE FL+ + LT + F+ D +E +++ +
Sbjct: 738 TESSLIKILYKEYGVETCATFLNNIQFLTNRWLMISSFSIHAGDCIKQKEVLGTVEQCLM 797
Query: 689 EAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDN--- 745
E+E+ + R E KIM L+ A+D IA+ L DN
Sbjct: 798 ESEKIKMTTQNPFIR---------------EQKIMQTLSNAKDVGMKIAKDALKRDNVNL 842
Query: 746 ----HTVIMAKTGARGKILNITQMAALLGQQSIRGKR----LYRGFR----------GRV 787
+ + ++G++G LNI Q+ +LLGQQ G+R L G R
Sbjct: 843 HAQNNFLTTVESGSKGDHLNIAQITSLLGQQITEGQRVKPLLSNGKRTLPHYILKEENND 902
Query: 788 LSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLIN 847
HF ++GF+ +S+ GL+P+E+FFH M GR+G+ DTA+ TA SGY+ RR +
Sbjct: 903 TEHFHDLLEEYESQGFISSSFAQGLNPKEFFFHCMAGRQGVCDTAMSTATSGYIMRRNVK 962
Query: 848 ALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMK 881
+D+KV YDGTV+D G Q YGE G DP K
Sbjct: 963 LTEDIKVAYDGTVQDTRGRRFQMAYGELGYDPSK 996
Score = 162 bits (406), Expect = 2e-38
Identities = 137/452 (30%), Positives = 208/452 (45%), Gaps = 101/452 (22%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTV----PDTYDDDGYPIEGGVMDKRMGVIDP 56
M+S K I SI FG++S ++IR+MS+ EV P + + + D + G I
Sbjct: 7 MESEIKEIESISFGMMSSEDIRQMSSFEVKTARYRPQIFLER-------LHDPKSGPIGS 59
Query: 57 GLRCETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIE-E 115
CETC +CPGHFGHIEL P+IH F + IL+ C +C LT + +E
Sbjct: 60 A-PCETCHQNEWDCPGHFGHIELNVPIIHPLFINHVVNILKIFCWKCNEFLLTKDHLELN 118
Query: 116 YMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIK-----FEKPTIY----- 165
+ KLE + + N +L++I K R C HC P+ K TIY
Sbjct: 119 NILKLE----KEKKFNAVLEKIKKCDR----CVHCTTPRADYKLVLNDITYKTIYRTFSY 170
Query: 166 ----WELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVP 221
+ +D++ NE + + ++ + I + + +LG+ S P+ L V PV
Sbjct: 171 QGGAVKTARDKKLNESREIVSAEMVKKIFDNIKLEYVEMLGI----SHPKDFCLEVFPVI 226
Query: 222 PVTARPSITLETGIRAEDDLTHKLVDIIRINNRL------KQNIEAGAPQLI-------- 267
P RP ++ G +DDLT++L++I++ N+ + K+++E P+ +
Sbjct: 227 PSCCRPH-EVQDGNINDDDLTYQLMEIVKNNSMIGAIKLEKESMEKQYPECLKVKEILLL 285
Query: 268 -----------------------------IEDLWDLLQY----------------HVTTY 282
E++ L QY + TY
Sbjct: 286 SNVEKQKKEIDDFLKKPIKNGLKTKKKINKEEITPLDQYLKLHDKYVKYVNNLKFRIETY 345
Query: 283 INNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINE 342
NN A +GR +K L +RL GKEG+ R NL GKR SARTVI PDP + I+E
Sbjct: 346 CNNSQGKATHA--TTGRAIKGLRERLTGKEGQIRNNLLGKRCEMSARTVIGPDPTLKIDE 403
Query: 343 VGVPIQIAMELTVPEKVTEFNIEKLRKMVLNG 374
V VP +IA LT P+ V + NI++L K+V +G
Sbjct: 404 VIVPKEIAQSLTFPDFVNKHNIDRLTKLVNSG 435
>pir||F75461 DNA-directed RNA polymerase, beta' subunit - Deinococcus radiodurans
(strain R1) >gi|6458629|gb|AAF10485.1|AE001943_5
(AE001943) DNA-directed RNA polymerase, beta` subunit
[Deinococcus radiodurans]
Length = 1546
Score = 224 bits (565), Expect = 3e-57
Identities = 194/696 (27%), Positives = 309/696 (43%), Gaps = 122/696 (17%)
Query: 208 SRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLI 267
+ P WM+L +PV P RP + ++ G A DL +I NNRLK+ + GAP +I
Sbjct: 524 NNPSWMILGTVPVMPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLMSQGAPDMI 583
Query: 268 IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
I + +LQ V I+N G P S R L++L L GK+GRFR NL GKRV++S
Sbjct: 584 IRNEKRMLQEAVDALIDNGRRGSPVTNPGSDRSLRSLTDLLGGKQGRFRQNLLGKRVDYS 643
Query: 328 ARTVISPDPMISINEVGVPIQIAMELTVP-------EKVTEFNIEKLRKMVLNGPDKYPG 380
R+VI P + +++ GVP ++A+EL P EK NI++ RKM+
Sbjct: 644 GRSVIVVGPQLKLHQCGVPKRMALELFKPFLFKVLEEKGEVTNIKQARKML--------- 694
Query: 381 ANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRV 440
E D W +++ +VL NR P+LHR+ I A
Sbjct: 695 -------------------ERYRDTRDSVWDALEEVIEDKVVLLNRAPTLHRLGIQAFEP 735
Query: 441 RVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPI 500
++ ++ +L+ VC +NADFDGD+M +HVP + +AQAEARI M ++++SP G P
Sbjct: 736 VLVEGQSIQLHPLVCEAFNADFDGDQMAIHVPLSAQAQAEARIQMLASHNLLSPANGEPN 795
Query: 501 IGGIQDHISGGYLLT---REGAYFTREEVEQMLMFAGVDIKELP-EPDKYENGKPLWSGK 556
+ +D I G + LT R+ E + A D +L NG G+
Sbjct: 796 VKPSRDIILGIFTLTQLRRDNLGAGTEYASEADALAAFDEGKLSLNSPVMVNGVETSPGR 855
Query: 557 TIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVY-IQNGK 615
++ PD EAL + + ++ D ++ ++ +G VY G+
Sbjct: 856 LRYTFSNPD-----------------EALHAVEQGEI--DHQDHVRIRLNGQVYETSAGR 896
Query: 616 LLSGAIDKKAYGREDGIILDLI------------------VREYGVERARQFLDQVTKLT 657
+ + ++A G + G+I L+ + G+E LD + +
Sbjct: 897 VQFRRMVQEALGAQGGLIDTLVDLETTYEKDALKDMVMACFKHLGIEATAGLLDGLKEGG 956
Query: 658 IWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEET 717
+ T G T GIDD LP E++ EA++ + ++ + ++ G + EE
Sbjct: 957 FKLSTTSGITIGIDDIVLPPNK----GELLAEADQMLAEIEQNFEFGFM-------TEEE 1005
Query: 718 LESKIMAVLAEARDNAGSIAEKYLGMD---NHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ + D + + N IM+++GARG I Q+A + G
Sbjct: 1006 RYKQVVQLWNNTTDAVKDAVFENFSKNYPFNPLWIMSQSGARGNPQQIRQLAGMRG---- 1061
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVN-----SYKSGLSPQEYFFHAMGGREGLV 829
L AR G + S++ GL+ EYF G R+G
Sbjct: 1062 ---------------------LMARPDGSTIEVPIRASFREGLTVLEYFISTHGARKGGA 1100
Query: 830 DTAVRTAQSGYMQRRLINALQDLKV-DYDGTVRDPT 864
DTA+RTA SGY+ R+L++ ++ V D D D T
Sbjct: 1101 DTALRTADSGYLTRKLVDVAHEVVVRDVDCGSTDST 1136
>sp|P75271|RPOC_MYCPN DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|2146114|pir||S73653
DNA-directed RNA polymerase beta' chain - Mycoplasma
pneumoniae (strain ATCC 29342)
>gi|1674001|gb|AAB95975.1| (AE000030) DNA-directed RNA
polymerase beta' chain [Mycoplasma pneumoniae]
Length = 1290
Score = 222 bits (561), Expect = 1e-56
Identities = 197/687 (28%), Positives = 326/687 (46%), Gaps = 83/687 (12%)
Query: 207 KSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGA-PQ 265
K P+ M+L +PV P RP I L+ D+ + +I N+RL++ +E G P
Sbjct: 291 KLHPKNMILHTVPVIPPDIRPIIQLDGAKFTTSDINNFYRRVIIRNDRLRRILEDGTVPA 350
Query: 266 LIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVN 325
+++ + LLQ V +N +S PA K R LK+L RLKGK+G FR NL GKRV+
Sbjct: 351 IVVNNEKRLLQESVDALFDN-SSRHKPALSKDKRSLKSLTDRLKGKQGLFRHNLLGKRVD 409
Query: 326 FSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKL-RKMVLNGPDKYPGANYV 384
+S R+VI P + + EVG+P + ++L P F I L K NG + P A+ +
Sbjct: 410 YSGRSVIVVGPELKMYEVGIPALMILKLFKP-----FIIHGLINKFDSNGNEIRPIASSI 464
Query: 385 IDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP 444
R+ M N+++L W + ++ VL NR P+LHR+ I A R++
Sbjct: 465 -----RQAEDMIKNQDDLI------WGIVYDVIKDRPVLLNRAPTLHRLGIQAFEPRIVD 513
Query: 445 YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGI 504
+ RL+ V +NADFDGD+M +HVP +E A EAR ++ HI+ + G PI+
Sbjct: 514 GKAIRLHPLVTTAFNADFDGDQMAVHVPLSENAVNEARAILLASKHILGLKDGRPIVTPT 573
Query: 505 QDHISGGYLLTREGAYFTREEV----------------EQMLMFAGVDIKELPEPDKYEN 548
QD + G Y LT E T E + + G+ K P
Sbjct: 574 QDMVLGNYYLTTERKGQTGEGIIFGTVHEARAAYEAGKVHLHAIVGISTKAFPNKHFEAQ 633
Query: 549 GKPLWS-GKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDG 607
G + + GK IF+ +L D++ Y N+ + C ++ ++P +VR
Sbjct: 634 GTLITTVGKIIFNDVLGDNIP--YINEGEFDEHACP------QKFIVPPSGDVR------ 679
Query: 608 FVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFT 667
I ++L A KK + ++DL+ + + L+ + L TH T
Sbjct: 680 -AAIAAHQVLP-AFGKKVISK----LIDLLYTVVEFKDLPRILENIKALGFKYSTHSSTT 733
Query: 668 TGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIM---A 724
+ D+P+ + ++ EA+++V K + Y +G L T +E + +
Sbjct: 734 VSV--FDIPKYSNK--QQYFDEADQQVLKYKQFYNKGLL------TDDERYKRVVKLWNG 783
Query: 725 VLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFR 784
V + + ++ DN V+MA +GARG I N TQ+ + G S + R +
Sbjct: 784 VKEKVSSEIQDLIKREEYRDNSIVVMADSGARGNISNFTQLFGMRGLMS-KSFNYERNNQ 842
Query: 785 GRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRR 844
+++ + + +S+ GL+ EYF + G R+G+ DTA++TA+SGYM R+
Sbjct: 843 SKIIKD--------TIEVPIKHSFLEGLTINEYFNSSYGARKGMTDTAMKTAKSGYMTRK 894
Query: 845 LINALQDLKVDYD--GTVRDPTGVIVQ 869
L++A +L +++D GT + G++V+
Sbjct: 895 LVDATHELIINHDDCGTRK---GIVVE 918
>sp|P47582|RPOC_MYCGE DNA-DIRECTED RNA POLYMERASE BETA' CHAIN (TRANSCRIPTASE BETA' CHAIN)
(RNA POLYMERASE BETA' SUBUNIT) >gi|1361500|pir||F64237
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Mycoplasma genitalium >gi|3844922|gb|AAC71565.1|
(U39715) DNA-directed RNA polymerase, subunit beta'
(rpoC) [Mycoplasma genitalium]
Length = 1292
Score = 213 bits (536), Expect = 9e-54
Identities = 196/687 (28%), Positives = 323/687 (46%), Gaps = 83/687 (12%)
Query: 207 KSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGA-PQ 265
K P+ M+L +PV P RP I L+ D+ + +I N+RL++ +E G P
Sbjct: 293 KLHPKNMILHTVPVIPPDIRPIIQLDGAKFTTSDINNFYRRVIIRNDRLRRILEDGTVPS 352
Query: 266 LIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVN 325
+++ + LLQ V +N +S P+ K R LK+L RLKGK+G FR NL GKRV+
Sbjct: 353 IVVNNEKRLLQESVDALFDN-SSRHKPSLSKDKRSLKSLTDRLKGKQGLFRHNLLGKRVD 411
Query: 326 FSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKL-RKMVLNGPDKYPGANYV 384
+S R+VI P + + EVG+P + ++L P F I L K NG + P A +
Sbjct: 412 YSGRSVIVVGPELKMYEVGIPALMILKLFKP-----FIIHGLINKFDENGNEIRPIAASI 466
Query: 385 IDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP 444
R+ M N+++L W + ++ VL NR P+LHR+ I A R++
Sbjct: 467 -----RQAEDMIKNQDDLI------WGIVYDVIKDRPVLLNRAPTLHRLGIQAFEPRIVD 515
Query: 445 YRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGI 504
+ RL+ V +NADFDGD+M +HVP +E A EAR ++ HI+ + G PI+
Sbjct: 516 GKAIRLHPLVTTAFNADFDGDQMAVHVPLSENAVNEARAVLLASKHILGLKDGRPIVTPT 575
Query: 505 QDHISGGYLLTREG------------AYFTREEVEQMLM----FAGVDIKELPEPDKYEN 548
QD + G Y LT E Y R E + G+ K P
Sbjct: 576 QDMVLGNYYLTTERKGQLGEGIIFSTVYEARAAYESQKVHLHAIVGISTKAFPNKKFACQ 635
Query: 549 GKPLWS-GKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDG 607
G + + GK IF+ +L +++ Y N + C E+ ++ E+VR+
Sbjct: 636 GTLITTVGKIIFNDVLGNNVP--YINDGEFDENACP------EKFIVKQGEDVRQS---- 683
Query: 608 FVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFT 667
I +++ A KK + ++DL+ + + LD + L T T
Sbjct: 684 ---ILKHQIIP-AFSKKVISK----LIDLLYLLLEFKDLPKTLDNIKALGFKYSTFSSTT 735
Query: 668 TGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMA--- 724
+ D +P+ + A+++V K + Y +G L T +E + +
Sbjct: 736 VSVFD--IPKYTNKQ--NYFDSADQQVLKYKQFYNKGLL------TDDERYKRVVKLWNN 785
Query: 725 VLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFR 784
V + D ++ ++ DN V+MA +GARG I N TQ+ + G S + R +
Sbjct: 786 VKEKVSDEIQNLIKQEQYRDNSIVVMADSGARGNISNFTQLFGMRGLMS-KSFNYERNNQ 844
Query: 785 GRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRR 844
+++ + + +S+ GL+ EYF + G R+G+ DTA++TA+SGYM R+
Sbjct: 845 SKIIKD--------TIEVPIKHSFFEGLTINEYFNSSYGARKGMTDTAMKTAKSGYMTRK 896
Query: 845 LINALQDLKVDYD--GTVRDPTGVIVQ 869
L++A +L +++D GT + G++V+
Sbjct: 897 LVDATHELIINHDDCGTRK---GIVVE 920
>emb|CAA70579.1| (Y09428) DNA directed RNA polymerase beta' chain [Staphylococcus
aureus]
Length = 541
Score = 212 bits (533), Expect = 2e-53
Identities = 173/554 (31%), Positives = 257/554 (46%), Gaps = 105/554 (18%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTY-------DDDGYPIE---GGVMD------KRMGVI 54
++ G+ SP++IR S EV P+T + DG E G D K V
Sbjct: 1 MKIGLASPEKIRSWSFGEVKKPETINYRTLKPEKDGLFCERIFGPTKDWECSCGKYKRVR 60
Query: 55 DPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDE 111
G+ C+ CG + + GHIELA PV H+ + K I R+ L
Sbjct: 61 YKGMVCDRCGVEVTKSKVRRERMGHIELAAPVSHIWYFKGIP----------SRMGLL-- 108
Query: 112 EIEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELR-- 169
L+++ + L+E+ A +V P P EK T+ E
Sbjct: 109 --------LDMSP-------RALEEVIYFASYVVVDPG------PTGLEKKTLLSEAEFR 147
Query: 170 --KDEQGNEYKHRMMPTEIRDRLEKIP-DKDLPLLGLHPEKS------------------ 208
D+ ++ +M I+D LE+I D++L LL E +
Sbjct: 148 DYYDKYPGQFVAKMGAEGIKDLLEEIDLDEELKLLRDELESATGQRLARAIKRLEVVESF 207
Query: 209 -----RPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGA 263
+P WM+L VLP+ P RP + L+ G A DL +I NNRLK+ ++ GA
Sbjct: 208 RNSGNKPSWMILDVLPIIPPEIRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGA 267
Query: 264 PQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKR 323
P +I+++ +LQ V I+N G P RPLK+L+ LKGK+GRFR NL GKR
Sbjct: 268 PGIIVQNEKRMLQEAVDALIDNGRRG-RPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKR 326
Query: 324 VNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANY 383
V++S R+VI+ P + + + G+P ++A+EL P + E ++ + N K
Sbjct: 327 VDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVMKELVQREIATNIKNAKSK------ 380
Query: 384 VIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVM 443
+ RM D W V ++ VL NR P+LHR+ I A ++
Sbjct: 381 ------------------IERMDDEVWDVLEEVIREHPVLLNRAPTLHRLGIQAFEPTLV 422
Query: 444 PYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGG 503
R RL+ V YNADFDGD+M +HVP ++EAQAEAR+LM +I++P+ G P++
Sbjct: 423 EGRAIRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAEARMLMLAAQNILNPKDGKPVVTP 482
Query: 504 IQDHISGGYLLTRE 517
QD + G Y LT E
Sbjct: 483 SQDMVLGNYYLTLE 496
>gi|9633877 gp068R [Rabbit fibroma virus] >gi|6578596|gb|AAF17950.1|AF170722_68
(AF170722) gp068R [Rabbit fibroma virus]
Length = 1286
Score = 204 bits (513), Expect = 4e-51
Identities = 209/865 (24%), Positives = 364/865 (41%), Gaps = 106/865 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + + +EI +A ++ + +DD G V D R+G +D G C+TC
Sbjct: 3 VISKVTYSLYNQEEI---NATDIFINHVKNDDDV---GTVKDGRLGAMD-GALCKTCEKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
+C GH+G + L ++ + + RI+ C CG ++ + +E+ K
Sbjct: 56 ELQCFGHWGKVRLYETHIVKPEYISEVIRIVNHICIRCGFLRSREPYLEDVTKM------ 109
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
S K LK+ ++ C P I F K + + + DE ++P
Sbjct: 110 -SSHALKKLKDKILSKKKSCWNSKCMQPYQKITFSKKKVCFVNKSDEV-------IVPNA 161
Query: 186 -IRDRLEKIPDKDLPLLGLHPEKSRPEWMVL-TVLPVPPVTARPSIT--LETGIRAEDDL 241
I ++ I + PLL +H +PE + PVPP+ RP+I+ +++ + ++L
Sbjct: 162 LIYQKITSIYRRFWPLLEIH---QKPENLFYKNFFPVPPLIIRPAISFWIDSIPKETNEL 218
Query: 242 THKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPL 301
T+ L I++ N A + +I+ +++Y I+N T+ +
Sbjct: 219 TYLLGMIVKYCNM-------NADEQVIQKA--VIEYDDIKIISNNTTSI----------- 258
Query: 302 KTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTE 361
L+ GK R + +R + +AR+VI PD I+INEVGVP I LT V
Sbjct: 259 -NLSYITSGKNNMIRSYIVARRKDQTARSVIGPDTFITINEVGVPAYIRNTLTEKIFVNP 317
Query: 362 FNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDGD 420
F ++ ++K+ + K+ Y + RI + +N M+ W VE L +
Sbjct: 318 FTLKTVQKLFTDNHIKF----YFNKRLNQLTRIKQGKFIKNKIHMLSGDW-VEVALKENT 372
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
++F RQPSLHR +++A V+ T ++ + NADFDGDE + + Q +A E
Sbjct: 373 SIIFGRQPSLHRYNVIASTVKYTEGDTIKIPPGIANSQNADFDGDEEWMILEQNPKAVIE 432
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
ILM + +G P+ G IQD I Y L R T +EV +L G++
Sbjct: 433 QSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFRMDD-LTLDEVMNLLGKYGIEFN-- 489
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
GK +SGK I++ L+ EK+ ++ D +
Sbjct: 490 ------ARGKTKFSGKDIYTFLIG---------------------EKVNYPGILKDGTVI 522
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE---RARQFLDQVTKLT 657
FV L+ G+I D GV ++ + ++
Sbjct: 523 APNISSDFVVAMRHMSLA------------GLIADYTSNVEGVNFIIKSSYVFKRYLEIY 570
Query: 658 IWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEET 717
+ +T K D + E E+I++A +R + G++ PL +
Sbjct: 571 GFGVTFKELRPSSDFTNKLEAVNTEKIELIKDAYDR---YLRDVLEGKILPLSKSMEADA 627
Query: 718 LESKIMAVLAEARDNAGSIAEKYL--GMDNHTVIMAKTGARGKILNITQMAALLGQQSIR 775
+ES + + +K L DN+ + MAK G + + + GQQ I
Sbjct: 628 IESSLSNLTNLNIKEIEEYMKKTLQDNPDNNLLKMAKAGYKVNPTELMYILGTYGQQRID 687
Query: 776 GKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRT 835
G+ + GRVL ++ P +G+++NS GL+ +Y+F + R D T
Sbjct: 688 GEPVETKVMGRVLPYYLPDSKDPEGRGYILNSLTQGLTGSQYYFSMLVARSQSTDIVCET 747
Query: 836 AQSGYMQRRLINALQDLKVDYDGTV 860
+++G + R++I ++D+ VD G V
Sbjct: 748 SRTGTLARKIIKKMEDMVVDGYGQV 772
>dbj|BAA88785.1| (AB015885) similar to vaccinia J6R [Yaba monkey tumor virus]
Length = 1285
Score = 204 bits (513), Expect = 4e-51
Identities = 221/868 (25%), Positives = 377/868 (42%), Gaps = 112/868 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + + +EI +A +V + +DD G V D R+G +D G C+TC
Sbjct: 3 VISKVTYSLYNQEEI---NATDVLINHVKNDDDI---GTVKDGRLGAMD-GALCKTCEKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
+C GH+G + L ++ + + RIL C CG ++ E YM+ +
Sbjct: 56 ELQCFGHWGKVRLYETHIVKPEYIGEVVRILNHICIRCGFLRSR----EPYMEDIT---- 107
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
R +N + K K ++ C C P I F K + + + DE +P
Sbjct: 108 -RMPLNSLKKLKDKILSKKKSCWNSKCMQPYQKITFSKKKVCFINKSDEI-------TIP 159
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVL-TVLPVPPVTARPSIT--LETGIRAED 239
I ++ I + PLL ++ +PE + PVPP+ RP+I+ +++ + +
Sbjct: 160 NALIYQKVTSIYKRFWPLLEIY---QKPENLFYKNFFPVPPLIIRPAISFWIDSIPKETN 216
Query: 240 DLTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGR 299
+LT+ L I++ N A + +I+ +++Y I+N T+ +
Sbjct: 217 ELTYLLGMIVKYCNM-------NAEEQVIQKA--VIEYDDIKIISNNTTSI--------- 258
Query: 300 PLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKV 359
L+ GK R + +R + +AR+VI PD ++INEVGVP I LT V
Sbjct: 259 ---NLSYITSGKNNMIRSYIVARRKDQTARSVIGPDTSLTINEVGVPEYIRNTLTEKIFV 315
Query: 360 TEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLD 418
F ++ ++KM N K+ Y + RI +N M+ W VE L +
Sbjct: 316 NPFTVKYVKKMFTNNEIKF----YFNKRLNQLTRIKPGKFIKNKIHMLPGDW-VEVSLRE 370
Query: 419 GDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQ 478
++F RQPSLHR +++A V+ T ++ + NADFDGDE + + Q +A
Sbjct: 371 NSSIIFGRQPSLHRYNVIASTVKYTEGDTIKIPPGIANSQNADFDGDEEWMILEQNPKAI 430
Query: 479 AEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIK 538
E ILM + +G P+ G IQD I Y L + T +EV +L G++
Sbjct: 431 IEQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFKI-KNLTLDEVMNLLGKYGLNFN 489
Query: 539 ELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPE 598
NGK +++GK I+S L+ DD+ Y N + D K+I E + D
Sbjct: 490 --------PNGKKIFNGKDIYSYLINDDVN--YPNIIND--------GKIIAEDVSSD-- 529
Query: 599 EVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTI 658
FV L+G I E ++ I++ V ++FL+ +
Sbjct: 530 ---------FVVAMRHSSLAGLISDYRSNVEG---VNFIIKSSYV--FKRFLE----IYG 571
Query: 659 WVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETL 718
+ +T + D + E E+I++A + IE K + PL + +
Sbjct: 572 FGVTFRDLRPNSDFTNKLEAINAEKIELIKDAYTKYLNDIETNK---ILPLSKSIEMDAI 628
Query: 719 ESKIMAVLAEARDNAGSIAEKYL------GMDNHTVIMAKTGARGKILNITQMAALLGQQ 772
ES +L+ + E+Y+ N+ + MAK+G + + + GQQ
Sbjct: 629 ES----MLSNLTNLNIKEIEEYMQQTLQENPQNNLLKMAKSGYKVNPTELMYILGTYGQQ 684
Query: 773 SIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTA 832
I G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 685 RIDGEPAEPKVLGRVLPYYLPDSKDPEGRGYILNSLTQGLTGSQYYFSMLVARSQSTDIV 744
Query: 833 VRTAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 745 CETSRTGTLARKIIKKMEDMVVDGYGQV 772
>gi|9633704 m68R [Myxoma virus] >gi|6523923|gb|AAF14956.1|AF170726_72
(AF170726) m68R [Myxoma virus]
Length = 1286
Score = 203 bits (512), Expect = 6e-51
Identities = 211/865 (24%), Positives = 363/865 (41%), Gaps = 106/865 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + + +EI +A +V + +DD G V D R+G +D G C+TC
Sbjct: 3 VISKVTYSLYNQEEI---NATDVFINHVKNDDDV---GTVKDGRLGAMD-GALCKTCEKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
+C GH+G + L ++ + + RI+ C CG ++ + +E+ K
Sbjct: 56 ELQCFGHWGKVRLYETHIVKPEYISEVIRIMNHLCIRCGFLRSREPYLEDVTKM------ 109
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
S K LK+ ++ C P I F K + + + DE ++P
Sbjct: 110 -SSHALKKLKDKILSKKKSCWNSKCMQPYQKITFSKKKVCFVNKSDEV-------IVPNA 161
Query: 186 -IRDRLEKIPDKDLPLLGLHPEKSRPEWMVL-TVLPVPPVTARPSIT--LETGIRAEDDL 241
I ++ I + PLL +H +PE + PVPP+ RP+I+ +++ + ++L
Sbjct: 162 LIYQKITSIYRRFWPLLEIH---QKPENLFYKNFFPVPPLIIRPAISFWIDSIPKETNEL 218
Query: 242 THKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPL 301
T+ L I++ N A + +I+ +++Y I+N T+ +
Sbjct: 219 TYLLGMIVKYCNM-------NADEQVIQKA--VIEYDDIKIISNNTTSI----------- 258
Query: 302 KTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTE 361
L+ GK R + +R + +AR+VI PD I+INEVGVP I LT V
Sbjct: 259 -NLSYITSGKNNMIRSYIVARRKDQTARSVIGPDTFITINEVGVPAYIRNTLTEKIFVNP 317
Query: 362 FNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDGD 420
F ++ ++K+ + K+ Y + RI + +N M+ W VE L +
Sbjct: 318 FTLKTVQKLFTDNHIKF----YFNKRLNQLTRIKQGKFIKNKIHMLSGDW-VEVALKENT 372
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
++F RQPSLHR +++A V+ T ++ + NADFDGDE + + Q +A E
Sbjct: 373 SIIFGRQPSLHRYNVIASTVKYTEGDTIKIPPGIANSQNADFDGDEEWMILEQNPKAVIE 432
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKEL 540
ILM + +G P+ G IQD I Y L R T +EV +L G++
Sbjct: 433 QSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFRM-EDLTLDEVMNLLGKYGIEFD-- 489
Query: 541 PEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEV 600
GK +SGK I++ L+ EK+ ++ D +
Sbjct: 490 ------ARGKTKFSGKDIYTFLIG---------------------EKVNYPGILKDGTVI 522
Query: 601 RKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVE---RARQFLDQVTKLT 657
FV L+ G+I D GV ++ + ++
Sbjct: 523 APNVSSDFVVAMRHMSLA------------GLIADYTSNVEGVNFIIKSSYVFKRYLEIY 570
Query: 658 IWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEET 717
+ +T K D + E E+I+ A ER + + G++ PL +
Sbjct: 571 GFGVTFKELRPSSDFTNKLEAVNTEKIELIKAAYER---YLCDVREGKILPLSKSMEADA 627
Query: 718 LESKIMAVLAEARDNAGSIAEKYL--GMDNHTVIMAKTGARGKILNITQMAALLGQQSIR 775
+ES + + +K L DN+ + MAK G + + + GQQ I
Sbjct: 628 IESSLSNLTNLNIKEIEEYMKKTLQDNPDNNLLKMAKAGYKVNPTELMYILGTYGQQRID 687
Query: 776 GKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRT 835
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D T
Sbjct: 688 GEPAETKVMGRVLPYYLPDSKDPEGRGYILNSLTQGLTGSQYYFSMLVARSQSTDIVCET 747
Query: 836 AQSGYMQRRLINALQDLKVDYDGTV 860
+++G + R++I ++D+ VD G V
Sbjct: 748 SRTGTLARKIIKKMEDMVVDGYGQV 772
>gi|11467689 RNA polymerase b'-chain [Guillardia theta]
>gi|6094126|sp|O78484|RPOC_GUITH DNA-DIRECTED RNA
POLYMERASE BETA' CHAIN >gi|3603014|gb|AAC35675.1|
(AF041468) RNA polymerase b'-chain [Guillardia theta]
Length = 623
Score = 203 bits (510), Expect = 1e-50
Identities = 187/658 (28%), Positives = 287/658 (43%), Gaps = 104/658 (15%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMS---------AVEVTVPDTY-------DDDGYPIE- 43
M +++ ++ + SPQ I+K EVT P+T + DG E
Sbjct: 1 MSKLEQYFDYVKINLASPQRIKKWGERRLPNGQVVGEVTKPETINYRTLKPEMDGLFCER 60
Query: 44 --GGVMD------KRMGVIDPGLRCETCGAKAGECP---GHFGHIELARPVIHVGFAKTI 92
G V D K V G+ CE CG + E G+IELA PV HV + K++
Sbjct: 61 IFGPVKDWECHCGKYKRVRYKGIVCERCGVEVAESKVRRHRMGYIELAAPVTHVWYLKSL 120
Query: 93 HRILESTCRECGRIKLTDEEIEEYMKKLELAKNRRS---EVNKILKEIHKKARERMVCPH 149
+ I L D E Y + K ++L E A E +
Sbjct: 121 PSYISILLD----IPLKDVEQVVYFNSYVVTKPGNCTNLRYKQLLSEDEWIAIEDQL--- 173
Query: 150 CGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKS- 208
+++ + + + + ++ E + ++ L + G+ +KS
Sbjct: 174 ---------YQEDSELTGVEVGIGAEAIQKLLRDIDLEVEAESLREEILVVKGIKKDKSI 224
Query: 209 --------------RPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNR 254
P WM+LTVLPV P RP + L+ G A DL ++ NNR
Sbjct: 225 KRLRVIDNFIATRSDPTWMILTVLPVIPPDLRPMVQLDGGRFATSDLNDLYRRVLNRNNR 284
Query: 255 LKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGR 314
L + E AP++II + +LQ V I+N G + RPLK+L+ ++GK+GR
Sbjct: 285 LIRLQEILAPEIIIRNEKRMLQESVDALIDNGRRG-RTVMGANNRPLKSLSDIIEGKQGR 343
Query: 315 FRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNG 374
FR NL GKRV++S R+VI P + +N+ G+P ++A+EL P F I KL + L
Sbjct: 344 FRQNLLGKRVDYSGRSVIVVGPQLELNQCGLPREMALELFQP-----FVIHKLIQQGLVN 398
Query: 375 PDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMS 434
K R+++ N I W V ++ G +L NR P+LHR+
Sbjct: 399 NIKAAK------------RLIQKNEL-------IVWNVLEEVIQGHPILLNRAPTLHRLG 439
Query: 435 IMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISP 494
I A ++ R +L+ VCP +NADFDGD+M +H+P + EAQAEAR+LM + +SP
Sbjct: 440 IQAFEPILVEGRAIKLHPLVCPAFNADFDGDQMAVHIPLSLEAQAEARMLMLAPYNFLSP 499
Query: 495 RYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKELPEPDKYENGKPLWS 554
G PII QD + G Y LT E ++V + L F+ D L K
Sbjct: 500 ATGDPIIMPSQDMVLGCYYLTAEN---PSQQVNRSLYFSNFDDVLLAYETKL-------- 548
Query: 555 GKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQ 612
+ L + V + + D+ E+ E + +KL P ++KL D + +Q
Sbjct: 549 ------IKLHSYVWVRFNGNVDDDDEKIEEKKLDGNKKLHIYPSRIKKLDQDNNLMVQ 600
>sp|P07392|RPO1_VACCV DNA-DIRECTED RNA POLYMERASE 147 KD POLYPEPTIDE
>gi|66979|pir||RNVZ47 DNA-directed RNA polymerase (EC
2.7.7.6) 147K chain - vaccinia virus
>gi|335741|gb|AAB59835.1| (M13209) RNA polymerase 47 kDa
subunit [Vaccinia virus]
Length = 1287
Score = 197 bits (495), Expect = 6e-49
Identities = 206/866 (23%), Positives = 364/866 (41%), Gaps = 106/866 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + +EI +A ++ + +DD G V D R+G +D G C+TCG
Sbjct: 3 VISKVTYSLYDQKEI---NATDIIISHVKNDDDI---GTVKDGRLGAMD-GALCKTCGKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + + ++ F I R+L C CG ++ E Y + L +
Sbjct: 56 ELECFGHWGKVSIYKTHIVKPEFISEIIRLLNHICIHCGLLRSR----EPYSDDINLKEL 111
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +I K + C C P I F K + + + D+ +P
Sbjct: 112 SGHALRRLKDKILSKKKS---CWNSECMQPYQKITFSKKKVCFVNKLDDIN-------VP 161
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
I +L I +K PLL +H + P+PP+ RP+I+ +++ + ++
Sbjct: 162 NSLIYQKLISIHEKFWPLLEIHQYPAN--LFYTDYFPIPPLIIRPAISFWIDSIPKETNE 219
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A + +I+ +++Y I+N TS +
Sbjct: 220 LTYLLGMIVK-------NCNLNADEQVIQKA--VIEYDDIKIISNNTSSI---------- 260
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+VI P I++NEVG+P I LT V
Sbjct: 261 --NLSYITSGKNNMIRSYIVARRKDQTARSVIGPSTSITVNEVGMPAYIRNTLTEKIFVN 318
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDG 419
F ++K+++++ + K+ Y + RI + +N ++ W VE + +
Sbjct: 319 AFTVDKVKQLLASNQVKF----YFNKRLNQLTRIRQGKFIKNKIHLLPGDW-VEVAVQEY 373
Query: 420 DIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQA 479
++F RQPSLHR +++A +R T +++ + NADFDGDE + + Q +A
Sbjct: 374 TSIIFGRQPSLHRYNVIASSIRATEGDTIKISPGIANSQNADFDGDEEWMILEQNPKAVI 433
Query: 480 EARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKE 539
E ILM + +G P+ G IQD I Y L R ++ + + ++I
Sbjct: 434 EQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFR---------IQDLCLDEVLNILG 484
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEE 599
+ GK +SGK I++ L+ EK+ L+ D E
Sbjct: 485 KYGREFDPKGKCKFSGKDIYTYLIG---------------------EKINYPGLLKDGEI 523
Query: 600 VRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIW 659
+ FV L+G + E ++ I++ V + + +
Sbjct: 524 IANDVDSNFVVAMRHLSLAGLLSDHKSNVEG---INFIIKSSYV------FKRYLSIYGF 574
Query: 660 VITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLE 719
+T K + E E+I+EA K + + G++ PL K LE
Sbjct: 575 GVTFKDLRPNSTFTNKLEAINVEKIELIKEA---YAKYLNDVRDGKIVPL-SKALEADYV 630
Query: 720 SKIMAVLAEARDNAGSIAEKYL-----GMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ L N I E DN+ + MAK G + + + GQQ I
Sbjct: 631 ESMLSNLTNL--NIREIEEHMRQTLIDDPDNNLLKMAKAGYKVNPTELMYILGTYGQQRI 688
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 689 DGEPAETRVLGRVLPYYLPDSKDPEGRGYILNSLTKGLTGSQYYFSMLVARSQSTDIVCE 748
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 749 TSRTGTLARKIIKKMEDMVVDGYGQV 774
>pir||T37366 RNA polymerase subunit rpo147 - vaccinia virus (strain Ankara)
>gi|2772767|gb|AAB96506.1| (U94848) RNA polymerase
subunit rpo147 [Vaccinia virus]
Length = 1286
Score = 196 bits (493), Expect = 1e-48
Identities = 206/866 (23%), Positives = 364/866 (41%), Gaps = 106/866 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + +EI +A ++ + +DD G V D R+G +D G C+TCG
Sbjct: 3 VISKVTYSLYDQKEI---NATDIIISHVKNDDDI---GTVKDGRLGAMD-GALCKTCGKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + + ++ F I R+L C CG ++ E Y + L +
Sbjct: 56 ELECFGHWGKVSIYKTHIVKPEFISEIIRLLNYICIHCGLLRSR----EPYSDDINLKEL 111
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +I K + C C P I F K + + + D+ +P
Sbjct: 112 SGHALRRLKDKILSKKKS---CWNSECMQPYQKITFSKKKVCFVNKLDDIN-------VP 161
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
I +L I +K PLL +H + P+PP+ RP+I+ +++ + ++
Sbjct: 162 NSLIYQKLISIHEKFWPLLEIHQYPAN--LFYTDYFPIPPLIIRPAISFWIDSIPKETNE 219
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A + +I+ +++Y I+N TS +
Sbjct: 220 LTYLLGMIVK-------NCNLNADEQVIQKA--VIEYDDIKIISNNTSSI---------- 260
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+VI P I++NEVG+P I LT V
Sbjct: 261 --NLSYITSGKNNMIRSYIVARRKDQTARSVIGPSTSITVNEVGMPAYIRNTLTEKIFVN 318
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDG 419
F ++K+++++ + K+ Y + RI + +N ++ W VE + +
Sbjct: 319 AFTVDKVKQLLASNQVKF----YFNKRLNQLTRIRQGKFIKNKIHLLPGDW-VEVAVQEY 373
Query: 420 DIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQA 479
++F RQPSLHR +++A +R T +++ + NADFDGDE + + Q +A
Sbjct: 374 TSIIFGRQPSLHRYNVIASSIRATEGDTIKISPGIVNSQNADFDGDEEWMILEQNPKAVI 433
Query: 480 EARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKE 539
E ILM + +G P+ G IQD I Y L R ++ + + ++I
Sbjct: 434 EQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFR---------IQDLCLDEVLNILG 484
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEE 599
+ GK +SGK I++ L+ EK+ L+ D E
Sbjct: 485 KYGREFDPKGKCKFSGKDIYTYLIG---------------------EKINYPGLLKDGEI 523
Query: 600 VRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIW 659
+ FV L+G + E ++ I++ V + + +
Sbjct: 524 IANDVDSNFVVAMRHLSLAGLLSDHKSNVEG---INFIIKSSYV------FKRYLSIYGF 574
Query: 660 VITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLE 719
+T K + E E+I+EA K + + G++ PL K LE
Sbjct: 575 GVTFKDLRPNSTFTNKLEAINVEKIELIKEA---YAKYLNDVRDGKIVPL-SKALEADYV 630
Query: 720 SKIMAVLAEARDNAGSIAEKYL-----GMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ L N I E DN+ + MAK G + + + GQQ I
Sbjct: 631 ESMLSNLTNL--NIREIEEHMRQTLIDDPDNNLLKMAKAGYKVNPTELMYILGTYGQQRI 688
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 689 DGEPAETRVLGRVLPYYLPDSKDPEGRGYILNSLTKGLTGSQYYFSMLVARSQSTDIVCE 748
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 749 TSRTGTLARKIIKKMEDMVVDGYGQV 774
>gi|9791022 J6R; putative [Vaccinia virus] >gi|133379|sp|P20504|RPO1_VACCC
DNA-DIRECTED RNA POLYMERASE 147 KD POLYPEPTIDE
>gi|335434|gb|AAA48086.1| (M35027) J6R; putative
[Vaccinia virus]
Length = 1286
Score = 196 bits (492), Expect = 1e-48
Identities = 206/866 (23%), Positives = 363/866 (41%), Gaps = 106/866 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + +EI +A ++ + +DD G V D R+G +D G C+TCG
Sbjct: 3 VISKVTYSLYDQKEI---NATDIIISHVKNDDDI---GTVKDGRLGAMD-GALCKTCGKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + + ++ F I R+L C CG ++ E Y + L +
Sbjct: 56 ELECFGHWGKVSIYKTHIVKPEFISEIIRLLNHICIHCGLLRSR----EPYSDDINLKEL 111
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +I K + C C P I F K + + + D+ +P
Sbjct: 112 SGHALRRLKDKILSKKKS---CWNSECMQPYQKITFSKKKVCFVNKLDDIN-------VP 161
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
I +L I +K PLL +H + P+PP+ RP+I+ +++ + ++
Sbjct: 162 NSLIYQKLISIHEKFWPLLEIHQYPAN--LFYTDYFPIPPLIIRPAISFWIDSIPKETNE 219
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A + +I+ +++Y I+N TS +
Sbjct: 220 LTYLLGMIVK-------NCNLNADEQVIQKA--VIEYDDIKIISNNTSSI---------- 260
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+VI P I++NEVG+P I LT V
Sbjct: 261 --NLSYITSGKNNMIRSYIVARRKDQTARSVIGPSTSITVNEVGMPAYIRNTLTEKIFVN 318
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDG 419
F ++K+++++ + K+ Y + RI + +N ++ W VE + +
Sbjct: 319 AFTVDKVKQLLASNQVKF----YFNKRLNQLTRIRQGKFIKNKIHLLPGDW-VEVAVQEY 373
Query: 420 DIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQA 479
++F RQPSLHR +++A +R T +++ + NADFDGDE + + Q +A
Sbjct: 374 TSIIFGRQPSLHRYNVIASSIRATEGDTIKISPGIANSQNADFDGDEEWMILEQNPKAVI 433
Query: 480 EARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKE 539
E ILM + +G P+ G IQD I Y L R ++ + + ++I
Sbjct: 434 EQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFR---------IQDLCLDEVLNILG 484
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEE 599
GK +SGK I++ L+ EK+ L+ D E
Sbjct: 485 KYGRKFDPKGKCKFSGKDIYTYLIG---------------------EKINYPGLLKDGEI 523
Query: 600 VRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIW 659
+ FV L+G + E ++ I++ V + + +
Sbjct: 524 IANDVDSNFVVAMRHLSLAGLLSDHKSNVEG---INFIIKSSYV------FKRYLSIYGF 574
Query: 660 VITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLE 719
+T K + E E+I+EA K + + G++ PL K LE
Sbjct: 575 GVTFKDLRPNSTFTNKLEAINVEKIELIKEA---YAKYLNDVRDGKIVPL-SKALEADYV 630
Query: 720 SKIMAVLAEARDNAGSIAEKYL-----GMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ L N I E DN+ + MAK G + + + GQQ I
Sbjct: 631 ESMLSNLTNL--NIREIEEHMRQTLIDDPDNNLLKMAKAGYKVNPTELMYILGTYGQQRI 688
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 689 DGEPAETRVLGRVLPYYLPDSKDPEGRGYILNSLTKGLTGSQYYFSMLVARSQSTDIVCE 748
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 749 TSRTGTLARKIIKKMEDMVVDGYGQV 774
>gi|9633278 M6R protein [variola minor virus] >gi|7519933|pir||A72161 M6R
protein - variola minor virus (strain Garcia-1966)
>gi|5830644|emb|CAB54683.1| (Y16780) M6R protein
[variola minor virus]
Length = 1286
Score = 195 bits (491), Expect = 2e-48
Identities = 204/866 (23%), Positives = 364/866 (41%), Gaps = 106/866 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + +EI +A ++ + +DD G V D R+G +D G C+TCG
Sbjct: 3 VISKVTYSLYDQKEI---NATDIIISHVKNDDDI---GTVKDGRLGAMD-GALCKTCGKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + + ++ F I R+L C CG ++ E Y + L +
Sbjct: 56 ELECFGHWGKVSIYKTHIVKPEFISEIIRLLNHICIHCGLLRSR----EPYSNDINLKEL 111
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +I K + C C P I F K + + + D+ +P
Sbjct: 112 SGHALRRLKDKILSKKKS---CWNSECMQPYQKISFSKKKVCFVNKLDDIN-------VP 161
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
I +L I +K PLL +H + P+PP+ RP+I+ +++ + ++
Sbjct: 162 NSLIYQKLISIHEKFWPLLEIHQYPAN--LFYTDYFPIPPLIIRPAISFWIDSIPKETNE 219
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A + +I+ +++Y I+N T+ +
Sbjct: 220 LTYLLGMIVK-------NCNLNADEQVIQKA--VIEYDDIKIISNNTTSI---------- 260
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+VI P I++NEVG+P I LT V
Sbjct: 261 --NLSYITSGKNNMIRSYIVARRKDQTARSVIGPSTSITVNEVGMPAYIRNTLTEKIFVN 318
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDG 419
F + K+++++ + K+ Y + RI + +N ++ W VE + +
Sbjct: 319 AFTVNKVKQLLASNQVKF----YFNKRLNQLTRIRQGKFIKNKIHLLPGDW-VEVAVQEY 373
Query: 420 DIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQA 479
++F RQPSLHR +++A +R T +++ + NADFDGDE + + Q +A
Sbjct: 374 TSIIFGRQPSLHRYNVIASSIRATEGDTIKISPGIANSQNADFDGDEEWMILEQNPKAVV 433
Query: 480 EARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKE 539
E ILM + +G P+ G IQD I Y L R ++ + + ++I
Sbjct: 434 EQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFR---------IQDLCLDEVLNILG 484
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEE 599
+ GK +SGK I++ L+ EK+ L+ D +
Sbjct: 485 KYGREFDPKGKCKFSGKDIYTYLIG---------------------EKINYPGLLKDGKI 523
Query: 600 VRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIW 659
+ FV L+G + E ++ I++ V + + +
Sbjct: 524 IANDVDSNFVVAMRHLSLAGLLSDHKSNVEG---INFIIKSSYV------FKRYLSIYGF 574
Query: 660 VITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLE 719
+T K + E E+I+EA K ++ + G++ PL K LE
Sbjct: 575 GVTFKDLRPNSTFTNKLEAINVEKIELIKEA---YAKYLKDVRDGKIVPL-SKALEADYV 630
Query: 720 SKIMAVLAEARDNAGSIAEKYL-----GMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ L N I E DN+ + MAK G + + + GQQ I
Sbjct: 631 ESMLSNLTNL--NIREIEEHMRQTLIDNPDNNLLKMAKAGYKVNPTELMYILGTYGQQRI 688
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 689 DGEPAETRVLGRVLPYYLPDSKDPEGRGYILNSLTKGLTGSQYYFSMLVARSQSTDIVCE 748
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 749 TSRTGTLARKIIKKMEDMVVDGYGQV 774
>gi|9627604 L6R [Variola virus] >gi|417701|sp|P33053|RPO1_VARV DNA-DIRECTED RNA
POLYMERASE 147 KD POLYPEPTIDE >gi|419361|pir||H36845
DNA-directed RNA polymerase (EC 2.7.7.6) chain J6R -
variola virus >gi|7434737|pir||T28521 DNA-directed RNA
polymerase (EC 2.7.7.6) 147K chain - variola major virus
>gi|62359|emb|CAA47582.1| (X67119) RNA polymerase
subunit [Variola virus] >gi|262442|gb|AAB24679.1|
(S55844) RNA polymerase large subunit [Variola major
virus] >gi|297263|emb|CAA49024.1| (X69198) L6R [Variola
virus] >gi|473688|gb|AAA60831.1| (L22579) homolog of
vaccinia virus CDS J6R (RNA polymerase, 147 kDa
subunit); putative [Variola major virus]
>gi|745201|prf||2015436CT L6R gene [Variola major virus]
Length = 1286
Score = 194 bits (489), Expect = 3e-48
Identities = 204/866 (23%), Positives = 364/866 (41%), Gaps = 106/866 (12%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + +EI +A ++ + +DD G V D R+G +D G C+TCG
Sbjct: 3 VISKVTYSLYDQKEI---NATDIIISHVKNDDDI---GTVKDGRLGAMD-GALCKTCGKT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + + ++ F I R+L C CG ++ E Y + L +
Sbjct: 56 ELECFGHWGKVSIYKTHIVKPEFISEIIRLLNHICIHCGLLRSR----EPYSNDINLKEL 111
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
+ ++ +I K + C C P I F K + + + D+ +P
Sbjct: 112 SGHALRRLKDKILSKKKS---CWNSECMQPYQKISFSKKKVCFVNKLDDIN-------VP 161
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
I +L I +K PLL ++ + P+PP+ RP+I+ +++ + ++
Sbjct: 162 NSLIYQKLISIHEKFWPLLEIYQYPAN--LFYTDYFPIPPLIIRPAISFWIDSIPKETNE 219
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A + +I+ +++Y I+N T+ +
Sbjct: 220 LTYLLGMIVK-------NCNLNADEQVIQKA--VIEYDDIKIISNNTTSI---------- 260
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+VI P I++NEVG+P I LT V
Sbjct: 261 --NLSYITSGKNNMIRSYIVARRKDQTARSVIGPSTSITVNEVGMPAYIRNTLTEKIFVN 318
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDG 419
F + K+++++ + K+ Y + RI + +N ++ W VE + +
Sbjct: 319 AFTVNKVKQLLASNQVKF----YFNKRLNQLTRIRQGKFIKNKIHLLPGDW-VEVAVQEY 373
Query: 420 DIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQA 479
++F RQPSLHR +++A +R T +++ + NADFDGDE + + Q +A
Sbjct: 374 TSIIFGRQPSLHRYNVIASSIRATEGDTIKISPGIANSQNADFDGDEEWMILEQNPKAVV 433
Query: 480 EARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVDIKE 539
E ILM + +G P+ G IQD I Y L R ++ + + ++I
Sbjct: 434 EQSILMYPTTLLKHDIHGAPVYGSIQDEIVAAYSLFR---------IQDLCLDEVLNILG 484
Query: 540 LPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEE 599
+ GK +SGK I++ L+ EK+ L+ D E
Sbjct: 485 KYGREFDPKGKCKFSGKDIYTYLIG---------------------EKINYPGLLKDGEI 523
Query: 600 VRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIW 659
+ FV L+G + E ++ I++ V + + +
Sbjct: 524 IANDVDSNFVVAMRHLSLAGLLSDHKSNVEG---INFIIKSSYV------FKRYLSIYGF 574
Query: 660 VITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPLPGKTLEETLE 719
+T K + E E+I+EA K ++ + G++ PL K LE
Sbjct: 575 GVTFKDLRPNSTFTNKLEAINVEKIELIKEA---YAKYLKDVRDGKIVPL-SKALEADYV 630
Query: 720 SKIMAVLAEARDNAGSIAEKYL-----GMDNHTVIMAKTGARGKILNITQMAALLGQQSI 774
+++ L N I E DN+ + MAK G + + + GQQ I
Sbjct: 631 ESMLSNLTNL--NIREIEEHMRQTLIDNPDNNLLKMAKAGYKVNPTELMYILGTYGQQRI 688
Query: 775 RGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVR 834
G+ GRVL ++ P +G+++NS GL+ +Y+F + R D
Sbjct: 689 DGEPAETRVLGRVLPYYLPDSKDPEGRGYILNSLTKGLTGSQYYFSMLVARSQSTDIVCE 748
Query: 835 TAQSGYMQRRLINALQDLKVDYDGTV 860
T+++G + R++I ++D+ VD G V
Sbjct: 749 TSRTGTLARKIIKKMEDMVVDGYGQV 774
>gi|11466501 RNA polymerase subunit beta' [Reclinomonas americana]
>gi|7434735|pir||S78132 DNA-directed RNA polymerase (EC
2.7.7.6) beta' chain - Reclinomonas americana (ATCC
50394) mitochondrion >gi|2258331|gb|AAD11865.1|
(AF007261) RNA polymerase subunit beta' [Reclinomonas
americana]
Length = 1384
Score = 190 bits (478), Expect = 6e-47
Identities = 224/916 (24%), Positives = 389/916 (42%), Gaps = 216/916 (23%)
Query: 11 IEFGILSPQEIRKMSAVEVTVPDTYDDDGY-PIEGGVMDKRMGVIDPG------------ 57
I+ + P++I K S+ EV T + Y P +GG+ ++ +
Sbjct: 34 IKLSLFDPEQILKKSSGEVCTSKTLNSKTYEPEDGGLFCNKIFKTNSKNNYICNVCSYRQ 93
Query: 58 ---LRCETCGA-----KAGECPGHFGHIELARPVIHVGFAKT--IHRILEST-----CRE 102
RC CG+ K+ GHIEL P+ H +T IHR+ +E
Sbjct: 94 SKPYRCLRCGSNTKLDKSNIQNLSMGHIELISPIPHPWLLRTKIIHRLAVGLNNIYDYKE 153
Query: 103 CGRIKLTDEE-IEEYMKKLELAKNRRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEK 161
+I LTD E I Y ++++L + N ++ + K ++ + I +K
Sbjct: 154 IDKILLTDPETIYNYFEQMDLLDVYFNLRNYLINDFIIKKNKKNI--------NNINIDK 205
Query: 162 PTIYWELRKDEQGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVP 221
IY+ ++K K R++ T IR K RPEW L +PV
Sbjct: 206 NIIYYAIKK-------KIRIITTLIR------------------LKQRPEWFFLKRIPVL 240
Query: 222 PVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAGAPQLI--IEDLWDL----- 274
T RP + L+ + D+ +II NN LK+ ++ + + I I L+
Sbjct: 241 SPTYRPLMKLDDKLFVASDINFLYQNIIERNNILKELLKRYSLEKIDRISSLFTEIIDEV 300
Query: 275 ------------LQYHVTTYINNE-TSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSG 321
LQ VTT +++ G+ K+KS L +RL GK+GRFR ++ G
Sbjct: 301 KKDNPIIKGKINLQKAVTTLMDSSFIKGIITFKNKS------LIKRLSGKKGRFRKDILG 354
Query: 322 KRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGA 381
KR+NFS RTVI+ P + +N+ G+PI++ +EL P F I K+R +
Sbjct: 355 KRINFSGRTVITSGPRLHLNQCGLPIELVLELFKP-----FIILKMRDL----------- 398
Query: 382 NYVIDPEGRRIRIMESNRENLARM--IDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHR 439
N + ++ + ++ L I++ + + ++ VL NR P+LHRM+I
Sbjct: 399 NICSQTSLKNLKTYDDFKQILFNKFTINLVFKLINSIISKHPVLLNRAPTLHRMNIQTFS 458
Query: 440 VRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGP 499
++ + +L+ VC +NADFDGD M +++P T +Q E+R+LM +IISP P
Sbjct: 459 PLLIYTKAIQLHPLVCSSFNADFDGDTMAIYIPHTLRSQIESRVLMMSSTNIISPSTQEP 518
Query: 500 IIGGIQDHISGGYLLT-------REG-AYFTREEVEQMLMFAGVDIKELPEPDKYENGKP 551
II QD + G Y T EG Y E++ + F +D L P ++ K
Sbjct: 519 IISPTQDIVFGLYYATVMYQGSIGEGRLYGDVNEIKNAINFLELD---LHSPISFKLDKD 575
Query: 552 ----LWSGKTIFSLLLPD--DLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAY 605
SG+ + LL + ++ Y NK+ D+ E + K++ + + K ++
Sbjct: 576 NVVLTTSGRILLYYLLLEFVNIDFKYVNKVFDKKEIVSLI------KMISNLNNLNKTSF 629
Query: 606 DGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKG 665
LDQ+ + G
Sbjct: 630 -------------------------------------------ILDQIMSFGFYYAYKAG 646
Query: 666 FTTGIDDEDLPEEARDRIKEI-IREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMA 724
+ +D + P +KE+ + + +++V+ ++ + RG + +++ K
Sbjct: 647 ISLHKNDINTP-----NLKELFVYKTKKKVEDDLKNFSRGII----------SIDEKSKR 691
Query: 725 VLAEARDNAGSIAEKYLGMDNHTV--------IMAKTGARGKILNITQMAALLGQQSIRG 776
+L E + +A + L +TV ++ +GARG ++ + Q+
Sbjct: 692 LLNEWSKCSSILANQILKDVIYTVPNRKSSIYMLINSGARGSMVQMRQLC---------- 741
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
G RG ++ KP G + +++++K GLS +YF G R+G++DT+++TA
Sbjct: 742 -----GIRGLMI---KPS--GDILEIPIISNFKEGLSVVDYFNSTHGARKGVIDTSLKTA 791
Query: 837 QSGYMQRRLINALQDL 852
SGY+ R+L A +DL
Sbjct: 792 ASGYLTRKLFYAAKDL 807
>gi|9634807 ORF FPV137 RNA polymerase subunit, RPO147 [Fowlpox virus]
>gi|7271635|gb|AAF44481.1|AF198100_128 (AF198100) ORF
FPV137 RNA polymerase subunit, RPO147 [Fowlpox virus]
Length = 1287
Score = 185 bits (466), Expect = 1e-45
Identities = 202/874 (23%), Positives = 369/874 (42%), Gaps = 121/874 (13%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + S EI +A ++ + DDD G V D R+G D G+ C TC
Sbjct: 3 VISKVSYSLYSQNEI---NATDININYVKDDDEV---GTVKDSRLGATD-GVLCRTCNRT 55
Query: 67 AGECPGHFGHIELARPVI-HVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + + +I + + RIL C CG ++ E Y + ++
Sbjct: 56 ELECFGHWGKVRIYENIIIKPEYISEVIRILGHICLTCGLLRSR----EPYT--VNISSL 109
Query: 126 RRSEVNKILKEIHKKARERMVC--PHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMP 183
E+ K+ +I K + C C P + F K + + DE +P
Sbjct: 110 TSGELKKLKDKISSKKKS---CWNSRCMQPYQKVNFSKKKVCLVNKTDEF-------CVP 159
Query: 184 TE-IRDRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDD 240
+ +++ I K P+L +H + + + +PP+ RP I+ ++ + ++
Sbjct: 160 NALVYEKITSIHHKFWPVLDIHQDPATLFYR--GYFSIPPLLIRPVISFWIDNVPKDTNE 217
Query: 241 LTHKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRP 300
LT+ L I++ N A A + I+ +++Y I+ ++
Sbjct: 218 LTYLLGVIVKHCN-------ANADEPTIQKA--IIEYDNIKLISTNST------------ 256
Query: 301 LKTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVT 360
L+ GK R + +R + +AR+V+ PD + I EVG+P + LT +
Sbjct: 257 TNNLSYITSGKTNMLRSFVVARRKDQTARSVLGPDSSLDITEVGIPDYVRNTLTEKIFIN 316
Query: 361 EFNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR--ENLARMIDIGWTVERHLLD 418
F I+K++ M G KY + + ++ ++ N+ +N ++ W VE ++ +
Sbjct: 317 AFTIDKVKDMFQRGEIKY-----YFNKQLHQLTKIKQNKFIKNKIHLLPGDW-VETNIQE 370
Query: 419 GDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQ 478
++F RQPSLHR ++++ VR T ++ + NADFDGDE V Q ++
Sbjct: 371 FTNIIFGRQPSLHRYNVISSSVRKTEEDTIKIPPGIANSQNADFDGDEEWTIVEQNPKSV 430
Query: 479 AEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTREEVEQMLMFAGVD-I 537
E ILM + +G P+ G IQD I Y L RE T++EV +L G++ +
Sbjct: 431 IEQSILMYPTTLLKHDVHGMPVYGSIQDEILAAYNLFRE-YDLTQDEVLNILGKYGLEFL 489
Query: 538 KELPEPDKYENGKPLWSGKTIFSLLLPDDLTVWYRNKLCDEPERCEALEKLIEEKLMPDP 597
+ DKY +GK IF L+ +EPE
Sbjct: 490 TDYERKDKY-------TGKDIFKFLI-------------NEPE----------------- 512
Query: 598 EEVRKLAYDGFVYIQNGKLLSGAIDKKAYGREDGIILDLIVREYG--------VERARQF 649
+ Y G I NG++++ ID + + ++ +Y + +A
Sbjct: 513 -----INYPGI--ICNGEIIAENIDSNFIVSMKHMSISGLITDYKSSVEGIKFINKASYV 565
Query: 650 LDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEAYKRGELEPL 709
+ K+ + IT F D + ++ R++ + I + + K + G++ PL
Sbjct: 566 FKRYLKIYGFSIT---FRNLCPDFEFTKKLREQNIKKINDIKHSYVKYLYDVANGDIIPL 622
Query: 710 PGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALL 769
+ ++S + + ++ + D +M K G +N T++ +L
Sbjct: 623 SRSDEMDAVDSILSGLTNFNIQEIEKYMKEVISKDPDNSLM-KMSCAGYKVNPTELMYIL 681
Query: 770 ---GQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGRE 826
GQQ I G+ + GRVL +F P KG+++NS GL+ +Y++ + R
Sbjct: 682 GTYGQQRIDGEPIDTKIYGRVLPYFLPDSKDPEGKGYILNSLIQGLTGSQYYYAMLIARS 741
Query: 827 GLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTV 860
D T+++G + R++I ++D+ VD G +
Sbjct: 742 QSTDIVCETSRTGTLARKIIKKMEDMVVDSYGQI 775
>gi|11467567 RNA polymerase beta'-chain [Odontella sinensis]
>gi|1350854|sp|P49467|RPOC_ODOSI DNA-DIRECTED RNA
POLYMERASE BETA' CHAIN >gi|7484314|pir||S78372
DNA-directed RNA polymerase (EC 2.7.7.6) beta' chain -
Odontella sinensis chloroplast
>gi|1185262|emb|CAA91745.1| (Z67753) RNA polymerase
beta'-chain [Odontella sinensis]
Length = 843
Score = 185 bits (465), Expect = 2e-45
Identities = 135/384 (35%), Positives = 191/384 (49%), Gaps = 41/384 (10%)
Query: 133 ILKEIHKKARERMVCPHCGAPQYPI-KFEKPTIYWELRKDEQGNEYKHRMMPTEIRDRLE 191
I+KEI + + ++C + PI F + WEL++ YK +RD+
Sbjct: 397 IIKEIQRTRKFIVICSKILHKEKPIYHFLRWFRKWELQR-----AYK-------LRDQAI 444
Query: 192 KIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRI 251
K + L L S P WM+LT+LPV P RP I LE G A DL II
Sbjct: 445 K---RIRILENLLATGSNPAWMILTILPVIPPALRPMIQLEGGRFATSDLNELYRRIITR 501
Query: 252 NNRLKQNIEAGAPQLIIEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGK 311
NNRL + +E APQLII + +LQ V T I+N G A + RPLK+L+ +KGK
Sbjct: 502 NNRLLRLLEIDAPQLIIRNEKRMLQEAVDTLIDNGKRG-KIALSANNRPLKSLSDIIKGK 560
Query: 312 EGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMV 371
GRFR NL GKRV++S R+VI P + +NE G+P ++A+EL P + E + L +
Sbjct: 561 HGRFRQNLLGKRVDYSGRSVIVVGPSLRLNECGLPYEMALELFQPFLIREMINQGLASNM 620
Query: 372 LNGPDKYPGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLH 431
+ +IDP V +L + NR P+LH
Sbjct: 621 KIARNLIEQNEAIIDP------------------------VLEKVLSNHPIFLNRAPTLH 656
Query: 432 RMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHI 491
R+ I A ++ R +L+ VC +NADFDGD+M +H+P + E+Q+E +LM +
Sbjct: 657 RLGIQAFEPILVQGRAIKLHPLVCSAFNADFDGDQMAVHIPLSLESQSECYMLMLAPYNF 716
Query: 492 ISPRYGGPIIGGIQDHISGGYLLT 515
+SP G PII QD + G Y LT
Sbjct: 717 LSPANGEPIILPSQDMVLGCYYLT 740
>pir||T28156 DNA-directed RNA polymerase homolog - malaria parasite (Plasmodium
falciparum) >gi|414322|gb|AAA72349.1| (L11172)
[Plasmodium falciparum RNA polymerase I gene, complete
cds.], gene product
Length = 2910
Score = 180 bits (453), Expect = 5e-44
Identities = 110/274 (40%), Positives = 152/274 (55%), Gaps = 15/274 (5%)
Query: 268 IEDLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFS 327
I L+ LQ V T+ ++ + KH ++ Q L KEG R N+ GKRVN
Sbjct: 681 INILFSTLQLGVNTFYDSTLTEKVNNKHLKNISIR---QILDKKEGILRKNIMGKRVNNC 737
Query: 328 ARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDP 387
ARTVISPD I N++G+PI+ A LT+ E +T+ N ++K++ NGP+ YPGA D
Sbjct: 738 ARTVISPDTFIETNQIGMPIEFAKVLTIDEYITQNNFTYIKKLIENGPNIYPGALSYRDS 797
Query: 388 EGR----------RIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMA 437
GR R++++E E L + + + RH DGD+V+ NRQP+LH+ SIMA
Sbjct: 798 NGRVFKLSHKYEDRLKVIE-KIEKLNFQTENSYILHRHARDGDVVIMNRQPTLHKFSIMA 856
Query: 438 HRVRVM-PYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRY 496
H +++ + FRLN C YNADFDGDEMNLH+ QT A+AEA LM S +
Sbjct: 857 HYLKIFEKEKVFRLNYVNCSSYNADFDGDEMNLHLLQTPLARAEATHLMNCDFLFTSFKD 916
Query: 497 GGPIIGGIQDHISGGYLLTREGAYFTREEVEQML 530
G P+ G QD I GG LT + +E +L
Sbjct: 917 GSPLRGLAQDFILGGLHLTSLETFLNYDEYCNLL 950
Score = 139 bits (348), Expect = 1e-31
Identities = 70/151 (46%), Positives = 98/151 (64%), Gaps = 2/151 (1%)
Query: 732 NAGSIAEKYLGMDNHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHF 791
N ++ K+L +N M TGA+G +N + + +L QQ + GKR+ R G+ L F
Sbjct: 1796 NMNNLMNKFL--NNGFSNMIFTGAKGSKVNYSMICGMLDQQYLEGKRVPRMRSGKTLPSF 1853
Query: 792 KPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQD 851
D GAR+ G + + + GL PQEYFFH M GREGL+DTAV+TA+SGY+QR LI ++
Sbjct: 1854 HRYDYGARSCGLITDCFLEGLRPQEYFFHCMSGREGLIDTAVKTAKSGYIQRCLIKCMES 1913
Query: 852 LKVDYDGTVRDPTGVIVQFRYGEDGVDPMKS 882
+ + YDGTVR+ I+QF YGEDG+DP K+
Sbjct: 1914 VILHYDGTVRNEDNSIIQFLYGEDGIDPSKT 1944
>pir||G69137 DNA-dependent RNA polymerase, subunit A' - Methanobacterium
thermoautotrophicum (strain Delta H)
>gi|2621350|gb|AAB84803.1| (AE000815) DNA-dependent RNA
polymerase, subunit A' [Methanobacterium
thermoautotrophicum]
Length = 133
Score = 179 bits (449), Expect = 1e-43
Identities = 78/118 (66%), Positives = 96/118 (81%)
Query: 1 MQSVKKVIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRC 60
M+ K IG IEFG++SP++IRK+S ++ PDTY++DGYPIE G+MD R+GVIDP RC
Sbjct: 1 MRGTLKKIGGIEFGLMSPEDIRKISVAQIVTPDTYNEDGYPIENGLMDPRLGVIDPRFRC 60
Query: 61 ETCGAKAGECPGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMK 118
TCGA+ GECPGHFG I LARPVIHVGFA TIH+IL STCR+CGR+ LT EIEEY++
Sbjct: 61 WTCGARGGECPGHFGSINLARPVIHVGFADTIHKILRSTCRKCGRVLLTGTEIEEYIR 118
>gb|AAF75815.1|AC011000_18 (AC011000) Contains similarity to DNA-directed RNA Polymerase
alpha-subunit from Methanococcus jannaschii gi|3915860
and contains Ribosomal protein L36 PF|00444 and
RNA-Polymerase alpha-subunit PF|00623 domains. EST
gb|AA597311 comes from this gene. [>
>gi|10092247|gb|AAG12662.1|AC010795_8 (AC010795) RNA
polymerase IIA largest subunit, putative; 12353-6556
[Arabidopsis thaliana]
Length = 1453
Score = 161 bits (402), Expect = 5e-38
Identities = 159/609 (26%), Positives = 275/609 (45%), Gaps = 105/609 (17%)
Query: 319 LSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKY 378
L GKR + + RTV+ DP + +NE+G+P IA L V E + + N E+L + P
Sbjct: 313 LLGKRSDHTFRTVVVGDPSLKLNEIGIPESIAKRLQVSEHLNQCNKERLVTSFV--PTLL 370
Query: 379 PGANYVIDPEGRRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAH 438
+ R + I ++ + G + R L+DGD VL NR PS+H+ S++A
Sbjct: 371 DNKEMHVRRGDRLVAIQVND-------LQTGDKIFRSLMDGDTVLMNRPPSIHQHSLIAM 423
Query: 439 RVRVMPYRT-FRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYG 497
VR++P + LN C P+ DFDGD ++ +VPQ+ +A+ E L+ + +I+ + G
Sbjct: 424 TVRILPTTSVVSLNPICCLPFRGDFDGDCLHGYVPQSIQAKVELDELVALDKQLINRQNG 483
Query: 498 GPIIGGIQDHISGGYLLTRE-GAYFTREEVEQMLMFAGVDIKELPEP----DKYENGKPL 552
++ QD ++ YL+ E Y R +++Q+ M+ +LP P + +P
Sbjct: 484 RNLLSLGQDSLTAAYLVNVEKNCYLNRAQMQQLQMYCPF---QLPPPAIIKASPSSTEPQ 540
Query: 553 WSGKTIFSLLLPD--DLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVY 610
W+G +F +L P D T N + E E G +
Sbjct: 541 WTGMQLFGMLFPPGFDYTYPLNNVVVSNGELLSFSE--------------------GSAW 580
Query: 611 IQNGKLLSGAIDKKAYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGI 670
+++G+ G ++ + G +LD+I A++ L Q W++ +G + +
Sbjct: 581 LRDGE---GNFIERLLKHDKGKVLDIIY------SAQEMLSQ------WLLM-RGLSVSL 624
Query: 671 DDEDLPEEARDR------IKEIIREAEE---RVQKLIEAYKRGELEPLPGKTLEE----- 716
D L + + R I +REAE+ + Q ++E+++ + + G+ EE
Sbjct: 625 ADLYLSSDLQSRKNLTEEISYGLREAEQVCNKQQLMVESWR--DFLAVNGEDKEEDSVSD 682
Query: 717 ------------TLESKIMAVLAEARDNAGSIAEKYLGMDNHTVIMAKTGARGKILNITQ 764
TL ++ +A + ++A +Y N +IM+K G++G I + Q
Sbjct: 683 LARFCYERQKSATLSELAVSAFKDAYRDVQALAYRYGDQSNSFLIMSKAGSKGNIGKLVQ 742
Query: 765 MAALLGQQSIRGKRLYRGFRGRVLSHFKPGD-----LGARAK-----------GFVVNSY 808
+ +G Q+ L GF R L+ D GA+ K G + NS+
Sbjct: 743 HSMCIGLQN-SAVSLSFGF-PRELTCAAWNDPNSPLRGAKGKDSTTTESYVPYGVIENSF 800
Query: 809 KSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTG-VI 867
+GL+P E F H++ R+ + G + RRL+ ++D+ YDGTVR+ G +
Sbjct: 801 LTGLNPLESFVHSVTSRDS--SFSGNADLPGTLSRRLMFFMRDIYAAYDGTVRNSFGNQL 858
Query: 868 VQFRYGEDG 876
VQF Y DG
Sbjct: 859 VQFTYETDG 867
>sp|P12116|RPOC_TOBAC DNA-DIRECTED RNA POLYMERASE BETA' CHAIN
Length = 680
Score = 155 bits (387), Expect = 3e-36
Identities = 143/486 (29%), Positives = 218/486 (44%), Gaps = 59/486 (12%)
Query: 60 CETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRIKLTDEE 112
CE CG + + G+I+LA PV HV + K I +L+ +E + D
Sbjct: 86 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 145
Query: 113 IEEYMKK----LELAKNRRSEVNKILKEI--------HKKARERMVCPHCGAPQYPIK-- 158
+ K L L E+ I R R + GA + +
Sbjct: 146 FARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFTTQGFDTFRNREISTGAGAIREQLADL 205
Query: 159 -----FEKPTIYWELRKDE--QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPE 211
E + WE +E GNE++ R + +D L + + + + E PE
Sbjct: 206 DLRIIIENSLVEWEELGEEGHTGNEWEDRKVGRR-KDFLVRRVELAKHFIRTNIE---PE 261
Query: 212 WMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAG--APQLIIE 269
WMVL +LPV P RP I ++ G D+ +I NN L + P ++
Sbjct: 262 WMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGELVM 321
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
L+Q V T ++N G P + + K+ + ++GKEGRFR L GKRV++S R
Sbjct: 322 CQEKLVQEAVDTLLDNGIRG-QPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 380
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEG 389
+VI P +S++ G+P +IA+EL + V+ G + A+ I
Sbjct: 381 SVIVVGPSLSLHRCGLPREIAIEL-------------FQTFVIRGLIRQHLASN-IGVAK 426
Query: 390 RRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFR 449
+IR E I W + + ++ G VL NR P+LHR+ I A + ++ R
Sbjct: 427 SKIREKEP----------IVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAIC 476
Query: 450 LNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHIS 509
L+ VC +NADFDGD+M +HVP + EAQ EAR+LM +++SP G PI QD +
Sbjct: 477 LHPLVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLI 536
Query: 510 GGYLLT 515
G Y+LT
Sbjct: 537 GLYVLT 542
>gi|11465945 RNA polymerase beta' subunit [Nicotiana tabacum]
>gi|2924259|emb|CAA77411.1| (Z00044) RNA polymerase
beta' subunit [Nicotiana tabacum]
Length = 688
Score = 155 bits (387), Expect = 3e-36
Identities = 143/486 (29%), Positives = 218/486 (44%), Gaps = 59/486 (12%)
Query: 60 CETCGAKAGECP---GHFGHIELARPVIHVGFAKT----IHRILESTCRECGRIKLTDEE 112
CE CG + + G+I+LA PV HV + K I +L+ +E + D
Sbjct: 94 CEQCGVEFVDSRIRRYQMGYIKLACPVTHVWYLKRLPSYIANLLDKPLKELEGLVYCDFS 153
Query: 113 IEEYMKK----LELAKNRRSEVNKILKEI--------HKKARERMVCPHCGAPQYPIK-- 158
+ K L L E+ I R R + GA + +
Sbjct: 154 FARPITKKPTFLRLRGLFEYEIQSWKYSIPLFFTTQGFDTFRNREISTGAGAIREQLADL 213
Query: 159 -----FEKPTIYWELRKDE--QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPE 211
E + WE +E GNE++ R + +D L + + + + E PE
Sbjct: 214 DLRIIIENSLVEWEELGEEGHTGNEWEDRKVGRR-KDFLVRRVELAKHFIRTNIE---PE 269
Query: 212 WMVLTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAG--APQLIIE 269
WMVL +LPV P RP I ++ G D+ +I NN L + P ++
Sbjct: 270 WMVLCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGELVM 329
Query: 270 DLWDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSAR 329
L+Q V T ++N G P + + K+ + ++GKEGRFR L GKRV++S R
Sbjct: 330 CQEKLVQEAVDTLLDNGIRG-QPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 388
Query: 330 TVISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEG 389
+VI P +S++ G+P +IA+EL + V+ G + A+ I
Sbjct: 389 SVIVVGPSLSLHRCGLPREIAIEL-------------FQTFVIRGLIRQHLASN-IGVAK 434
Query: 390 RRIRIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFR 449
+IR E I W + + ++ G VL NR P+LHR+ I A + ++ R
Sbjct: 435 SKIREKEP----------IVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAIC 484
Query: 450 LNLAVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHIS 509
L+ VC +NADFDGD+M +HVP + EAQ EAR+LM +++SP G PI QD +
Sbjct: 485 LHPLVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLI 544
Query: 510 GGYLLT 515
G Y+LT
Sbjct: 545 GLYVLT 550
>pir||A05032 rpoC protein homolog rpoC - common tobacco chloroplast
Length = 548
Score = 153 bits (383), Expect = 8e-36
Identities = 118/363 (32%), Positives = 179/363 (48%), Gaps = 33/363 (9%)
Query: 157 IKFEKPTIYWELRKDE--QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMV 214
I E + WE +E GNE++ R + +D L + + + + E PEWMV
Sbjct: 77 IIIENSLVEWEELGEEGHTGNEWEDRKVGRR-KDFLVRRVELAKHFIRTNIE---PEWMV 132
Query: 215 LTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAG--APQLIIEDLW 272
L +LPV P RP I ++ G D+ +I NN L + P ++
Sbjct: 133 LCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGELVMCQE 192
Query: 273 DLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 332
L+Q V T ++N G P + + K+ + ++GKEGRFR L GKRV++S R+VI
Sbjct: 193 KLVQEAVDTLLDNGIRG-QPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGRSVI 251
Query: 333 SPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI 392
P +S++ G+P +IA+EL + V+ G + A+ I +I
Sbjct: 252 VVGPSLSLHRCGLPREIAIEL-------------FQTFVIRGLIRQHLASN-IGVAKSKI 297
Query: 393 RIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL 452
R E I W + + ++ G VL NR P+LHR+ I A + ++ R L+
Sbjct: 298 REKEP----------IVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICLHP 347
Query: 453 AVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGY 512
VC +NADFDGD+M +HVP + EAQ EAR+LM +++SP G PI QD + G Y
Sbjct: 348 LVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLY 407
Query: 513 LLT 515
+LT
Sbjct: 408 VLT 410
>prf||1211235Q rpoC-like ORF 548 [Nicotiana tabacum]
Length = 548
Score = 153 bits (383), Expect = 8e-36
Identities = 118/363 (32%), Positives = 179/363 (48%), Gaps = 33/363 (9%)
Query: 157 IKFEKPTIYWELRKDE--QGNEYKHRMMPTEIRDRLEKIPDKDLPLLGLHPEKSRPEWMV 214
I E + WE +E GNE++ R + +D L + + + + E PEWMV
Sbjct: 77 IIIENSLVEWEELGEEGHTGNEWEDRKVGRR-KDFLVRRVELAKHFIRTNIE---PEWMV 132
Query: 215 LTVLPVPPVTARPSITLETGIRAEDDLTHKLVDIIRINNRLKQNIEAG--APQLIIEDLW 272
L +LPV P RP I ++ G D+ +I NN L + P ++
Sbjct: 133 LCLLPVLPPELRPIIQIDGGKLMSSDINELYRRVIYRNNTLTDLLTTSRSTPGELVMCQE 192
Query: 273 DLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTVI 332
L+Q V T ++N G P + + K+ + ++GKEGRFR L GKRV++S R+VI
Sbjct: 193 KLVQEAVDTLLDNGIRG-QPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGRSVI 251
Query: 333 SPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRRI 392
P +S++ G+P +IA+EL + V+ G + A+ I +I
Sbjct: 252 VVGPSLSLHRCGLPREIAIEL-------------FQTFVIRGLIRQHLASN-IGVAKSKI 297
Query: 393 RIMESNRENLARMIDIGWTVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNL 452
R E I W + + ++ G VL NR P+LHR+ I A + ++ R L+
Sbjct: 298 REKEP----------IVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICLHP 347
Query: 453 AVCPPYNADFDGDEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGY 512
VC +NADFDGD+M +HVP + EAQ EAR+LM +++SP G PI QD + G Y
Sbjct: 348 LVCKGFNADFDGDQMAVHVPLSLEAQVEARLLMFSHMNLLSPAIGDPISVPTQDMLIGLY 407
Query: 513 LLT 515
+LT
Sbjct: 408 VLT 410
>sp|P28363|RPA1_EUPOC DNA-DIRECTED RNA POLYMERASE I LARGEST SUBUNIT
>gi|479434|pir||S33884 DNA-directed RNA polymerase (EC
2.7.7.6) I largest chain RPA1 - Euplotes octocarinatus
(fragment) >gi|2133433|pir||S73102 DNA-directed RNA
polymerase (EC 2.7.7.6) I largest chain RPA1 - Euplotes
octocarinatus (SGC9) (fragment)
>gi|578406|emb|CAA47066.1| (X66450) DNA-directed RNA
polymerase I largest subunit [Euplotes octocarinatus]
Length = 638
Score = 151 bits (378), Expect = 3e-35
Identities = 89/204 (43%), Positives = 122/204 (59%), Gaps = 19/204 (9%)
Query: 272 WDLLQYHVTTYINNETSGVPPAKHKSGRPLKTLAQRLKGKEGRFRGNLSGKRVNFSARTV 331
W LQ V Y+++ + K K G L Q L+ KEG FR + GKRVNF+ R+V
Sbjct: 445 WAELQESVNCYLDSSLAAKLENKEKPG-----LRQLLERKEGIFRMKMMGKRVNFAGRSV 499
Query: 332 ISPDPMISINEVGVPIQIAMELTVPEKVTEFNIEKLRKMVLNGPDKYPGANYVIDPEGRR 391
ISPDP IS +++GVP IA +T PE NIEKL++ V+NG K+PGAN++ P G R
Sbjct: 500 ISPDPYISTDQIGVPEFIARTITFPEPAK--NIEKLKRCVINGAHKHPGANFIEYPNGER 557
Query: 392 -----IRIMESNRENLARMIDIGW--TVERHLLDGDIVLFNRQPSLHRMSIMAHRVRVMP 444
+ + E + ++ R W V RH+ GD +L NRQP+LH+ SIMAH ++P
Sbjct: 558 KALENMTLEEKKQSSIIRK----WRKIVYRHMQTGDPLLVNRQPTLHKPSIMAHNAIILP 613
Query: 445 -YRTFRLNLAVCPPYNADFDGDEM 467
+T R++ + C YNADFDGDEM
Sbjct: 614 KEQTIRMHYSNCKSYNADFDGDEM 637
Score = 81.1 bits (197), Expect = 5e-14
Identities = 40/114 (35%), Positives = 65/114 (56%), Gaps = 2/114 (1%)
Query: 13 FGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGV--IDPGLRCETCGAKAGEC 70
F + +EI++MS E+ P YD+ P G+ D+ MGV +D +C+TCG + C
Sbjct: 18 FSFYNDEEIQQMSVKEIHNPMAYDELNNPTSHGICDESMGVSALDKLSKCKTCGCDSVYC 77
Query: 71 PGHFGHIELARPVIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAK 124
PGH GHI+L + K +H +L+S C C R++++ + IE + +L+L K
Sbjct: 78 PGHMGHIKLTSTCYNPFTMKLLHSLLKSKCLVCHRLRISPKRIELFEIRLKLIK 131
>gb|AAB51210.1| (U73451) large subunit RNA polymerase II [Cruznema tripartitum]
Length = 633
Score = 139 bits (347), Expect = 1e-31
Identities = 65/104 (62%), Positives = 82/104 (78%)
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
KR+ GFR R L HF D G +KGFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA
Sbjct: 1 KRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPAEFFFHAMGGREGLIDTAVKTA 60
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
++GY+QRRLI A++ + V+YDGTVR+ G +VQ RYGEDG+D M
Sbjct: 61 ETGYIQRRLIKAMESVMVNYDGTVRNSIGQMVQLRYGEDGLDGM 104
>gb|AAB40622.1| (U61763) RNA polymerase II large subunit [Zeldia punctata]
Length = 629
Score = 137 bits (342), Expect = 5e-31
Identities = 63/99 (63%), Positives = 79/99 (79%)
Query: 782 GFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYM 841
GFR R L HF D G +KGFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA++GY+
Sbjct: 3 GFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPAEFFFHAMGGREGLIDTAVKTAETGYI 62
Query: 842 QRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
QRRLI A++ + V+YDGTVR+ G +VQ RYGEDG+D M
Sbjct: 63 QRRLIKAMESVMVNYDGTVRNSVGQMVQLRYGEDGLDGM 101
>gb|AAB51213.1| (U73448) large subunit RNA polymerase II [unidentified nematode]
Length = 633
Score = 137 bits (342), Expect = 5e-31
Identities = 64/104 (61%), Positives = 81/104 (77%)
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
KR+ GFR R L HF D G +KGFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA
Sbjct: 1 KRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPSEFFFHAMGGREGLIDTAVKTA 60
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
++GY+QRRLI A++ + V+YDGTVR+ +VQ RYGEDG+D M
Sbjct: 61 ETGYIQRRLIKAMESVMVNYDGTVRNSLAQMVQLRYGEDGLDGM 104
>pir||S04198 DNA-directed RNA polymerase (EC 2.7.7.6) II large chain - Crithidia
fasciculata (fragments)
Length = 451
Score = 137 bits (341), Expect = 6e-31
Identities = 64/155 (41%), Positives = 97/155 (62%), Gaps = 1/155 (0%)
Query: 745 NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFV 804
N +M + G++G LNI Q+ +GQQ++ G R+ FR R + HF D G ++G
Sbjct: 12 NSFKVMIEAGSKGSDLNICQIPVFVGQQNVAGSRI-PFFRRRTVPHFMLDDYGETSRGMA 70
Query: 805 VNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPT 864
Y GL P E++FH M GREGL+DTAV+TA +GY+QR+L+ AL+D+ YDGTVR+
Sbjct: 71 TRGYVEGLQPHEFYFHTMAGREGLIDTAVKTADTGYLQRKLVKALEDVHAAYDGTVRNAN 130
Query: 865 GVIVQFRYGEDGVDPMKSWGGKTVDVDRVIMRTLI 899
++Q YGEDG+D + G +T +++ T++
Sbjct: 131 QELIQLAYGEDGLDGARIEGNQTFRSYTILVDTML 165
>gi|9629011 MC079R [Molluscum contagiosum virus subtype 1]
>gi|7434736|pir||T30681 DNA-directed RNA polymerase (EC
2.7.7.6) 146K chain - Molluscum contagiosum virus 1
>gi|1492022|gb|AAC55207.1| (U60315) MC079R [Molluscum
contagiosum virus subtype 1]
Length = 1289
Score = 136 bits (339), Expect = 1e-30
Identities = 126/517 (24%), Positives = 225/517 (43%), Gaps = 54/517 (10%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + + EI +A ++ + +DD G V D R+G +D G+ C TCG
Sbjct: 3 VIARVSYSLYTQNEI---NANDILINHVKNDDDV---GTVKDSRLGAMD-GVLCRTCGRT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + L ++ + + RI C CG ++ + + L
Sbjct: 56 ELECFGHWGKVRLYETHIVKPEYIHEVIRIFNHICSRCGLLRSREPYTVPELGTLS---- 111
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
+ K LK+ ++ C P I F K + + + D+ +P
Sbjct: 112 --AHALKKLKDKISSKKKSCWNNKCMQPYQKIAFSKKKVCFVNKIDDVA-------IPNA 162
Query: 186 IR-DRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDDLT 242
+ ++ I PLL + + + + P+PP+ RP+I+ +++ + ++LT
Sbjct: 163 LLYQKITSIHRSFWPLLEIFQDPANLFYK--GYFPIPPLIIRPAISFWIDSIPKETNELT 220
Query: 243 HKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQY-HVTTYINNETSGVPPAKHKSGRPL 301
+ L I++ +N N E Q + ++Y ++ +NN TS +
Sbjct: 221 YLLGMIVKYSN---MNAEEQVLQKAV------IEYDNIKIIVNNNTSSI----------- 260
Query: 302 KTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTE 361
L+ GK R + +R + +AR+V+ PDP +SI EVG+P + LT V
Sbjct: 261 -NLSYITSGKNNMIRSYMVARRKDQTARSVLGPDPELSITEVGIPDYVRNTLTEKVFVNA 319
Query: 362 FNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDGD 420
F + + ++ K+ Y G+ RI + +N ++ W VE + +
Sbjct: 320 FTVPAVEELFRRNEVKF----YFNKRLGQLTRIKPNKFVKNKIHLLPGDW-VETRVREFT 374
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
++F RQPSLH+ ++++ VR T ++ + NADFDGDE + + Q ++ E
Sbjct: 375 SIIFGRQPSLHKYNVISSSVRATSGDTIKIPPGIANSQNADFDGDEEWMILEQNPKSVLE 434
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE 517
ILM + +G P+ G IQD I Y L R+
Sbjct: 435 QSILMYPATLLKHDVHGMPVYGAIQDEILAAYALFRQ 471
>gb|AAB51211.1| (U73454) large subunit RNA polymerase II [Mesorhabditis sp.]
Length = 633
Score = 136 bits (338), Expect = 1e-30
Identities = 63/102 (61%), Positives = 80/102 (77%)
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
KR+ GFR R L HF D G +KGFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA
Sbjct: 1 KRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPAEFFFHAMGGREGLIDTAVKTA 60
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
++GY+QRRLI A++ + V+YDGTVR+ +VQ RYGEDG+D
Sbjct: 61 ETGYIQRRLIKAMESVMVNYDGTVRNSIAQMVQLRYGEDGLD 102
>gb|AAC42119.1| (L38927) DNA-dependent RNA polymerase 147 kDa subunit [Molluscum
contagiosum virus subtype 1]
Length = 1289
Score = 135 bits (337), Expect = 2e-30
Identities = 126/517 (24%), Positives = 224/517 (42%), Gaps = 54/517 (10%)
Query: 7 VIGSIEFGILSPQEIRKMSAVEVTVPDTYDDDGYPIEGGVMDKRMGVIDPGLRCETCGAK 66
VI + + + + EI +A ++ + +DD G V D R+G +D G+ C TCG
Sbjct: 3 VIARVSYSLYTQNEI---NANDILINHVKNDDDV---GTVKDSRLGAMD-GVLCRTCGRT 55
Query: 67 AGECPGHFGHIELARP-VIHVGFAKTIHRILESTCRECGRIKLTDEEIEEYMKKLELAKN 125
EC GH+G + L ++ + + RI C CG + + + L
Sbjct: 56 ELECFGHWGKVRLYETHIVKPEYIHEVIRIFNHICSRCGLLASREPYTVPELGTLS---- 111
Query: 126 RRSEVNKILKEIHKKARERMVCPHCGAPQYPIKFEKPTIYWELRKDEQGNEYKHRMMPTE 185
+ K LK+ ++ C P I F K + + + D+ +P
Sbjct: 112 --AHALKKLKDKISSKKKSCWNNKCMQPYQKIAFSKKKVCFVNKIDDVA-------IPNA 162
Query: 186 IR-DRLEKIPDKDLPLLGLHPEKSRPEWMVLTVLPVPPVTARPSIT--LETGIRAEDDLT 242
+ ++ I PLL + + + + P+PP+ RP+I+ +++ + ++LT
Sbjct: 163 LLYQKITSIHRSFWPLLEIFQDPANLFYK--GYFPIPPLVIRPAISFWIDSIPKETNELT 220
Query: 243 HKLVDIIRINNRLKQNIEAGAPQLIIEDLWDLLQY-HVTTYINNETSGVPPAKHKSGRPL 301
+ L I++ +N N E Q + ++Y ++ +NN TS +
Sbjct: 221 YLLGMIVKYSN---MNAEEQVLQKAV------IEYDNIKIIVNNNTSSI----------- 260
Query: 302 KTLAQRLKGKEGRFRGNLSGKRVNFSARTVISPDPMISINEVGVPIQIAMELTVPEKVTE 361
L+ GK R + +R + +AR+V+ PDP +SI EVG+P + LT V
Sbjct: 261 -NLSYITSGKNNMIRSYMVARRKDQTARSVLGPDPELSITEVGIPDYVRNTLTEKVFVNA 319
Query: 362 FNIEKLRKMVLNGPDKYPGANYVIDPEGRRIRIMESNR-ENLARMIDIGWTVERHLLDGD 420
F + + ++ K+ Y G+ RI + +N ++ W VE + +
Sbjct: 320 FTVPAVEELFRRNEVKF----YFNKRLGQLTRIKPNKFVKNKIHLLPGDW-VETRVREFT 374
Query: 421 IVLFNRQPSLHRMSIMAHRVRVMPYRTFRLNLAVCPPYNADFDGDEMNLHVPQTEEAQAE 480
++F RQPSLH+ ++++ VR T ++ + NADFDGDE + + Q ++ E
Sbjct: 375 SIIFGRQPSLHKYNVISSSVRATSGDTIKIPPGIANSQNADFDGDEEWMILEQNPKSVLE 434
Query: 481 ARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTRE 517
ILM + +G P+ G IQD I Y L R+
Sbjct: 435 QSILMYPATLLKHDVHGMPVYGAIQDEILAAYALFRQ 471
>emb|CAA31845.1| (X13490) Crp22 [Crithidia fasciculata]
Length = 156
Score = 135 bits (337), Expect = 2e-30
Identities = 63/143 (44%), Positives = 91/143 (63%), Gaps = 1/143 (0%)
Query: 745 NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFV 804
N +M + G++G LNI Q+ +GQQ++ G R+ FR R + HF D G ++G
Sbjct: 12 NSFKVMIEAGSKGSDLNICQIPVFVGQQNVAGSRI-PFFRRRTVPHFMLDDYGETSRGMA 70
Query: 805 VNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPT 864
Y GL P E++FH M GREGL+DTAV+TA +GY+QR+L+ AL+D+ YDGTVR+
Sbjct: 71 TRGYVEGLQPHEFYFHTMAGREGLIDTAVKTADTGYLQRKLVKALEDVHAAYDGTVRNAN 130
Query: 865 GVIVQFRYGEDGVDPMKSWGGKT 887
++Q YGEDG+D + G +T
Sbjct: 131 QELIQLAYGEDGLDGARIEGNQT 153
>gb|AAB40621.1| (U61762) RNA polymerase II large subunit [Aduncospiculum halicti]
Length = 631
Score = 135 bits (337), Expect = 2e-30
Identities = 64/104 (61%), Positives = 80/104 (76%)
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
KR+ GFR R L HF D G +KGFV NSY +GL+P E+FFHAMGGREGL+DTAV+TA
Sbjct: 1 KRIPFGFRHRTLPHFIKDDYGPESKGFVENSYLAGLTPAEFFFHAMGGREGLIDTAVKTA 60
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPM 880
++GY+QRRLI A++ + V YDGTVR+ +VQ RYGEDG+D M
Sbjct: 61 EAGYIQRRLIKAMESVMVCYDGTVRNSLAQMVQLRYGEDGLDGM 104
>gb|AAB51212.1| (U73456) large subunit RNA polymerase II [Teratorhabditis palmarum]
Length = 631
Score = 132 bits (328), Expect = 2e-29
Identities = 62/102 (60%), Positives = 79/102 (76%)
Query: 777 KRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTA 836
KR+ GFR R L HF D G +KGFV NSY +GL+ E+FFHAMGGREGL+DTAV+TA
Sbjct: 1 KRIPFGFRHRSLPHFIQDDYGPESKGFVENSYLAGLTAAEFFFHAMGGREGLIDTAVKTA 60
Query: 837 QSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
++GY+QRRLI A++ + V+YDGTVR+ +VQ RYGEDG+D
Sbjct: 61 ETGYIQRRLIKAMESVMVNYDGTVRNSISQMVQLRYGEDGLD 102
>dbj|BAA10999.1| (D64127) RNA polymerase beta' subunit [Bacillus subtilis]
Length = 747
Score = 124 bits (309), Expect = 4e-27
Identities = 108/408 (26%), Positives = 187/408 (45%), Gaps = 69/408 (16%)
Query: 465 DEMNLHVPQTEEAQAEARILMEVQNHIISPRYGGPIIGGIQDHISGGYLLTREGAYFTRE 524
D+M +HVP + EAQAEARILM +I++P+ G P++ QD + G Y LT E A E
Sbjct: 1 DQMAVHVPLSAEAQAEARILMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERAGAVGE 60
Query: 525 EV------EQMLMF-------------AGVDIKELPEPDKYENGKPLWS-GKTIFSLLLP 564
+ E +L + A +K + ++ + + + GK +F+ +LP
Sbjct: 61 GMVFKNTDEALLAYQNGYVHLHTRVAVAANSLKNVTFTEEQRSKLLITTVGKLVFNEILP 120
Query: 565 DDLTVWYRNKLCDEPERCEALEKLIEEKLMPDPEEVRKLAYDGFVYIQNGKLLSGAIDKK 624
+ Y N EP + EK + + +V+ + + N G + K
Sbjct: 121 ESFP--YMN----EPTKSNIEEKTPDRFFLEKGADVKAVIAQQPI---NAPFKKGILGK- 170
Query: 625 AYGREDGIILDLIVREYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIK 684
I+ I + + + + LD++ L T G T G+ D + ++ +
Sbjct: 171 --------IIAEIFKRFHITETSKMLDRMKNLGFKYSTKAGITVGVSDIVVLDDKQ---- 218
Query: 685 EIIREAEERVQKLIEAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD 744
EI+ EA+ +V +++ ++RG + EE +++++ + A+D K L
Sbjct: 219 EILEEAQSKVDNVMKQFRRGLIT-------EEERYERVISIWSAAKDVIQGKLMKSLDEL 271
Query: 745 NHTVIMAKTGARGKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFV 804
N +M+ +GARG N TQ+A + G L GR++ P +
Sbjct: 272 NPIYMMSDSGARGNASNFTQLAGMRG--------LMANPAGRIIE--LP----------I 311
Query: 805 VNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDL 852
+S++ GL+ EYF G R+GL DTA++TA SGY+ RRL++ QD+
Sbjct: 312 KSSFREGLTVLEYFISTPGARKGLADTALKTADSGYLTRRLVDVAQDV 359
>pir||S14183 DNA-directed RNA polymerase (EC 2.7.7.6) largest chain (isoform C)
- soybean (fragment) >gi|18736|emb|CAA36736.1| (X52495)
DNA-directed RNA polymerase [Glycine max]
Length = 977
Score = 122 bits (302), Expect = 2e-26
Identities = 52/84 (61%), Positives = 71/84 (83%)
Query: 795 DLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKV 854
D G ++GFV NSY GL+PQE+FFHAMGGREGL+DTAV+T+++GY+QRRL+ A++D+ +
Sbjct: 1 DHGPESRGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTSETGYIQRRLVKAMEDIML 60
Query: 855 DYDGTVRDPTGVIVQFRYGEDGVD 878
YDGTVR+ G ++QF YGEDG+D
Sbjct: 61 KYDGTVRNSLGDVIQFLYGEDGMD 84
>gb|AAD09356.1| (U33823) DNA-directed RNA polymerase I largest subunit [Homo
sapiens]
Length = 441
Score = 105 bits (259), Expect = 3e-21
Identities = 50/92 (54%), Positives = 65/92 (70%)
Query: 791 FKPGDLGARAKGFVVNSYKSGLSPQEYFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQ 850
F+P + RA GFV + +G+ P E+FFH M GREGLVDTAV+T++S Y+QR +I L+
Sbjct: 5 FEPYEFTPRAGGFVTGRFLTGIKPPEFFFHCMAGREGLVDTAVKTSRSAYLQRCIIKHLE 64
Query: 851 DLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKS 882
L V YD TVRD G +VQF YGEDG+D K+
Sbjct: 65 GLVVQYDLTVRDSDGSVVQFLYGEDGLDIPKT 96
>gi|11431655 polymerase (RNA) III (DNA directed) (155kD) [Homo sapiens]
Length = 539
Score = 83.1 bits (202), Expect = 1e-14
Identities = 39/58 (67%), Positives = 47/58 (80%)
Query: 822 MGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDP 879
M GREGLVDTAV+TA++GYMQRRL+ +L+DL YD TVR TG I+QF YG DG+DP
Sbjct: 1 MAGREGLVDTAVKTAETGYMQRRLVKSLEDLCSQYDLTVRSSTGDIIQFIYGGDGLDP 58
>gb|AAF79162.1|AF249985_1 (AF249985) RNA polymerase III large subunit 1 [Philodina roseola]
Length = 218
Score = 80.4 bits (195), Expect = 8e-14
Identities = 41/71 (57%), Positives = 51/71 (71%), Gaps = 1/71 (1%)
Query: 824 GREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSW 883
GREGLVDTAV+TA++GYMQRRL+ L+DL YD T+R T IVQF YG D +DP+
Sbjct: 1 GREGLVDTAVKTAETGYMQRRLVKYLEDLCCQYDMTIRTSTNDIVQFTYGGDSLDPIFLE 60
Query: 884 G-GKTVDVDRV 893
G + VD DR+
Sbjct: 61 GKDRPVDYDRI 71
>gb|AAF79163.1|AF249986_1 (AF249986) RNA polymerase III large subunit 2 [Philodina roseola]
Length = 218
Score = 80.4 bits (195), Expect = 8e-14
Identities = 41/71 (57%), Positives = 51/71 (71%), Gaps = 1/71 (1%)
Query: 824 GREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVDPMKSW 883
GREGLVDTAV+TA++GYMQRRL+ L+DL YD T+R T IVQF YG D +DP+
Sbjct: 1 GREGLVDTAVKTAETGYMQRRLVKYLEDLCCQYDMTIRTSTNDIVQFTYGGDSLDPIFLE 60
Query: 884 G-GKTVDVDRV 893
G + VD DR+
Sbjct: 61 GKDRPVDYDRI 71
>gi|11465716 DNA-directed RNA polymerase beta [Porphyra purpurea]
>gi|1710675|sp|P51250|RPOD_PORPU DNA-DIRECTED RNA
POLYMERASE BETA" CHAIN >gi|7434752|pir||S73171
DNA-directed RNA polymerase (EC 2.7.7.6) beta'-2 chain -
red alga (Porphyra purpurea) chloroplast
>gi|1276716|gb|AAC08136.1| (U38804) DNA-directed RNA
polymerase beta [Porphyra purpurea]
Length = 1224
Score = 78.4 bits (190), Expect = 3e-13
Identities = 67/245 (27%), Positives = 110/245 (44%), Gaps = 38/245 (15%)
Query: 639 REYGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLI 698
R YG+ RA D++ L T G + ++D +P + + I E + K
Sbjct: 31 RNYGIARAANMADKLKDLGFHYATQAGISLSLEDLRIPPSKKSLLLSTIEEIKNTENK-- 88
Query: 699 EAYKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD--NHTVIMAKTGAR 756
Y+RGE+ T E + I + + E + D N +MA +GAR
Sbjct: 89 --YRRGEI------TTVERFQKVIDTWNNASESLKQEVIEYFKETDPLNSVYMMAFSGAR 140
Query: 757 GKILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQE 816
G I + Q+ + G L +G+++ DL + ++ + GL+ +
Sbjct: 141 GNISQVRQLVGMRG--------LMADPQGQII------DLP------ISSNSREGLTVTD 180
Query: 817 YFFHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDG 876
YF + G R+GLVDTA+RTA SGY+ RRL++ QD+ + + + G+I+ ED
Sbjct: 181 YFISSYGARKGLVDTALRTADSGYLTRRLVDVSQDV-IIREVDCKTKKGIIL-----EDL 234
Query: 877 VDPMK 881
VD K
Sbjct: 235 VDTQK 239
>gi|11467790 beta'' subunit of RNA polymerase [Nephroselmis olivacea]
>gi|5880719|gb|AAD54812.1|AF137379_35 (AF137379) beta''
subunit of RNA polymerase [Nephroselmis olivacea]
Length = 1463
Score = 74.1 bits (179), Expect = 6e-12
Identities = 59/243 (24%), Positives = 109/243 (44%), Gaps = 32/243 (13%)
Query: 641 YGVERARQFLDQVTKLTIWVITHKGFTTGIDDEDLPEEARDRIKEIIREAEERVQKLIEA 700
YG+ ++ + ++ T G + GI+D +P +++EA + ++
Sbjct: 49 YGLADTVSMIEDLKQVGFQYATRAGISLGIEDLRIPPTK----PRLLQEAHREINRMEFR 104
Query: 701 YKRGELEPLPGKTLEETLESKIMAVLAEARDNAGSIAEKYLGMD--NHTVIMAKTGARGK 758
Y++G + +L E + I + + E +L D N +MA +GARG
Sbjct: 105 YQQGYV------SLVERFQKVIDTWNGTSELLKDDVVENFLATDPLNPVYMMAFSGARGN 158
Query: 759 ILNITQMAALLGQQSIRGKRLYRGFRGRVLSHFKPGDLGARAKGFVVNSYKSGLSPQEYF 818
+ + Q+ + G S +G ++ DL R+ +++ GL+ EY
Sbjct: 159 LSQVRQLVGMRGLMS--------NPQGEII------DLPIRS------NFREGLTVTEYI 198
Query: 819 FHAMGGREGLVDTAVRTAQSGYMQRRLINALQDLKVDYDGTVRDPTGVIVQFRYGEDGVD 878
G R+GLVDTA+RTA SGY+ RRL++ QD+ + +I + G++ V
Sbjct: 199 ISCYGARKGLVDTALRTANSGYLTRRLVDVAQDIVIRMTSCSPSAYPLISFTKSGKEVVY 258
Query: 879 PMK 881
P++
Sbjct: 259 PLE 261
Database: ./suso.pep
Posted date: Jul 6, 2001 5:57 PM
Number of letters in database: 840,471
Number of sequences in database: 2977
Database: /banques/blast2/nr.pep
Posted date: Dec 14, 2000 12:46 PM
Number of letters in database: 188,266,275
Number of sequences in database: 595,510
Lambda K H
0.319 0.139 0.409
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 357217116
Number of Sequences: 2977
Number of extensions: 16427282
Number of successful extensions: 44287
Number of sequences better than 1.0e-10: 252
Number of HSP's better than 0.0 without gapping: 222
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 42838
Number of HSP's gapped (non-prelim): 577
length of query: 907
length of database: 189,106,746
effective HSP length: 57
effective length of query: 850
effective length of database: 154,992,987
effective search space: 131744038950
effective search space used: 131744038950
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.7 bits)
S2: 169 (70.2 bits)