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= PAB1430 (topA) DE:DNA topoisomerase I (topA)
(685 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||A75055 DNA topoisomerase I (topa) PAB1430 - Pyrococcus abys... 1389 0.0
pir||E71106 probable DNA topoisomerase I - Pyrococcus horikoshii... 1264 0.0
gb|AAC26106.1| (AF042825) DNA topoisomerase I [Pyrococcus furiosus] 659 0.0
pir||B64506 DNA topoisomerase (EC 5.99.1.2) - Methanococcus jann... 627 e-178
pir||A69084 DNA topoisomerase I - Methanobacterium thermoautotro... 561 e-158
pir||H72563 probable DNA topoisomerase APE1794 - Aeropyrum perni... 407 e-112
gb|AAK41190.1| DNA topoisomerase I family A (topA) [Sulfolobus s... 366 e-100
gi|11499394 DNA topoisomerase I (topA) [Archaeoglobus fulgidus] ... 361 1e-98
emb|CAC11211.1| (AL445063) DNA topoisomerase III beta related pr... 343 3e-93
pir||B81266 DNA topoisomerase (EC 5.99.1.2) I Cj1686c [imported]... 266 4e-70
gb|AAG18918.1| (AE004994) DNA topoisomerase I; TopA [Halobacteri... 264 3e-69
sp|Q9KA23|TOP1_BACHD DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 259 7e-68
sp|P39814|TOP1_BACSU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 249 1e-64
emb|CAA71737.1| (Y10747) topoisomerase I [Helicobacter pylori] 246 7e-64
sp|O66893|TOP1_AQUAE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 243 5e-63
sp|P55991|TOP1_HELPY DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 243 6e-63
sp|Q9ZMV7|TOP1_HELPJ DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 240 5e-62
dbj|BAB07106.1| (AP001518) DNA topoisomerase III [Bacillus halod... 236 6e-61
gb|AAF14809.1| (AF000001) topoisomerase B [Salmonella typhi] 226 7e-58
pir||A82009 DNA topoisomerase (EC 5.99.1.2) I NMA0156 [imported]... 224 3e-57
gi|6678403 topoisomerase 3 alpha; Top IIIa [Mus musculus] >gi|66... 223 4e-57
pir||H81236 DNA topoisomerase I NMB0118 [imported] - Neisseria m... 220 3e-56
pir||H69724 DNA topoisomerase III topB - Bacillus subtilis >gi|1... 220 4e-56
gi|10835218 topoisomerase (DNA) III alpha [Homo sapiens] >gi|114... 219 7e-56
gb|AAB03695.1| (U43431) DNA topoisomerase III [Homo sapiens] 219 7e-56
sp|P43012|TOP1_HAEIN DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 218 1e-55
pir||G64119 DNA topoisomerase (EC 5.99.1.2) - Haemophilus influe... 218 2e-55
pir||S45077 hypothetical protein gamma - Streptococcus pyogenes ... 217 3e-55
gb|AAC38606.1| (AF007787) type I topoisomerase [Enterococcus fae... 216 7e-55
sp|Q9KRB2|TOP1_VIBCH DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 213 4e-54
pir||B82606 conjugal transfer protein XF2059 [imported] - Xylell... 213 5e-54
sp|O83409|TOP1_TREPA DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 212 8e-54
dbj|BAA96895.1| (AB019227) DNA topoisomerase III [Arabidopsis th... 212 1e-53
sp|P57371|TOP1_BUCAI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 207 3e-52
sp|P06612|TOP1_ECOLI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 206 5e-52
gi|10957138 trsI protein (traI) [Lactococcus lactis] >gi|1127080... 206 5e-52
gb|AAF71288.1|AF255733_1 (AF255733) DNA topoisomerase III alpha ... 206 8e-52
pir||B82746 DNA topoisomerase I XF0920 [imported] - Xylella fast... 205 1e-51
sp|P46799|TOP1_THEMA DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 205 2e-51
pir||D83269 DNA topoisomerase I PA3011 [imported] - Pseudomonas ... 203 7e-51
sp|Q9ZDK2|TOP1_RICPR DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 201 2e-50
sp|P78032|TOP1_MYCPN DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 200 5e-50
gb|AAD21553.1| (AF088896) topoisomerase I [Zymomonas mobilis] 200 5e-50
pdb|1ECL| Amino Terminal 67kda Domain Of Escherichia Coli Dna ... 199 1e-49
pdb|1CY7|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5... 197 3e-49
sp|O61660|TOP3_CAEEL DNA TOPOISOMERASE III >gi|11270818|pir||T43... 197 4e-49
pir||D72038 DNA topoisomerase I CP1103 [imported] - Chlamydophil... 196 5e-49
gb|AAF72351.1|AF192329_12 (AF192329) DNA topoisomerase III-like ... 194 2e-48
sp|P47368|TOP1_MYCGE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 193 5e-48
sp|O34204|TOP1_FERIS DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 192 1e-47
emb|CAB60518.1| (AL132860) contains similarity to Pfam domain: P... 191 2e-47
pir||A56976 transfer complex protein TrsI - Staphylococcus aureu... 190 5e-47
pir||A82638 DNA topoisomerase III XF1776 [imported] - Xylella fa... 190 5e-47
sp|O60126|TOP3_SCHPO DNA TOPOISOMERASE III >gi|7490479|pir||T396... 189 1e-46
emb|CAB60424.1| (AL117203) predicted using Genefinder~contains s... 188 2e-46
pir||B82870 DNA topoisomerase I UU590 [imported] - Ureaplasma ur... 187 3e-46
pir||H81749 DNA topoisomerase I TC0012 [imported] - Chlamydia mu... 187 4e-46
gb|AAF36767.1| (L35043) DNA topoisomerase I [Mycoplasma gallisep... 185 1e-45
gi|10956388 pXO1-142 [Bacillus anthracis] >gi|730964|sp|P40114|T... 185 2e-45
pir||S41543 DNA topoisomerase (EC 5.99.1.2) - Bacillus anthracis... 185 2e-45
sp|Q9KQF5|TOP3_VIBCH DNA TOPOISOMERASE III >gi|11354876|pir||E82... 185 2e-45
pir||B70376 reverse gyrase - Aquifex aeolicus >gi|2983417|gb|AAC... 184 3e-45
pir||A71488 probable DNA topoisomerase I-fused to SWI domain - C... 183 4e-45
sp|P73810|TOP1_SYNY3 DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 182 2e-44
pir||H75034 reverse gyrase (top-rg) PAB2423 - Pyrococcus abyssi ... 180 3e-44
gi|10955240 TraE [Enterobacter aerogenes] >gi|7437439|pir||T0852... 180 5e-44
pir||T31599 hypothetical protein Y48C3A.q - Caenorhabditis elegans 178 2e-43
gb|AAB49283.1| (U66557) reverse gyrase [Pyrococcus furiosus] 178 2e-43
gi|4507635 topoisomerase (DNA) III beta; topoisomerase III beta ... 175 2e-42
sp|Q9X909|TOP1_STRCO DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 174 3e-42
sp|P43704|TOP3_HAEIN DNA TOPOISOMERASE III >gi|1075354|pir||G640... 174 3e-42
sp|O51768|TOP1_BORBU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 173 6e-42
gi|6755851 topoisomerase (DNA) III beta; Topo III beta [Mus musc... 172 1e-41
sp|O96651|TOP3_DROME DNA TOPOISOMERASE III >gi|4235475|gb|AAD132... 169 1e-40
gb|AAF46144.1| (AE003437) Top3beta gene product [Drosophila mela... 169 1e-40
gi|10956714 topoisomerase I [Xylella fastidiosa] >gi|11279673|pi... 169 1e-40
sp|P14294|TOP3_ECOLI DNA TOPOISOMERASE III >gi|78399|pir||JV0049... 168 2e-40
gi|6323263 DNA Topoisomerase III; Top3p [Saccharomyces cerevisia... 168 3e-40
pir||G70399 reverse gyrase - Aquifex aeolicus >gi|2983618|gb|AAC... 166 6e-40
pir||S23866 probable DNA topoisomerase (EC 5.99.1.2) III - Bacil... 162 1e-38
gb|AAA26423.1| (L10329) traE [Plasmid RP4] 161 2e-38
sp|O69548|TOP1_MYCLE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 158 2e-37
sp|Q59567|TOP1_MYCTU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 158 2e-37
sp|P34184|TOP1_BACFI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 158 2e-37
gi|10955488 44 pct identical(12 gaps) to gp:RP4TRAEDF_1[TraE of ... 158 2e-37
pir||JC5211 DNA topoisomerase (EC 5.99.1.2) I - Mycobacterium tu... 157 4e-37
pir||G75403 DNA topoisomerase I - Deinococcus radiodurans (strai... 157 5e-37
pir||PQ0259 hypothetical protein I - Enterococcus faecalis plasm... 153 7e-36
pir||G72614 probable reverse gyrase APE1376 - Aeropyrum pernix (... 143 8e-33
pir||C72409 reverse gyrase - Thermotoga maritima (strain MSB8) >... 141 2e-32
dbj|BAA20009.1| (D87012) topoisomerase-III [Homo sapiens] 136 1e-30
gi|11498629 reverse gyrase (top-RG) [Archaeoglobus fulgidus] >gi... 132 9e-30
sp|P34185|TOP1_SYNP7 DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXI... 124 4e-27
pir||T04488 DNA topoisomerase homolog F8F16.30 - Arabidopsis tha... 123 6e-27
dbj|BAA97984.1| (AB045324) unnamed protein product [Mus musculus] 121 3e-26
pir||G71870 topoisomerase I - Helicobacter pylori (strain J99) >... 119 1e-25
sp|Q08582|TOPG_SULAC REVERSE GYRASE [INCLUDES: HELICASE; TOPOISO... 118 2e-25
gb|AAK41237.1| Reverse gyrase (topR-2) [Sulfolobus solfataricus] 118 2e-25
gb|AAK40747.1| Reverse gyrase (topR-1) [Sulfolobus solfataricus] 116 6e-25
gb|AAA96962.1| (U41058) reverse gyrase A subunit [Methanopyrus k... 113 9e-24
gi|10956211 ORF3 [Streptococcus agalactiae] >gi|2126629|pir||I39... 111 3e-23
pir||T29099 reverse gyrase - Sulfolobus shibatae >gi|1679872|emb... 110 4e-23
pir||C71129 probable reverse gyrase - Pyrococcus horikoshii >gi|... 108 3e-22
pir||G64488 reverse gyrase (intein-containing) - Methanococcus j... 105 1e-21
pdb|1CYY|B Chain B, Crystal Structure Of The 30 Kda Fragment Of ... 97 7e-19
pir||I40191 DNA topoisomerase I - Bacillus firmus >gi|39485|emb|... 92 2e-17
pir||H64574 DNA topoisomerase I - Helicobacter pylori (strain 26... 86 1e-15
pir||F71871 topoisomerase I - Helicobacter pylori (strain J99) >... 82 2e-14
gi|10956466 pXO2-77 [Bacillus anthracis] >gi|6470227|gb|AAF13681... 79 1e-13
gb|AAD15404.1| (AC006223) putative DNA topoisomerase III beta [A... 75 2e-12
pir||T18550 reverse gyrase chain B homolog rgyB - Methanopyrus k... 74 6e-12
gb|AAA03398.1| (U02242) unknown [Mycoplasma genitalium] 72 2e-11
>pir||A75055 DNA topoisomerase I (topa) PAB1430 - Pyrococcus abyssi (strain
Orsay) >gi|5458847|emb|CAB50334.1| (AJ248287) DNA
topoisomerase I (topA) [Pyrococcus abyssi]
Length = 685
Score = 1389 bits (3556), Expect = 0.0
Identities = 685/685 (100%), Positives = 685/685 (100%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ
Sbjct: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
Query: 61 DFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL 120
DFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL
Sbjct: 61 DFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL 120
Query: 121 KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRA 180
KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRA
Sbjct: 121 KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRA 180
Query: 181 LTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVAN 240
LTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVAN
Sbjct: 181 LTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVAN 240
Query: 241 YEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPK 300
YEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPK
Sbjct: 241 YEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPK 300
Query: 301 KTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPV 360
KTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPV
Sbjct: 301 KTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPV 360
Query: 361 EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGP 420
EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGP
Sbjct: 361 EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGP 420
Query: 421 HKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPA 480
HKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPA
Sbjct: 421 HKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPA 480
Query: 481 AVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE 540
AVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE
Sbjct: 481 AVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE 540
Query: 541 LTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEI 600
LTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEI
Sbjct: 541 LTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEI 600
Query: 601 KEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN 660
KEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN
Sbjct: 601 KEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN 660
Query: 661 GAPVVIIRDKGRDIEICLDIKCKKW 685
GAPVVIIRDKGRDIEICLDIKCKKW
Sbjct: 661 GAPVVIIRDKGRDIEICLDIKCKKW 685
>pir||E71106 probable DNA topoisomerase I - Pyrococcus horikoshii
>gi|3257028|dbj|BAA29711.1| (AP000003) 686aa long
hypothetical DNA topoisomerase I [Pyrococcus horikoshii]
Length = 686
Score = 1264 bits (3234), Expect = 0.0
Identities = 607/686 (88%), Positives = 658/686 (95%), Gaps = 6/686 (0%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
MIL+IAEKPNVARKIAGALSERRPI+K++FGVPYYE+FR+GKKLIVASAVGHLYGLAPK+
Sbjct: 1 MILIIAEKPNVARKIAGALSERRPIKKSLFGVPYYEIFREGKKLIVASAVGHLYGLAPKR 60
Query: 61 DFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL 120
D FGYPIFDIEWVPVYIAEK K+YA++YIKALSVLAKRV+EFIVACDYDTEGEVIGYTAL
Sbjct: 61 DVFGYPIFDIEWVPVYIAEKGKEYAREYIKALSVLAKRVREFIVACDYDTEGEVIGYTAL 120
Query: 121 KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRA 180
KYACGVDP AKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARH+LDWYWGVNLSRA
Sbjct: 121 KYACGVDPRVAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHILDWYWGVNLSRA 180
Query: 181 LTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVAN 240
LTHAIK+ASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP+PYWVIKL+ EKNGQK AN
Sbjct: 181 LTHAIKKASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPRPYWVIKLIFEKNGQKFTAN 240
Query: 241 YEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPK 300
YEKDKIW EEE K+IV EVKKS RVSN+E+KRQKR PP PFDLGTLQREAYSAFGFSPK
Sbjct: 241 YEKDKIWEEEEGKRIVLEVKKSIPRVSNVEIKRQKRTPPHPFDLGTLQREAYSAFGFSPK 300
Query: 301 KTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPV 360
KTLDIAQSLYEKGF+SYPRTESQKLP+N+NFR+IIQN+++MPQYRPYAH+LLG+PELKPV
Sbjct: 301 KTLDIAQSLYEKGFSSYPRTESQKLPRNINFRMIIQNLAKMPQYRPYAHILLGLPELKPV 360
Query: 361 EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGP 420
EGKKEDPAHPAIYPTGEIP PGDL+KDEEKLYDMIVRRFLA+FMEPA+RESVKVTI AGP
Sbjct: 361 EGKKEDPAHPAIYPTGEIPRPGDLTKDEEKLYDMIVRRFLAVFMEPAIRESVKVTIRAGP 420
Query: 421 HKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPA 480
HKF LSG RTVK+GWLSVYGKY+KF+EVTLPEFFIGER++V+QV+REKKKTKPPARYSPA
Sbjct: 421 HKFFLSGGRTVKKGWLSVYGKYVKFEEVTLPEFFIGERIKVIQVKREKKKTKPPARYSPA 480
Query: 481 AVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE 540
AVIKKMEDLG+GTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE
Sbjct: 481 AVIKKMEDLGLGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE 540
Query: 541 LTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEI 600
LTREFE+KM+LIM+G+LTKEEVIEEAK +LTKILEEFKKRELEIG+ELA+IVVG+ DE+
Sbjct: 541 LTREFEKKMELIMEGRLTKEEVIEEAKERLTKILEEFKKRELEIGIELAKIVVGE--DEV 598
Query: 601 KEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN 660
KP+VVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN
Sbjct: 599 ---KPLVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCN 655
Query: 661 GAPVVIIRDK-GRDIEICLDIKCKKW 685
GAPVVIIR++ GR+ EICLDI CK W
Sbjct: 656 GAPVVIIREEDGREFEICLDINCKDW 681
>gb|AAC26106.1| (AF042825) DNA topoisomerase I [Pyrococcus furiosus]
Length = 934
Score = 659 bits (1682), Expect = 0.0
Identities = 317/371 (85%), Positives = 351/371 (94%), Gaps = 7/371 (1%)
Query: 316 SYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT 375
SYPRTESQKLPKNLN++ IIQN++R+P+YRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT
Sbjct: 563 SYPRTESQKLPKNLNYKFIIQNLARIPEYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT 622
Query: 376 GEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGW 435
GEIP PGDL+KDE LYDMIVRRFLA+FMEPAVRE+VKVTI AG HKF +SG RTVK+GW
Sbjct: 623 GEIPRPGDLTKDEALLYDMIVRRFLAVFMEPAVRETVKVTISAGKHKFFISGGRTVKEGW 682
Query: 436 LSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKA 495
L VYGKY+KFDEVTLP FFIGER++VLQV+REKKKTKPPARYSPAAVIKKMEDLG+GTKA
Sbjct: 683 LRVYGKYVKFDEVTLPTFFIGERIKVLQVKREKKKTKPPARYSPAAVIKKMEDLGLGTKA 742
Query: 496 TRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
TRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFE+KM+LIM+G
Sbjct: 743 TRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFEKKMELIMEG 802
Query: 556 KLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCG 615
KLTKEEVIEEAK++LTKILEEFKK+ELEIGLELA+IVVG+ E+ P++VGKCPKCG
Sbjct: 803 KLTKEEVIEEAKIRLTKILEEFKKKELEIGLELAKIVVGE------EKPPLIVGKCPKCG 856
Query: 616 GDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCNGAPVVIIRDK-GRDI 674
GDLIVKYN+KTGKRFVGCSNWPKC+VTYPILQRGEIIPTNKTCCNGAPVVIIR+K GR+
Sbjct: 857 GDLIVKYNEKTGKRFVGCSNWPKCNVTYPILQRGEIIPTNKTCCNGAPVVIIREKDGREW 916
Query: 675 EICLDIKCKKW 685
EICLD+ CK++
Sbjct: 917 EICLDMNCKEY 927
Score = 347 bits (882), Expect = 2e-94
Identities = 166/194 (85%), Positives = 177/194 (90%)
Query: 127 DPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIK 186
DP AKRMKFSALTKRDL+ AW NLEPTINFGMANAGIARH+LDWYWGVNLSRALTHAIK
Sbjct: 1 DPGVAKRMKFSALTKRDLIKAWYNLEPTINFGMANAGIARHILDWYWGVNLSRALTHAIK 60
Query: 187 RASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKI 246
RASGKWVVLSTGRVQGPTLKFLV+REREIQS VP+PYWVIKL+ EKNG+K ANYEKDKI
Sbjct: 61 RASGKWVVLSTGRVQGPTLKFLVDREREIQSLVPQPYWVIKLIFEKNGEKYTANYEKDKI 120
Query: 247 WSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIA 306
W E EAK+IV EVKK+ ARV+NIEVK+Q RNPPVPFDLGTLQREAY AFGFSPKKTLDIA
Sbjct: 121 WDENEAKRIVLEVKKAPARVTNIEVKQQNRNPPVPFDLGTLQREAYPAFGFSPKKTLDIA 180
Query: 307 QSLYEKGFTSYPRT 320
QSLYEKGF +P T
Sbjct: 181 QSLYEKGFCLHPDT 194
>pir||B64506 DNA topoisomerase (EC 5.99.1.2) - Methanococcus jannaschii
>gi|1592234|gb|AAB99673.1| (U67605) DNA topoisomerase I
(topA) {Bacillus subtilis [Methanococcus jannaschii]
Length = 761
Score = 627 bits (1599), Expect = e-178
Identities = 342/686 (49%), Positives = 480/686 (69%), Gaps = 33/686 (4%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ-- 60
L+I EKP+VA+KIA AL + + +K+I GVPYYE+ RDGKK+IVASAVGHL+ L K+
Sbjct: 8 LIICEKPSVAKKIANALGKAK--KKSIDGVPYYELERDGKKIIVASAVGHLFTLVEKENK 65
Query: 61 DFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL 120
+F YP+FDI+WVP + +K K+Y YIKAL L+K EF +A D+D EGE+IGY AL
Sbjct: 66 EFGFYPVFDIKWVPASV-DKGKEYVNKYIKALKKLSKDADEFYIATDWDIEGELIGYHAL 124
Query: 121 KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRA 180
KY CG + +AKRM+FS+LTK++++ A+ N + I++G+ +AG +RH+LDWY+G+NLSRA
Sbjct: 125 KYCCGRE--KAKRMRFSSLTKKEIVRAFENPDE-IDYGLVDAGESRHILDWYFGINLSRA 181
Query: 181 LTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVAN 240
L +AI RA +W +S GRVQGP L FL ERE EI+ F+PKPYWVI+ +++ N L A
Sbjct: 182 LMNAI-RAVNRWKTMSVGRVQGPALAFLTERELEIKKFIPKPYWVIEALLKDN---LKAI 237
Query: 241 YEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSP 299
+EK+K W+E+EAK + ++K K A+V I+ ++K P PFDLGTLQREAYS F SP
Sbjct: 238 HEKEKFWNEKEAKNVYEKIKDEKSAKVVEIKKTKRKLKPLPPFDLGTLQREAYSYFKISP 297
Query: 300 KKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRM-PQYRPYAHLLLGMPELK 358
K+T +IAQ LYE SYPRT SQKLPK+ + I NI + P Y +A +L LK
Sbjct: 298 KETQEIAQKLYENALISYPRTSSQKLPKDRKYLEDILNIIKNHPVYGKWAERIL-KENLK 356
Query: 359 PVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILA 418
PVEGKKEDPAHPAI+ +IP +LS+ E+++YD+I RR LA F + A RE + V I
Sbjct: 357 PVEGKKEDPAHPAIHIV-DIPKE-ELSEKEKEIYDLIARRTLAAFWDNAEREYLNVKIDI 414
Query: 419 GPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYS 478
KF LSG+RTVK+GW +Y + KFDE+ LP + ++V ++ +K+T+PP RY+
Sbjct: 415 KGEKFKLSGSRTVKEGWHEIY-YFPKFDEIELPPLKKNDIIKVEKITITRKETQPPKRYT 473
Query: 479 PAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIIS 538
A++IK++E G+GTKATRA+I++ L +RGY+ S+KVT LG+ VIETL+++ PEII
Sbjct: 474 VASIIKELEKRGLGTKATRAEIIDKLIKRGYVIDDGSLKVTDLGISVIETLKRFCPEIID 533
Query: 539 VELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKD 598
++TR+ E K++ I K+ K++V++EA+ +L KILEEFKK+E +IG+ L + +
Sbjct: 534 EKMTRDLEEKLEKIQFRKIKKDDVLDEAEKRLRKILEEFKKKEEDIGIYLIKNL------ 587
Query: 599 EIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTC 658
+ +K +VGKCPKCGGDLI+ +KK RFVGCSN+P+CDV Y + +G I NK C
Sbjct: 588 DATNKKAKIVGKCPKCGGDLILIRHKK--GRFVGCSNYPECDVKYSLPDKGRIKIPNKVC 645
Query: 659 --CNGAPVVIIRDKGRDIEICLDIKC 682
C +P++ I D+ EIC++ +C
Sbjct: 646 DACK-SPILKIGDR----EICINPEC 666
>pir||A69084 DNA topoisomerase I - Methanobacterium thermoautotrophicum (strain
Delta H) >gi|2622750|gb|AAB86097.1| (AE000921) DNA
topoisomerase I [Methanobacterium thermoautotrophicum]
Length = 718
Score = 561 bits (1430), Expect = e-158
Identities = 295/683 (43%), Positives = 438/683 (63%), Gaps = 26/683 (3%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
++I EKP + KIAGAL ++K V Y+E K++ + SAVGHLY L P+Q
Sbjct: 11 VIICEKPKSSEKIAGALFPDA-MKKKHGKVSYWEHVEGDKRVTIVSAVGHLYSLRPRQSN 69
Query: 63 FGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKY 122
+ FD+EW P++ +K K Y KDY+ + A +I ACDYD EG +IG+ ALKY
Sbjct: 70 EEH-FFDLEWAPIHEIDKKKGYVKDYLNVIRKFAAGADRYIHACDYDIEGTLIGFNALKY 128
Query: 123 ACGVDPSR-AKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRAL 181
CG + R RMKFS LT+ ++ A++N +++G ++G ARH+LD+ +GVN+SR+L
Sbjct: 129 GCGEEALRKTSRMKFSTLTREEIQRAYKN-PIEVDYGQVDSGAARHILDFIFGVNISRSL 187
Query: 182 THAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANY 241
++K A+ +++ LS GRVQ PTL LVERE+EI+ F P PYW+I+ + G+ ++A
Sbjct: 188 MKSVKAATNRFIKLSAGRVQTPTLAILVEREKEIRDFKPVPYWIIRAEL---GEGIIAES 244
Query: 242 EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKK 301
++ KI+ E I+ + + S A V ++ V+ R PPVPFDLGTLQ EAY FGFSPKK
Sbjct: 245 KRGKIFKRELVDSILEKCQGSDAEVKDVRVRDTIRKPPVPFDLGTLQSEAYRVFGFSPKK 304
Query: 302 TLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVE 361
T IAQ+LY +G+TSYPRT SQKLP+++ + I++N+++ P++ + L G LKP E
Sbjct: 305 TQTIAQNLYTEGYTSYPRTSSQKLPESIGYEKILKNLAKNPRFGVHIERLRG--PLKPHE 362
Query: 362 GKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPH 421
GKKED AHPAI+PTG + P +LSKDE+K+YD+IV RF+++F E A+ +++KV + G
Sbjct: 363 GKKEDDAHPAIHPTGLL--PSELSKDEKKVYDLIVHRFISVFGEDAILQTMKVELEIGEE 420
Query: 422 KFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAA 481
+F S R K GW+ Y Y K ++ PE G+ + V V ++++TKPPARY+ A+
Sbjct: 421 EFSFSRKRVSKAGWMESY-PYTKMEDEEFPEISGGDSLAVRSVSADERETKPPARYNEAS 479
Query: 482 VIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVEL 541
+I+++E G+GTK+TRA I+ LY R YIEGKK I+V+PLG +I+TL +Y +IIS EL
Sbjct: 480 LIRELERRGLGTKSTRADIIAKLYDRKYIEGKK-IRVSPLGENIIDTLTRYCEKIISEEL 538
Query: 542 TREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIK 601
TR+FER+++ IM+GK++K+ VI+EA ++ IL + ++ +IG EL R
Sbjct: 539 TRQFERELEDIMRGKISKDRVIDEAITEVRSILSDIEENLRDIGKELYRAY--------- 589
Query: 602 EEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTCCNG 661
+ VVG+CP CGG L++KY+ + FVGCS++P C Y + + ++ K+ C
Sbjct: 590 -QDSRVVGECPACGGKLVIKYSPRNRSTFVGCSSYPDCRTVYSLPRGASVL---KSLCEK 645
Query: 662 APVVIIRDKGRDIEICLDIKCKK 684
+ +I CLD KC K
Sbjct: 646 CGLPMISYGRPRQRACLDPKCGK 668
>pir||H72563 probable DNA topoisomerase APE1794 - Aeropyrum pernix (strain K1)
>gi|5105484|dbj|BAA80797.1| (AP000062) 673aa long
hypothetical DNA topoisomerase [Aeropyrum pernix]
Length = 673
Score = 407 bits (1035), Expect = e-112
Identities = 242/599 (40%), Positives = 351/599 (58%), Gaps = 17/599 (2%)
Query: 4 VIAEKPNVARKIAGALSERRPI-RKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
++AEKP A KIA ALS+ R + R + +GVPY+ V RDG ++VA + GHL+G P D
Sbjct: 1 MVAEKPKAAAKIAYALSDGRGVLRCSEYGVPYWIVRRDGAAIVVAPSAGHLFG--PHTDS 58
Query: 63 FGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKY 122
G+P+FD EW P++ ++ Y + + LS + ++ ACDYD EG VIG+ ++
Sbjct: 59 RGFPVFDFEWRPIFEFDRGAGYLSKFYRMLSRILPGASLYVNACDYDIEGSVIGFKIIE- 117
Query: 123 ACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALT 182
A G D +RA+RMKFS L +D+ A+ +E ++ M AG+AR +DW WG+N+SRAL
Sbjct: 118 AFG-DVNRARRMKFSTLAPQDIRRAYARME-RLDVEMIEAGMARSEMDWLWGINVSRALM 175
Query: 183 HAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYE 242
A +RA+G+ V+LS GRVQ PTL R REI VPK +K+ EK G A
Sbjct: 176 EAARRAAGRRVILSAGRVQSPTLVEAYRRWREINLHVPKASVAVKITAEKGGGVFDARPH 235
Query: 243 KDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKK 301
K S E A+ I +E++K+ V + +R PP F+LG LQ+EA G P +
Sbjct: 236 GWKPQSLETARSIKSELRKNPWLAVEEVRSERSILRPPPAFNLGDLQKEANRILGLPPLR 295
Query: 302 TLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPE-LKPV 360
T IA+ LY + SYPRT SQKLP ++N+R I+ ++ P R LL L+PV
Sbjct: 296 TQSIAEELYLEALISYPRTNSQKLPPSINYRAILDKLAHGPLGREARELLKETGGVLRPV 355
Query: 361 EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAV--RESVKVTILA 418
+G K+DPAHPAI+PTGE P LSK+ +Y++IVRRFLA F A+ + SV +
Sbjct: 356 QGSKDDPAHPAIHPTGEKPSQR-LSKEHMAVYELIVRRFLAAFSREAIVSKSSVLLRDFQ 414
Query: 419 GPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYS 478
G + G R GWL Y Y E +P G++ RV++V + ++ P R
Sbjct: 415 G-RVWRAEGLRVEDLGWLKYY-HYSTPGEKPMPPLDRGDKARVVRVDVRVEWSQTPVRLD 472
Query: 479 PAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIIS 538
A++++ ME + IGT+ TRA+I+ETLY+RGY+EG + +VTPLG V ++ PE+
Sbjct: 473 KASLLRWMESVNIGTEGTRARIIETLYKRGYLEGSRKSEVTPLGEAVAVIIQTLFPELSK 532
Query: 539 VELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKR----ELEIGLELARIVV 593
+LTR FE ++ I G+ T++EVI+ +K ++K+LE F R EIG+ L + V
Sbjct: 533 PDLTRRFESMIEDIRSGRRTRQEVIDMSKKTISKLLESFLDRLDTAVREIGVSLGSVEV 591
>gb|AAK41190.1| DNA topoisomerase I family A (topA) [Sulfolobus solfataricus]
Length = 668
Score = 366 bits (929), Expect = e-100
Identities = 225/598 (37%), Positives = 346/598 (57%), Gaps = 26/598 (4%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVF-RDGKKLIVASAVGHLYGLAPKQD 61
L+IAEK A+KIA ALSE+ PI + V Y+ + + K ++ A GHL+GL +
Sbjct: 11 LIIAEKSKAAKKIAEALSEK-PILCRKYNVSYWIIKDHNSSKYVIVPAAGHLFGLKGES- 68
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALK 121
G+P++D +W P++ +KN Y K Y + +S L+K FI ACDYD EG VIGY +K
Sbjct: 69 --GFPVYDADWKPLWEIDKNSYYTKRYYQLISSLSKYALGFINACDYDIEGSVIGYLIIK 126
Query: 122 YACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRAL 181
D +AKRMKFSALTK D+L+A+RN+ +++ M NAGIARH +DW WG+N+SRAL
Sbjct: 127 NLG--DIKKAKRMKFSALTKSDILSAFRNIS-ALDYDMINAGIARHKIDWLWGINVSRAL 183
Query: 182 THAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKL--VA 239
+++ + K V+LS GRVQ PTL +V E E F+P P + + ++++ L
Sbjct: 184 MISLQDFAKKRVILSAGRVQSPTLVQVVNSEIERNLFIPLPKFTVSIIVKIKDYSLNIKV 243
Query: 240 NYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSP 299
N E +KI EAK+ + ++ +V +E + + P PF+L LQ EA +G SP
Sbjct: 244 NKEFEKI---TEAKEFLNKLINKTVKVVEVENRVRLLERPSPFNLTDLQIEAGRIYGISP 300
Query: 300 KKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKP 359
IA+ LY G SYPRT SQK+P ++ II+ + YR L+ + K
Sbjct: 301 YNVERIAEDLYLDGLISYPRTNSQKIPSTISIYNIIKGLEN-SSYRKLVDLVRKITGGKY 359
Query: 360 V--EGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTIL 417
V +G K+DPAHPAI+PTGE P +L + K+YD+I RRFL A + T+
Sbjct: 360 VVKQGIKDDPAHPAIHPTGE--APKNLPNSKFKIYDLIARRFLGSVSADAKLSNTIYTLK 417
Query: 418 AG--PHKFMLSGARTVKQGWLSVYGKY-IKFDEVTLPEFFI-GERVRVLQVRREKKKTKP 473
P +F +S + +++ WL +Y + +K D+ P F G+ +++ + +KP
Sbjct: 418 VSDFPLEFTVSYTKILERNWLDIYHFHNVKEDK---PIFLSKGDEGKIVDGKVNISLSKP 474
Query: 474 PARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKY 532
+RY+ +++K ME +GT+ATR +I+E L +R Y+ + I T LG + E L K+
Sbjct: 475 TSRYTKVSLLKWMESSNLGTEATRGRIIEILVKRKYLTNNGRYIIPTKLGFYIAEILNKF 534
Query: 533 VPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELAR 590
P+I+ V +T + E K+++I GK+ + +VI+E KL K +EE+K + ++G LA+
Sbjct: 535 FPDIVDVRMTADMESKLEMIKTGKVLESKVIKENIEKLNKFIEEYKVNKDKVGESLAK 592
>gi|11499394 DNA topoisomerase I (topA) [Archaeoglobus fulgidus]
>gi|7428459|pir||E69475 DNA topoisomerase I (topA)
homolog - Archaeoglobus fulgidus
>gi|2648740|gb|AAB89443.1| (AE000978) DNA topoisomerase
I (topA) [Archaeoglobus fulgidus]
Length = 663
Score = 361 bits (917), Expect = 1e-98
Identities = 232/659 (35%), Positives = 372/659 (56%), Gaps = 38/659 (5%)
Query: 3 LVIAEKPNVARKIAGAL-SERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQD 61
L+I EK N AR+IA L + + ++K V YY V GH+ L ++
Sbjct: 6 LIITEKDNTARRIASILFKDVKTLKKG--RVSYYH--SPSNDAYVVGLKGHIVELDFPKE 61
Query: 62 FFGYPIFDIE-WVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTAL 120
+ +E + + +K K+ I L +AK+ VA DYD EGE+IG AL
Sbjct: 62 LNNWTKTPLEKLLQAELVKKVKERTISSI--LKEIAKKADRVTVATDYDREGELIGVEAL 119
Query: 121 KYACGVDPS-RAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSR 179
+ V+P+ + R+++SA+T++++ +A+ ++F +ANA +AR +D WG L+R
Sbjct: 120 EIVKSVNPTVKVDRVRYSAVTEKEIRSAFSK-PVKVDFNLANAALARQKIDLIWGATLTR 178
Query: 180 ALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVA 239
++ R + LS GRVQ PTL+ +V+RE EIQ+F P+ Y+ I E +A
Sbjct: 179 LISVHSGRMGKDF--LSVGRVQTPTLRLIVDRELEIQNFKPEKYYEIFAEFEG----FIA 232
Query: 240 NYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSP 299
+ K + S+EEA+K+ ++ ++ A+V +R + N P PF+ REA S F SP
Sbjct: 233 KHPK-RYGSKEEAEKLFAKIGET-AKVEEFTRRRMEENRPTPFNTTEFLREA-SKF-MSP 288
Query: 300 KKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKP 359
K ++IA++LY G+ SYPRT++ P +N I+ +S + + A ++L ++ P
Sbjct: 289 HKAMNIAETLYMNGYISYPRTDNTVYPPTINLIEIVSALSSV--FPREAQIVLSQDKITP 346
Query: 360 VEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAG 419
G++E HP IYPTG + G+LSKDE +Y+++VRRFLA AV + +V + +
Sbjct: 347 SRGRRETKDHPPIYPTG-VAKRGELSKDEWTIYELVVRRFLATLAPKAVWDVRRVVLDSN 405
Query: 420 PHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSP 479
KF+ +G + V+ GW +Y Y K +E LP G+ +R+L+ R E+K+TKPP RYS
Sbjct: 406 GVKFVANGRQLVEAGWRDIY-IYSKAEETELPLLKKGDVLRILKKRLEEKETKPPGRYSA 464
Query: 480 AAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISV 539
+++IK ME L +GTK+TR +I++ L R YI G + + VI L++ I
Sbjct: 465 SSLIKMMEKLNLGTKSTRHEIIQKLVSRRYIHG-NPFRPSETAFSVINVLKETAETITLP 523
Query: 540 ELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDE 599
++T + E +MDLI +GK + EV++E++ L +IL R+L D+++
Sbjct: 524 DMTAKLENEMDLIAEGKKREPEVVDESREMLLQILRAIDYRKLS----------KDLREG 573
Query: 600 IKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNKTC 658
+K++K +VGKCP+CGG+L+V+ K GKRF+GCSN+P C T P+ Q G + T K C
Sbjct: 574 VKKDK--IVGKCPECGGELVVR-QSKAGKRFIGCSNYPDCTFTLPLPQNGTLYITAKQC 629
>emb|CAC11211.1| (AL445063) DNA topoisomerase III beta related protein [Thermoplasma
acidophilum]
Length = 770
Score = 343 bits (871), Expect = 3e-93
Identities = 237/757 (31%), Positives = 371/757 (48%), Gaps = 93/757 (12%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
++IAEK + R+IA LS + G Y E +G K + GH+ + +
Sbjct: 6 IIIAEKADAGRRIAYFLSGGQVKSHRAKGTSYLEFEYNGSKTYLIPLSGHIVEADFESGY 65
Query: 63 FGYPIFDI-EWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALK 121
+ D+ + + I + K+ K + L +V+E ++A DYD EGE+IG AL
Sbjct: 66 SDWNKIDLSDLIDARIVKNIKN--KVAYQTLQAFRGKVEEIVIATDYDREGELIGVEALD 123
Query: 122 YACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRAL 181
+R KFSALTK ++L++++NL +N+ +A+A AR +D WG L+R
Sbjct: 124 II-KEGKEEIRRAKFSALTKNEILDSFKNLIG-VNYSLADAADARESIDLIWGSVLTRFF 181
Query: 182 THAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANY 241
+ R + LS GRVQ PTL +V+REREIQSF P+ YW I + +K+GQ A Y
Sbjct: 182 SVTTGRLGKSF--LSAGRVQTPTLAIVVDREREIQSFRPERYWTISITFDKDGQ-FKARY 238
Query: 242 EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKK 301
++ I ++ A+KI +K RVS+ K P PF REA S G P K
Sbjct: 239 PEN-IKDQDTAEKIYEAIKGKNGRVSSYTSKEDHIRRPAPFSTTEFLREA-SRIGIMPTK 296
Query: 302 TLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVE 361
+ IA++LY +G SYPRT++ P+++N + +++ + Y Y + + P
Sbjct: 297 AMSIAENLYMRGLISYPRTDNTVYPRSINLKSVLKKLENTA-YSKYVKEIETFDRILPSR 355
Query: 362 GKKEDPAHPAIYPTGEIPGPGD-LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGP 420
G+ E HP IYP + P + L D ++YD+I+R FL+ + + I
Sbjct: 356 GRIETTDHPPIYP---VDSPKEQLKGDYGRVYDLILRHFLSTLYRDGKKTVAEAEIYVNG 412
Query: 421 HKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPA 480
+ F +G T +GW +YG K +V LPE GE ++ + ++++TKPP RY +
Sbjct: 413 YTFKAAGQHTTDRGWTEIYGYDPK--DVYLPELTEGEDLKAIDWNIQREETKPPPRYDMS 470
Query: 481 AVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIETLEKYVPEIISVE 540
+++KKME+L +GTK+TR I+ L +RG+IEG +K TPLGM I+ + I E
Sbjct: 471 SLLKKMEELNLGTKSTRHDIIGKLIERGFIEG-NPVKPTPLGMAFIDAVRSVNSHIADPE 529
Query: 541 LTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEI----------GLELAR 590
+T + E MD I + +++K +V+EE+K L ++L F + ++ G E+
Sbjct: 530 MTAKLEEDMDRIEKNEMSKNDVVEESKKMLHEVLSHFLTKTADVKDIITKGINAGQEIGD 589
Query: 591 ---------IVVGD--------------VKDEIKEEKPIVVG--KCPKCGGDLI------ 619
+V+ D + IK I + KCP CG +I
Sbjct: 590 CPFHEGKKIMVIRDRFTYTVRCEDPSCKINFRIKRNGSITLSDQKCPVCGLPMIKIIRKG 649
Query: 620 -----------VKYNK--------------------KTGKRFVGCSNWPKCDVTYPILQR 648
YN+ K GKRF+GCSN+PKC VTYP+ Q
Sbjct: 650 QSPEIKCIDPDCSYNRENEDYGECPADHGRLVLRQSKYGKRFLGCSNYPKCTVTYPLPQM 709
Query: 649 GEIIPTNKTC--CNGAPVVIIRDKGRDIEICLDIKCK 683
G I T + C C GAP++ + GR + C +++C+
Sbjct: 710 GRITKTGEVCPYC-GAPILALSRNGRKWKFCPNMQCE 745
>pir||B81266 DNA topoisomerase (EC 5.99.1.2) I Cj1686c [imported] -
Campylobacter jejuni (strain NCTC 11168)
>gi|6969101|emb|CAB73672.1| (AL139079) DNA topoisomerase
I [Campylobacter jejuni]
Length = 700
Score = 266 bits (674), Expect = 4e-70
Identities = 205/617 (33%), Positives = 296/617 (47%), Gaps = 57/617 (9%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
GK V ++ GH+ L PK F G I D E++P Y D++ +K L AK K
Sbjct: 22 GKDYEVIASKGHIRDL-PKSSF-GIKIEDDEFIPEY--RITSDHSA-LVKELKSKAKDAK 76
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
E +A D D EGE I Y K A G D + R+ F +TK + NA +N +N
Sbjct: 77 EVYLATDEDREGEAIAYHIAK-AIGKDENTLPRIVFHEITKSAIENALKNPRK-LNMHSV 134
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
NA R +LD G LS L I+R LS GRVQ LK +V+RE+EI++FVP
Sbjct: 135 NAQQTRRLLDRIVGYKLSPLLGQKIQRG------LSAGRVQSAALKIIVDREKEIRAFVP 188
Query: 221 KPYWVIKLVIEKNGQKLVANYEKDKI-----WSEEEAKKIVTEVKKSKARVSNIEVKRQK 275
Y+ I ++ +K+ + ++K KI +++ AK I+ K +S+IE K +K
Sbjct: 189 LEYFSIDMIFQKDLDAELVEFDKAKIEKLTITNKDRAKLILEACKNEVYSISDIESKERK 248
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQKLPK 327
PP PF TLQ+ A + GF+PKKT+ IAQ LYE G +Y RT+S L K
Sbjct: 249 IAPPPPFMTSTLQQSASNRLGFNPKKTMMIAQKLYEGVNTHEGVMGVITYMRTDSLNLAK 308
Query: 328 NLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGP----GD 383
++N + Q L + + K AH AI PT P
Sbjct: 309 E-----AVENARKFIQANFGKDYLPSKANVYTTKTKGAQEAHEAIRPTNLSFTPEIAAKF 363
Query: 384 LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYI 443
L KDE KLY +I RFLA M PA+ ++ V + F +SG + + G+ VYG
Sbjct: 364 LDKDELKLYTLIYNRFLACQMSPAISQTQNVFVKNDRVVFKISGRKILFDGYYKVYGDMD 423
Query: 444 KFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILET 503
K + LP F IG+ ++V + T+PP+RYS A ++KK+E LGIG +T A +
Sbjct: 424 K--DKILPNFKIGQNLKVQNLEMNSHFTEPPSRYSEAGLVKKLESLGIGRPSTYAPTISI 481
Query: 504 LYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEV 562
L R Y+ KK + + + V E LEK +I+ + T E +D I + K +E
Sbjct: 482 LTSRDYVTIDKKQLIPSDVAFNVTEVLEKNFSDIVDSKFTSNLENTLDEIAEDKADWQET 541
Query: 563 IEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKY 622
++E + +EE K + I + +G+ CP CGG+L ++
Sbjct: 542 LKEFYYPFMRKIEEGKTK---IASQKTVTKLGE--------------SCPDCGGELAIR- 583
Query: 623 NKKTGKRFVGCSNWPKC 639
K FV C N+PKC
Sbjct: 584 -KGRFGEFVACLNFPKC 599
>gb|AAG18918.1| (AE004994) DNA topoisomerase I; TopA [Halobacterium sp. NRC-1]
Length = 663
Score = 264 bits (667), Expect = 3e-69
Identities = 157/496 (31%), Positives = 259/496 (51%), Gaps = 27/496 (5%)
Query: 173 WGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEK 232
WG +L+R L+ + + ++ S GRVQ PTLK +V++EREI++F P YW + + K
Sbjct: 2 WGASLTRFLSLSAGQMGEDFI--SVGRVQSPTLKLIVDKEREIEAFDPDDYWELFADLRK 59
Query: 233 NGQKLVANY---------EKDKIWSEEEAKKIVTEVKKS-KARVSNIEVKRQKRNPPVPF 282
+ A Y E +++W+E +A ++++ +A V ++ + + +PP PF
Sbjct: 60 DQTTFEAQYFYEDPADGTEAERVWNEGDADAAFDALRQAGEAVVDSVSRRTRTDDPPAPF 119
Query: 283 DLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMP 342
+ R A S G+S + + IA+ LY G+ +YPRT++ P +L+ R +++ +
Sbjct: 120 NTTQFIRAAGS-LGYSAGRAMSIAEDLYTAGYITYPRTDNTVYPDDLDERDLLEAFQQTV 178
Query: 343 QYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLAL 402
+ A LL L P G +E HP I+PT + P LS+DE +Y+++VRRF A
Sbjct: 179 -FGDDADSLLDQDRLSPTSGDEETTDHPPIHPTTDFPDRNQLSEDEWAVYELVVRRFFAT 237
Query: 403 FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVL 462
PA ++VT A +G R V+ G+ +VY Y E +P G+ + +
Sbjct: 238 VAAPAEWAHLRVTADADGESLKANGKRLVEAGYHAVY-PYYDSSENHVPPVEEGDTLAIT 296
Query: 463 QVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLG 522
R + K+T+PP RY + +I+ ME + IGTK+TR +E LY RGYIE + T L
Sbjct: 297 DARLDAKQTQPPRRYGQSRLIETMESMDIGTKSTRHNTIEKLYDRGYIENDPP-RPTTLA 355
Query: 523 MKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKREL 582
V+E E Y ++S E+T + E M I G+ T ++V E++ L ++ +E
Sbjct: 356 EAVVEAAEDYADVVVSEEMTSQLEADMTAIADGETTLDDVTTESREMLDRVFDELTASRA 415
Query: 583 EIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVT 642
EIG L + +K +K + G CP+CG L+++ +TG FVGC +P+C T
Sbjct: 416 EIGDHL--------RTSLKADKSL--GPCPECGDTLLLR-QSRTGSHFVGCDGYPECQFT 464
Query: 643 YPILQRGEIIPTNKTC 658
P+ G+ + + C
Sbjct: 465 LPLPSTGDPLVMDAVC 480
>sp|Q9KA23|TOP1_BACHD DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|10175087|dbj|BAB06186.1|
(AP001515) DNA topoisomerase I [Bacillus halodurans]
Length = 690
Score = 259 bits (655), Expect = 7e-68
Identities = 200/632 (31%), Positives = 323/632 (50%), Gaps = 65/632 (10%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
GKK V +++GH+ L Q G I D E+ P YI + K +K L AK+VK
Sbjct: 22 GKKYTVKASMGHVRDLPKSQ--MGVDIED-EYSPRYITIRGKG---PVLKELKSAAKKVK 75
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
+A D D EGE I + L ++ +D + R+ F+ +TK+ + +A+++ P IN +
Sbjct: 76 RVYLAADPDREGEAIAWH-LAHSLDIDETSECRVVFNEITKQAIKDAFKSPRP-INMDLV 133
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
+A AR VLD G N+S L +K+ LS GRVQ +K +++RE+EIQ+F P
Sbjct: 134 DAQQARRVLDRLVGYNISPLLWKKVKKG------LSAGRVQSVAVKMIIDREKEIQAFEP 187
Query: 221 KPYWVIKLVIEKNGQKLVANY-----EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQK 275
+ YW I+ +G+ A + +K ++ SE++ ++ ++K + V +++ K +K
Sbjct: 188 EEYWSIQGTFALDGEPFEAKFYGTNGKKVELKSEDDVNNVLAKLKGDQFHVDSVQKKERK 247
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE---------KGFTSYPRTESQKLP 326
RNP PF +LQ+EA F KKT+ +AQ LYE G +Y RT+S ++
Sbjct: 248 RNPVSPFTTSSLQQEAARKLNFRAKKTMMLAQQLYEGIDLGKEGTVGLITYMRTDSTRIS 307
Query: 327 KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD--- 383
S+ + YA G +K + KK AH AI PT P
Sbjct: 308 DTAKAETKEYIESKFG--KEYAQ--NGTKAVK--KDKKSQDAHEAIRPTSVERDPKSLKE 361
Query: 384 -LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVY--- 439
LS+D+ +LY +I R +A M PA+ +++ V + F +G++ G++ VY
Sbjct: 362 YLSRDQLRLYKLIWERLVASQMAPAIMDTMTVDLSNEGVLFRATGSKVKFPGFMKVYIEG 421
Query: 440 ---GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKAT 496
GK K ++ LP G+ V ++ + T+PP RY+ A ++K ME+LGIG +T
Sbjct: 422 NDEGK--KEEDRLLPNLQEGQTVTKEEIEPSQHFTQPPPRYTEARLVKTMEELGIGRPST 479
Query: 497 RAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
A L+T+ +RGY+ ++ T LG V+E + ++ PEI+ VE T + E +D
Sbjct: 480 YAPTLDTIQKRGYVALDERRFVPTELGEIVLELMTEFFPEILDVEFTAKMEDDLD----- 534
Query: 556 KLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCG 615
IEE K + KI+++F K E L++A + +V EIK+E C KCG
Sbjct: 535 ------SIEEGKQQWIKIIDDFYK-GFEERLKVAEEEMKEV--EIKDEP--TGEMCEKCG 583
Query: 616 GDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQ 647
+++ K + +F+ CSN+P C T PI++
Sbjct: 584 HEMVYKMGRY--GKFMACSNFPDCRNTKPIVK 613
>sp|P39814|TOP1_BACSU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7449002|pir||G69724 DNA
topoisomerase I topA - Bacillus subtilis
>gi|520753|gb|AAA22763.1| (L27797) DNA topoisomerase I
[Bacillus subtilis] >gi|2462970|emb|CAA04422.1|
(AJ000975) DNA Topoisomerase I [Bacillus subtilis]
>gi|2633984|emb|CAB13485.1| (Z99112) DNA topoisomerase I
[Bacillus subtilis]
Length = 691
Score = 249 bits (628), Expect = 1e-64
Identities = 192/647 (29%), Positives = 316/647 (48%), Gaps = 67/647 (10%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
GKK V +++GH+ L Q G I + + P YI + K +K L AK+ K
Sbjct: 22 GKKYKVKASMGHVRDLPKSQ--MGVDI-EQNFEPKYITIRGKG---PVLKELKTAAKKAK 75
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
+ +A D D EGE I + L ++ +D + R+ F+ +TK + ++++ IN +
Sbjct: 76 KVYLAADPDREGEAIAWH-LAHSLDLDLNSDCRVVFNEITKDAIKESFKHPR-MINMDLV 133
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
+A AR +LD G +S L +K+ LS GRVQ L+ +++RE+EI F P
Sbjct: 134 DAQQARRILDRLVGYKISPILWKKVKKG------LSAGRVQSVALRLIIDREKEINDFKP 187
Query: 221 KPYWVIKLVIEKNGQKLVANY-----EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQK 275
+ YW I K + A++ +K + SE + K+I++++K ++ V + K +K
Sbjct: 188 EEYWTIDGTFLKGQETFEASFFGKNGKKLPLNSEADVKEILSQLKGNQYTVEKVTKKERK 247
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE---------KGFTSYPRTESQKLP 326
RNP +PF TLQ+EA F KKT+ IAQ LYE G +Y RT+S ++
Sbjct: 248 RNPALPFTTSTLQQEAARKLNFRAKKTMMIAQQLYEGIDLGREGTVGLITYMRTDSTRIS 307
Query: 327 KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD--- 383
+ + + + Q Y LG + + AH AI PT + P +
Sbjct: 308 NT----AVDEAAAFIDQ--TYGKEFLGGKRKPAKKNENAQDAHEAIRPTSVLRKPSELKA 361
Query: 384 -LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVY--G 440
L +D+ +LY +I RF+A M PAV +++ V + F +G++ G++ VY G
Sbjct: 362 VLGRDQMRLYKLIWERFVASQMAPAVLDTMSVDLTNNGLTFRANGSKVKFSGFMKVYVEG 421
Query: 441 KYIKFDEV--TLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRA 498
K + +E LP+ G+ V + E+ T+PP RY+ A ++K +E+ GIG +T A
Sbjct: 422 KDDQMEEKDRMLPDLQEGDTVLSKDIEPEQHFTQPPPRYTEARLVKTLEERGIGRPSTYA 481
Query: 499 QILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKL 557
L+T+ +RGY+ K T LG V++ + ++ PEII+VE T + ER +D + +G
Sbjct: 482 PTLDTIQRRGYVALDNKRFVPTELGQIVLDLIMEFFPEIINVEFTAKMERDLDHVEEGNT 541
Query: 558 TKEEVIEEAKVKLTKILE--EFKKRELEIGLELA-------------------RIVVGDV 596
++I+ K ++ E + +E+EI E A + +
Sbjct: 542 EWVKIIDNFYTDFEKRVKKAESEMKEVEIEPEYAGEDCELCSSPMVYKMGRYGKFLACSN 601
Query: 597 KDEIKEEKPIV--VG-KCPKCGGDLIVKYNKKTGKRFVGCSNWPKCD 640
+ + KPIV +G KCP CG IV+ K + F GC +P C+
Sbjct: 602 FPDCRNTKPIVKQIGVKCPSCGEGNIVERKSKKKRVFYGCDRYPDCE 648
>emb|CAA71737.1| (Y10747) topoisomerase I [Helicobacter pylori]
Length = 736
Score = 246 bits (621), Expect = 7e-64
Identities = 197/620 (31%), Positives = 302/620 (47%), Gaps = 65/620 (10%)
Query: 42 KKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE 101
K V ++ GH+ L+ + G I + + P Y+ +K+ K+ +K + L+K+
Sbjct: 22 KNYEVIASKGHVRDLS--KFALGIKIDETGFTPNYVVDKDH---KELVKQIIELSKKAST 76
Query: 102 FIVACDYDTEGEVIGYTALKYAC--GVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGM 159
+A D D EGE IGY AC G R+ F +T+ +LNA + I+
Sbjct: 77 TYIATDEDREGEAIGYHV---ACLIGGKLESYPRIVFHEITQNAILNALKTPRQ-IDMSK 132
Query: 160 ANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFV 219
NA AR LD G LS ++ I + LS GRVQ LK +++REREI++F
Sbjct: 133 VNAQQARRFLDRIVGFKLSSLISSKITKG------LSAGRVQSAALKLVIDREREIKAFK 186
Query: 220 PKPYWVIKLVIEKNGQKLVANYEKDKIWSEE-----EAKKIVTEVKKSKARVSNIEVKRQ 274
P Y+ + E N + + +Y+ +K+ ++E +A++I E++K +S+I K +
Sbjct: 187 PLTYFTLDAYFEPNLEAQLISYKGNKLKAQELIDEKKAQEIKNELEKESYTISSIVKKSK 246
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQKLP 326
K P PF TLQ+ A S GFSP KT+ IAQ LYE G +Y RT+S +
Sbjct: 247 KSPTPPPFMTSTLQQSASSLLGFSPTKTMSIAQKLYEGVATPQGVMGVITYMRTDSLNIA 306
Query: 327 KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTGEIPGPG-- 382
K + +R + Y L P+ K K ++ AH AI PT I P
Sbjct: 307 KEAS------EEARAKILKDYGKDYL-PPKAKVYSSKNKNAQEAHEAIRPTSIILEPNAL 359
Query: 383 -DLSKDEE-KLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYG 440
D K EE KLY +I +RFLA M+ A+ ES V + +F SG + + G+ + G
Sbjct: 360 KDYLKPEELKLYALIYKRFLASQMQDALFESQSVVVACEKGEFKASGRKLLFDGYYKILG 419
Query: 441 KYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQI 500
K + LP + +++ ++ T+ PARYS A++IK +E LGIG +T A
Sbjct: 420 NDDK--DKLLPNLKENDPIKLERLESNAHVTESPARYSEASLIKVLESLGIGRPSTYAPT 477
Query: 501 LETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK 559
+ L R YI+ KK I KVIE LEK+ EI+ + + E ++D I Q K
Sbjct: 478 ISLLQNRDYIKVEKKQISALESAFKVIEILEKHFEEIVDSKFSASLEEELDNIAQNKADY 537
Query: 560 EEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLI 619
++V+++ +E KK I+ V ++ + CPKCGG+L
Sbjct: 538 QQVLKDFYYPFMDKIEAGKK----------NIISQKVHEKTGQ-------SCPKCGGEL- 579
Query: 620 VKYNKKTGKRFVGCSNWPKC 639
VK N + G+ F+ C+N+PKC
Sbjct: 580 VKKNSRYGE-FIACNNYPKC 598
>sp|O66893|TOP1_AQUAE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7521740|pir||A70358
topoisomerase I - Aquifex aeolicus
>gi|2983253|gb|AAC06848.1| (AE000700) topoisomerase I
[Aquifex aeolicus]
Length = 540
Score = 243 bits (614), Expect = 5e-63
Identities = 179/540 (33%), Positives = 271/540 (50%), Gaps = 38/540 (7%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
GK +V + +GH+ L K+ G + ++ VY K K ++ L L++R
Sbjct: 20 GKGFLVKATLGHVKDLPEKE--LGVDLRTLKAKYVYKRGKKK-----LVEQLKKLSRRSS 72
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
+ D D EGE I Y K V+ + KR F +T + + RN +N +
Sbjct: 73 IVYLGTDPDREGEAIAYFLKKDLEKVNKN-IKRAVFYEITPEAIRESIRNAGD-VNMNLV 130
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
A AR +LD G +S L K LS GRVQ P L+ +VEREREIQ+F
Sbjct: 131 YAQFARRILDRLIGYLISPILWKEFKNYK-----LSAGRVQSPALRLIVEREREIQNFKV 185
Query: 221 KPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPV 280
K Y+ +K ++ K ++ A Y+ + + +AK I +++K V +E K++K +PP
Sbjct: 186 KKYYYVKALLRKGSEEFWAIYDY-RYENPSDAKIIAKKLEKGYFSVYKVEKKKEKVSPPK 244
Query: 281 PFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISR 340
PF LQ EA + FGFS ++T +AQ LYEKG+ +YPRT+S ++ N N
Sbjct: 245 PFITSDLQSEANAKFGFSSERTQKLAQELYEKGYITYPRTDSYRM--NEKKAKEFMNYIE 302
Query: 341 MPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG---EIPGPGDLSKDEEKLYDMIVR 397
+ Y L E +G AH I PT EIP +L LYD+I R
Sbjct: 303 KKYGKEYVGRLRRFREKATAQG-----AHECIRPTSLREEIPEREEL----RLLYDLIFR 353
Query: 398 RFLALFMEPAVRESVKVTI------LAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLP 451
R +A M+ + E KVT+ L P + G + V GW VY I E LP
Sbjct: 354 RTIASLMKEMLLEREKVTVEAITPELKHPVYLVAKGLKIVFDGWSRVYPSEI--TEEKLP 411
Query: 452 EFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIE 511
E + G+ + +++ E++KT+PP RY+ +IK +E LGIG +T A I++TL +RGY+E
Sbjct: 412 ELYEGDLLDLVKTTLEERKTQPPPRYTEGTLIKTLEKLGIGRPSTYATIVKTLKERGYVE 471
Query: 512 GKKSIKV-TPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKL 570
KK V T + +V+E L + P ++ + T + E K+DL+ +GKL + V+ E K+
Sbjct: 472 VKKKALVPTEIAFQVVEFLMERFPTLMDYKFTAQMEEKLDLVEEGKLNWKSVVYEFMEKI 531
>sp|P55991|TOP1_HELPY DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7449001|pir||D64534 DNA
topoisomerase I - Helicobacter pylori (strain 26695)
>gi|2313198|gb|AAD07184.1| (AE000533) DNA topoisomerase
I (topA) [Helicobacter pylori 26695]
Length = 736
Score = 243 bits (613), Expect = 6e-63
Identities = 196/620 (31%), Positives = 301/620 (47%), Gaps = 65/620 (10%)
Query: 42 KKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE 101
K V ++ GH+ L+ + G I + + P Y+ +K+ K+ +K + L+K+
Sbjct: 22 KNYEVIASKGHVRDLS--KFALGIKIDETGFTPNYVVDKDH---KELVKQIIELSKKASI 76
Query: 102 FIVACDYDTEGEVIGYTALKYAC--GVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGM 159
+A D D EGE IGY AC G R+ F +T+ +LNA + I+
Sbjct: 77 TYIATDEDREGEAIGYHV---ACLIGGKLESYPRIVFHEITQNAILNALKTPRK-IDMSK 132
Query: 160 ANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFV 219
NA AR LD G LS + I + LS GRVQ LK ++++EREI++F
Sbjct: 133 VNAQQARRFLDRIVGFKLSSLIASKITKG------LSAGRVQSAALKLVIDKEREIKAFK 186
Query: 220 PKPYWVIKLVIEKNGQKLVANYEKDKIWSEE-----EAKKIVTEVKKSKARVSNIEVKRQ 274
P Y+ + E + + + +Y+ +K+ ++E +A++I E++K +S+I K +
Sbjct: 187 PLTYFTLDAYFESHLEAQLISYKGNKLKAQELIDEKKAQEIKNELEKESYAISSIVKKSK 246
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQKLP 326
K P PF TLQ+ A S GFSP KT+ IAQ LYE G +Y RT+S
Sbjct: 247 KSPTPPPFMTSTLQQSASSLLGFSPTKTMSIAQKLYEGVATPQGVMGVITYMRTDS---- 302
Query: 327 KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTGEIPGPG-- 382
LN +R + Y L P+ K K ++ AH AI PT I P
Sbjct: 303 --LNIAKEALEEARNKILKDYGKDYL-PPKAKVYSSKNKNAQEAHEAIRPTSIILEPNAL 359
Query: 383 -DLSKDEE-KLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYG 440
D K EE +LY +I +RFLA M+ A+ ES V + +F SG + + G+ + G
Sbjct: 360 KDYLKPEELRLYTLIYKRFLASQMQDALFESQSVVVACEKGEFKASGRKLLFDGYYKILG 419
Query: 441 KYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQI 500
K + LP + +++ ++ T+PPARYS A++IK +E LGIG +T A
Sbjct: 420 NDDK--DKLLPNLKENDPIKLEKLESNAHVTEPPARYSEASLIKVLESLGIGRPSTYAPT 477
Query: 501 LETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK 559
+ L R YI+ KK I KVIE LEK+ EI+ + + E ++D I Q K
Sbjct: 478 ISLLQNRDYIKVEKKQISALESAFKVIEILEKHFEEIVDSKFSASLEEELDNIAQNKADY 537
Query: 560 EEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLI 619
++V+++ +E KK I+ V ++ + CPKCGG+L
Sbjct: 538 QQVLKDFYYPFMDKIEAGKK----------NIISQKVHEKTGQ-------SCPKCGGEL- 579
Query: 620 VKYNKKTGKRFVGCSNWPKC 639
VK N + G+ F+ C+N+PKC
Sbjct: 580 VKKNSRYGE-FIACNNYPKC 598
>sp|Q9ZMV7|TOP1_HELPJ DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7449000|pir||B71972 DNA
topoisomerase I - Helicobacter pylori (strain J99)
>gi|4154624|gb|AAD05695.1| (AE001450) DNA TOPOISOMERASE
I [Helicobacter pylori J99]
Length = 736
Score = 240 bits (605), Expect = 5e-62
Identities = 196/620 (31%), Positives = 300/620 (47%), Gaps = 65/620 (10%)
Query: 42 KKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE 101
K V ++ GH+ L+ + G I + + P Y+ +K+ K+ +K + L+K+
Sbjct: 22 KNYEVVASKGHVRDLS--KFALGIKIDETGFTPNYVVDKDH---KELVKQIIELSKKASI 76
Query: 102 FIVACDYDTEGEVIGYTALKYAC--GVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGM 159
+A D D EGE IGY AC G R+ F +T+ +LN + I+
Sbjct: 77 TYIATDEDREGEAIGYHV---ACLIGGKLESYPRIVFHEITQNAILNVLKTPRK-IDMFK 132
Query: 160 ANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFV 219
NA AR +LD G LS + I + LS GRVQ LK +++RE+EI+ F
Sbjct: 133 VNAQQARRLLDRIVGFKLSSLIASKITKG------LSAGRVQSAALKLVIDREKEIRPFK 186
Query: 220 PKPYWVIKLVIEKNGQKLVANYEKDKIWSEE-----EAKKIVTEVKKSKARVSNIEVKRQ 274
P Y+ + + E + + + +Y+ +K+ ++E +A++I E++K +S+I K +
Sbjct: 187 PLTYFTLDALFEPHLEAQLISYKGNKLKAQELIDEKKAQEIKNELEKESYIISSIIKKSK 246
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQKLP 326
K P PF TLQ+ A S GFSP KT+ IAQ LYE G +Y RT+S
Sbjct: 247 KSPTPPPFMTSTLQQSASSLLGFSPTKTMSIAQKLYEGVATPQGVMGVITYMRTDS---- 302
Query: 327 KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTGEIPGPG-- 382
LN +R + Y L P+ K K ++ AH AI PT I P
Sbjct: 303 --LNIAKEALEEARAKILKDYGKDYL-PPKAKVYSSKNKNAQEAHEAIRPTSIILEPNAL 359
Query: 383 -DLSKDEE-KLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYG 440
D K EE KLY +I +RFLA M+ A+ ES V + +F SG + + G + G
Sbjct: 360 KDYLKPEELKLYTLIYKRFLASQMQDALFESQSVVVACEKGEFKASGRKLLFDGHYKILG 419
Query: 441 KYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQI 500
K + LP + +++ ++ T+PPARYS A++IK +E LGIG +T A
Sbjct: 420 NDDK--DKLLPNLKENDPIKLEKLESNAHVTEPPARYSEASLIKVLESLGIGRPSTYAPT 477
Query: 501 LETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK 559
+ L R YI+ KK I KVIE LEK+ EI+ + + E ++D I Q K
Sbjct: 478 ISLLQNRDYIKVEKKQISALESAFKVIEILEKHFEEIVDSKFSASLEEELDNIAQNKADY 537
Query: 560 EEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLI 619
++V+++ +E KK I+ V ++ + CPKCGG+L
Sbjct: 538 QQVLKDFYYPFMDKIEAGKK----------NIISQKVHEKTGQ-------SCPKCGGEL- 579
Query: 620 VKYNKKTGKRFVGCSNWPKC 639
VK N + G+ F+ C+N+PKC
Sbjct: 580 VKKNSRYGE-FIACNNYPKC 598
>dbj|BAB07106.1| (AP001518) DNA topoisomerase III [Bacillus halodurans]
Length = 721
Score = 236 bits (596), Expect = 6e-61
Identities = 196/670 (29%), Positives = 324/670 (48%), Gaps = 52/670 (7%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQD 61
++VIAEKP+ K+A R ++ V + F G AVGHL L P +
Sbjct: 4 VVVIAEKPDQGMKLAAPFPHRN--KRGYVEVAPCDQFPAGA--FFTWAVGHLCELCPPEQ 59
Query: 62 FF-GYPIFDIEWVP------VYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEV 114
+ + + +E +P V+ + K I++L V K V E ++A D EGE+
Sbjct: 60 YDPSWKKWTLEALPLIPQSFVHRVSRGKKDQFQVIRSL-VHRKEVTEIVMAGDAGREGEL 118
Query: 115 IGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG-MANAGIARHVLDWYW 173
I LK C V + R+ S+LTK+ +++ + L+ + + + ++R DW
Sbjct: 119 IVRLILKQ-CRVK-KKTSRLWLSSLTKQAVVSGFHQLKSAESTEPLYHEALSRSCADWLI 176
Query: 174 GVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKN 233
G+N++RA T +K+ G + STGRVQ PTL +V+RE+EI++F KP+W +K
Sbjct: 177 GMNVTRAYTLLLKK-KGVDSLFSTGRVQTPTLALIVKREKEIEAFESKPFWEVKATFRVQ 235
Query: 234 GQKLVANYEKDK---IWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQRE 290
G + + KD+ ++ + A+ I + + +V+ ++ + + PP F+L +LQ
Sbjct: 236 GHEYEGIWHKDRETRLFDQPMAEAIAAFCRGKQGKVTKVKKETKTLKPPYLFNLSSLQAT 295
Query: 291 AYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHL 350
A F FSPKKTLD+AQ LY KG SYPRT+S L + + + + Q YA L
Sbjct: 296 ANKRFTFSPKKTLDVAQKLYVKGHISYPRTDSSFLTAE-EGKAAKRIVQLLKQEDAYASL 354
Query: 351 LL----GMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEP 406
+ + + + + H AI PT ++P L+KDE+ LYD+IVR+FLA M
Sbjct: 355 FPLDRDNLLQDRRYVNQSKVTDHYAIIPTDDVPKVQTLAKDEQLLYDLIVRQFLAAHMRE 414
Query: 407 AVRESVKV-TILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
A +V T++ F+ G + + QGW + G + +P G V
Sbjct: 415 AKIAYTEVETLVDERATFLTKGKQLLDQGWKQIIGLSKDDKDEDIPPLEEGWTGDVKHAD 474
Query: 466 REKKKTKPPARYSPAAVIKKMEDL-----------------GIGTKATRAQILETLYQRG 508
+ KTKPP+RY+ +I M+ + G+GT+ATRA I+ L R
Sbjct: 475 VREGKTKPPSRYTEGQLITLMKTVGKHVEDDELEKVLMRTEGLGTEATRAGIITLLKDRQ 534
Query: 509 YIEGKKS-IKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAK 567
YIE KK+ + T G +IE L + + S E+T ++E+++ I +G+ +E+ K
Sbjct: 535 YIEIKKNVVYATEKGKLLIEALGPSL--LASPEMTAKWEQRLFEIGRGQADAHAFMEQVK 592
Query: 568 VKLTKILEEFKKRELEIGL-ELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKT 626
+++E +R + + + + K+ +P VG C C G L+ +
Sbjct: 593 KLSDHLVKEAHQRANTWDFSSFDQEALEEKTKKRKKRRPTYVGSCLACDGKLLDR----- 647
Query: 627 GKRFVGCSNW 636
F GC+N+
Sbjct: 648 -GEFYGCTNY 656
>gb|AAF14809.1| (AF000001) topoisomerase B [Salmonella typhi]
Length = 664
Score = 226 bits (570), Expect = 7e-58
Identities = 196/686 (28%), Positives = 318/686 (45%), Gaps = 90/686 (13%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
M LV+ EKP+ R IA K + E F +G + V A GHL A +
Sbjct: 1 MRLVLCEKPSQGRDIA----------KFLGATQRGEGFLNGPGVTVTWARGHLLETAEPE 50
Query: 61 DF---FG-------YPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDT 110
+ +G P+ +W V A+ +A ++ L K+V E ++A D D
Sbjct: 51 VYGEQYGKPWRTDVLPLLPQQWKLVVKADAKAQFA-----VINRLLKQVDEVVIATDADR 105
Query: 111 EGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVL 169
EGEVI L Y C R R+ SAL + +A +L P+ + AG+ R
Sbjct: 106 EGEVIARELLDY-CKFQ-GRVFRLWMSALDDASIRSALADLWPSSRTESLYYAGVGRSRA 163
Query: 170 DWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLV 229
DW G+NL+R T + R +G VLS GRVQ PTL +V+R+REI +FV KPY+ +
Sbjct: 164 DWLIGMNLTRLFT-LLGREAGIGNVLSVGRVQTPTLAIVVKRDREIDNFVSKPYFEVIAT 222
Query: 230 IEKNGQKLVANYEKDKIWSEEEAKKIVTEV---------KKSKARVSNIEVKRQKRNPPV 280
+ NG + + + +EE + I + V + A + N +++R+K++ P+
Sbjct: 223 MAVNGVLFPSKWVPAAQYCDEEKRCIQSGVAAQVVQLCRQTPTAAIINCQIERKKQSAPL 282
Query: 281 PFDLGTLQREAYSAFGFSPKKTLDIAQSLYE-KGFTSYPRTESQKLPKNLNF---RLIIQ 336
F L TLQ+ +G + LDIAQ LYE T+YPRT+ LP ++ +++
Sbjct: 283 AFSLSTLQQACSRHWGMPAQTVLDIAQKLYETHKLTTYPRTDCGYLPLSMREEIPQVLSA 342
Query: 337 NISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIV 396
+ P +P L + + K+ AH I PT LS E +Y ++
Sbjct: 343 VVGTDPALQPVV-ASLDTQFVSRIWNDKKITAHHGIIPTKHTGDLSKLSDAERNVYQLVR 401
Query: 397 RRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFD-----EVTLP 451
+LA F+ + + T G F G VK GW S++GK + D E TLP
Sbjct: 402 LHYLAQFLPQMEIDVTEATFNIGGQLFRTRGNVLVKPGWKSLFGKMSEDDEDNTGETTLP 461
Query: 452 EFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKM-----------------EDLGIGTK 494
G+ +V ++ +TKPPA Y+ +I M E+ GIGT+
Sbjct: 462 AMQAGQVCQVQGAEQKVLQTKPPAPYNDGTLIAAMTNAAAFVTDAALKKVLKENAGIGTE 521
Query: 495 ATRAQILETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIM 553
ATRA I++TL +RG+ + KK++K TPLG +++ L + + LT +E+ +D +
Sbjct: 522 ATRAGIIDTLLKRGFLVREKKTLKSTPLGRNLVDVLP---GTLTNPGLTALWEQMLDEVA 578
Query: 554 QGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPK 613
G+++ ++ + + +++++ + + + L + + P CP
Sbjct: 579 AGRVSLDDFMAKQSQWVSQLVAQGRSQPLTM--------------QAPPSPP-----CPV 619
Query: 614 CGGDLIVKYNKKTGKRFVGCSNWPKC 639
CGG + + N K+G F GC +P+C
Sbjct: 620 CGGKTLQR-NGKSG-LFWGCLKYPEC 643
>pir||A82009 DNA topoisomerase (EC 5.99.1.2) I NMA0156 [imported] - Neisseria
meningitidis (group A strain Z2491)
>gi|7378927|emb|CAB83470.1| (AL162752) DNA topoisomerase
I [Neisseria meningitidis Z2491]
Length = 768
Score = 224 bits (565), Expect = 3e-57
Identities = 191/630 (30%), Positives = 291/630 (45%), Gaps = 87/630 (13%)
Query: 88 YIKALSVLAKRVKEFIVACDYDTEGEVIGY---TALKYACGVDPSRAKRMKFSALTKRDL 144
++ A+ AK + +A D D EGE I + LK G+ + +R+ F +TK +
Sbjct: 63 HVDAIVAGAKEAENIYLATDPDREGEAISWHLLEILKSKRGLKNIKPQRVVFHEITKNAV 122
Query: 145 LNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPT 204
L+A N I + +A AR LD+ G NLS L I+R LS GRVQ P
Sbjct: 123 LDAVANPRE-IEMDLVDAQQARRALDYLVGFNLSPLLWKKIRRG------LSAGRVQSPA 175
Query: 205 LKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANY--------EKDKIWSEEEAKKIV 256
L+ + ERE EI++F + YW + L K K A E+ + +E ++
Sbjct: 176 LRLICERENEIRAFEAREYWTVHLDSHKGRSKFTAKLAQYNGAKLEQFDLPNEAAQADVL 235
Query: 257 TEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK---- 312
E++ +A V+ IE K++ RNP PF T+Q++A GF+ +T+ AQ LYE
Sbjct: 236 KELEGKEAVVTAIEKKKRSRNPAAPFTTSTMQQDAVRKLGFTTDRTMRTAQQLYEGIDVG 295
Query: 313 ----GFTSYPRTESQKLPKNL--NFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED 366
G +Y RT+S L R I+N +Y P A + + K
Sbjct: 296 QGAIGLITYMRTDSVNLADEALTEIRHYIEN-KIGKEYLPSA------AKQYKTKSKNAQ 348
Query: 367 PAHPAIYPTGEIPGPGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHK 422
AH AI PT P LS D+ KLY MI +R +A M PA + V I G
Sbjct: 349 EAHEAIRPTSVYRTPESVKPFLSADQFKLYQMIWQRTVACQMTPAKFDQTTVDITVGKGV 408
Query: 423 FMLSGARTVKQGWLSVYGKYIKFDE----VTLPEFFIGERVRVLQVRREKKKTKPPARYS 478
F ++G G+LSVY + +E LPE G+++ V ++ E+ T PP RY+
Sbjct: 409 FRVTGQVQTFAGFLSVYEESSDDEEGEDSKKLPEMSEGDKLPVDKLYGEQHFTTPPPRYN 468
Query: 479 PAAVIKKMEDLGIGTKATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEII 537
A ++K +E+ GIG +T A I+ TL R Y+ +K T G V + L ++ + +
Sbjct: 469 EATLVKALEEYGIGRPSTYASIISTLKDREYVTLEQKRFMPTDTGDIVNKFLTEHFAQYV 528
Query: 538 SVELTREFERKMDLIMQGK-----------------LTKEEVIEEAKVKLTKILEEFKK- 579
T + E ++D I GK + ++E IE AK ++ E K
Sbjct: 529 DYHFTAKLEDQLDEIADGKRQWIPLMDKFWKPFIKQVEEKEGIERAKFTTQELDETCPKC 588
Query: 580 --RELEIGL-ELARIV-------------VGDVKDEIKE-------EKPIVVGK-CPKCG 615
+L+I ++ R V V + +E E E+ + G+ CPKCG
Sbjct: 589 GEHKLQIKFGKMGRFVACAGYPECSYTRNVNETAEEAAERIAKAEAEQAELDGRECPKCG 648
Query: 616 GDLIVKYNKKTGKRFVGCSNWPKCDVTYPI 645
G L+ KY+ +TG +F+GC+N+PKC P+
Sbjct: 649 GRLVYKYS-RTGSKFIGCANYPKCKHVEPL 677
>gi|6678403 topoisomerase 3 alpha; Top IIIa [Mus musculus]
>gi|6686029|sp|O70157|TP3A_MOUSE DNA TOPOISOMERASE III
ALPHA >gi|7513627|pir||T13951 DNA topoisomerase (EC
5.99.1.2) III - mouse >gi|3061308|dbj|BAA25662.1|
(AB006074) topoisomerase III [Mus musculus]
Length = 1003
Score = 223 bits (563), Expect = 4e-57
Identities = 186/659 (28%), Positives = 309/659 (46%), Gaps = 30/659 (4%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRK---TIFGVPY---YEVFRDGKKLIVASAVGHLYG 55
+L +AEK + A+ IA LS R RK + F Y Y ++ +I+ S GHL
Sbjct: 36 VLCVAEKNDAAKGIADLLSNGRMRRKEGLSKFNKIYEFDYHLYGQNVTMIMTSVSGHLLA 95
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRV---KEFIVACDYDTEG 112
+ F + + ++ AE K +++I L + + ++ D D EG
Sbjct: 96 HDFQMQFRKWQ--SCNPLVLFEAEIEKYCPENFIDIKKTLERETHHCQALVIWTDCDREG 153
Query: 113 EVIGYTALKYACGVDPS-RAKRMKFSALTKRDLLNAWRNL-EPTINFGMANAGIARHVLD 170
E IG+ + V P+ R R +FS +T + A NL EP +++A R LD
Sbjct: 154 ENIGFEIIHVCKAVKPNLRVLRARFSEITPHAVRTACENLTEPDQR--VSDAVDVRQELD 211
Query: 171 WYWGVNLSRALTHAIKRASGKWV---VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIK 227
G +R T ++R + + ++S G Q PTL F+VER + IQ+FVP+ + IK
Sbjct: 212 LRIGAAFTRFQTLRLQRIFPEVLAEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIK 271
Query: 228 LVIEKNGQKLVANYEKDKIWSEEEAKKIVTE-VKKSKARVSNIEVKRQKRNPPVPFDLGT 286
+ + + N+++ ++++ + ++ A V + K + + P D
Sbjct: 272 VTHDHKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVE 331
Query: 287 LQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRP 346
L++ A + K+T+ IA+ LY +G+ SYPRTE+ PK+LN +++ + P +
Sbjct: 332 LEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGA 391
Query: 347 YAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEP 406
+A +L P G K D AHP I+PT G L D+ +LY+ IVR FLA +
Sbjct: 392 FAQTILERGGPTPRNGSKSDQAHPPIHPTKYTSG---LQGDDRRLYEFIVRHFLACCSQD 448
Query: 407 AVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRR 466
A + V I +F+ G + + +L VY Y + + LP + G + V
Sbjct: 449 AQGQETTVEIDIAQERFVAHGLIILARNYLDVY-PYDHWSDKLLPVYEQGSHFQPSTVEM 507
Query: 467 EKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--LGMK 524
+T PP + A +I ME GIGT AT A+ +ET+ R Y+ + P LGM
Sbjct: 508 VDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPGHLGMG 567
Query: 525 VIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEE----FKKR 580
++E + E+ +L E E + LI +GK K +V+ + K ++ E KK
Sbjct: 568 LVEGYDSMGYEMSKPDLRAELEADLKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKAKKL 627
Query: 581 ELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKC 639
+ + L ++EI P V KCP+C D+++K KK+G ++ C +P+C
Sbjct: 628 DEALSQYLGERTEMAQQEEIYPAMPEPVRKCPQCNKDMVLK-TKKSGGFYLSCMGFPEC 685
>pir||H81236 DNA topoisomerase I NMB0118 [imported] - Neisseria meningitidis
(group B strain MD58) >gi|7225334|gb|AAF40577.1|
(AE002370) DNA topoisomerase I [Neisseria meningitidis
MC58]
Length = 768
Score = 220 bits (556), Expect = 3e-56
Identities = 190/630 (30%), Positives = 290/630 (45%), Gaps = 87/630 (13%)
Query: 88 YIKALSVLAKRVKEFIVACDYDTEGEVIGY---TALKYACGVDPSRAKRMKFSALTKRDL 144
++ A+ AK + +A D D EGE I + LK G+ + +R+ F +TK +
Sbjct: 63 HVDAIVAGAKEAENIYLATDPDREGEAISWHLLEILKSKRGLKNIKPQRVVFHEITKNAV 122
Query: 145 LNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPT 204
L+A + I + +A AR LD+ G NLS L I+R LS GRVQ P
Sbjct: 123 LDAVAHPRE-IEMDLVDAQQARRALDYLVGFNLSPLLWKKIRRG------LSAGRVQSPA 175
Query: 205 LKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANY--------EKDKIWSEEEAKKIV 256
L+ + ERE EI++F + YW + L K K A E+ + +E ++
Sbjct: 176 LRLICERENEIRAFEAQEYWTVHLDSHKGRSKFTAKLAQYNGAKLEQFDLPNEAAQADVL 235
Query: 257 TEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK---- 312
E++ +A V+ IE K++ RNP PF T+Q++A GF+ +T+ AQ LYE
Sbjct: 236 KELEGKEAVVTAIEKKKRSRNPAAPFTTSTMQQDAVRKLGFTTDRTMRTAQQLYEGIDVG 295
Query: 313 ----GFTSYPRTESQKLPKNL--NFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED 366
G +Y RT+S L R I+N +Y P A + + K
Sbjct: 296 QGAIGLITYMRTDSVNLADEALTEIRHYIEN-KIGKEYLPSA------AKQYKTKSKNAQ 348
Query: 367 PAHPAIYPTGEIPGPGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHK 422
AH AI PT P LS D+ KLY MI +R +A M PA + V I G
Sbjct: 349 EAHEAIRPTSVYRTPESVKPFLSADQFKLYQMIWQRTVACQMTPAKFDQTTVDITVGKGV 408
Query: 423 FMLSGARTVKQGWLSVYGKYIKFDE----VTLPEFFIGERVRVLQVRREKKKTKPPARYS 478
F ++G G+LSVY + +E LPE G+++ V ++ E+ T PP RY+
Sbjct: 409 FRVTGQVQTFAGFLSVYEESSDDEEGEDSKKLPEMSEGDKLPVDKLYGEQHFTTPPPRYN 468
Query: 479 PAAVIKKMEDLGIGTKATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEII 537
A ++K +E+ GIG +T A I+ TL R Y+ +K T G V + L ++ + +
Sbjct: 469 EATLVKALEEYGIGRPSTYASIISTLKDREYVTLEQKRFMPTDTGDIVNKFLTEHFAQYV 528
Query: 538 SVELTREFERKMDLIMQGK-----------------LTKEEVIEEAKVKLTKILEEFKK- 579
T + E ++D I GK + ++E IE AK ++ E K
Sbjct: 529 DYHFTAKLEDQLDEIADGKRQWIPLMDKFWKPFIKQVEEKEGIERAKFTTQELDETCPKC 588
Query: 580 --RELEIGL-ELARIV-------------VGDVKDEIKE-------EKPIVVGK-CPKCG 615
+L+I ++ R V V + +E E E+ + G+ CPKCG
Sbjct: 589 GEHKLQIKFGKMGRFVACAGYPECSYTRNVNETAEEAAERIAKAEAEQAELDGRECPKCG 648
Query: 616 GDLIVKYNKKTGKRFVGCSNWPKCDVTYPI 645
G L+ KY+ +TG +F+GC N+PKC P+
Sbjct: 649 GRLVYKYS-RTGSKFIGCVNYPKCKHVEPL 677
>pir||H69724 DNA topoisomerase III topB - Bacillus subtilis
>gi|1881236|dbj|BAA19263.1| (AB001488) PROBABLE DNA
TOPOISOMERASE III [Bacillus subtilis]
>gi|2632726|emb|CAB12233.1| (Z99106) DNA topoisomerase
III [Bacillus subtilis]
Length = 727
Score = 220 bits (555), Expect = 4e-56
Identities = 193/674 (28%), Positives = 316/674 (46%), Gaps = 91/674 (13%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ-- 60
+V+AEKP+V R +A L + G Y E G + IV A+GHL LA +
Sbjct: 5 VVLAEKPSVGRDLARVLKCHKK------GNGYLE----GDQYIVTWALGHLVTLADPEGY 54
Query: 61 --DFFGYPIFDIEWVP-----VYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
+F + + D+ +P V I + K + + +K+ + K V + ++A D EGE
Sbjct: 55 GKEFQSWRLEDLPIIPEPLKLVVIKKTGKQF--NAVKS-QLTRKDVNQIVIATDAGREGE 111
Query: 114 VIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWY 172
++ ++ A P KR+ S++T + + ++ L + + ++ +AR DW
Sbjct: 112 LVARWIIEKANVRKP--IKRLWISSVTDKAIKEGFQKLRSGKEYENLYHSAVARAEADWI 169
Query: 173 WGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEK 232
G+N +RALT LS GRVQ PTL + +RE +IQ+F P PY+ I+ ++
Sbjct: 170 VGINATRALTTKFNAQ------LSCGRVQTPTLAMIAKREADIQAFTPVPYYGIRAAVD- 222
Query: 233 NGQKLVANYEKDK---IWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQR 289
G L +K K ++++ +++ ++ +A V+ ++ +K P +DL LQR
Sbjct: 223 -GMTLTWQDKKSKQTRTFNQDVTSRLLKNLQGKQAVVAELKKTAKKSFAPALYDLTELQR 281
Query: 290 EAYSAFGFSPKKTLDIAQSLYEKG-FTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYA 348
+A+ FGFS K+TL + Q LYE+ +YPRT+S+ L ++ + + M + +PYA
Sbjct: 282 DAHKRFGFSAKETLSVLQKLYEQHKLVTYPRTDSRFLSSDI-VPTLKDRLEGM-EVKPYA 339
Query: 349 HLLLGMPE--LKPVEGKKEDPA---HPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALF 403
+ + + +K +G D H AI PT E LS E KLYD+I +RFLA+
Sbjct: 340 QYVSQIKKRGIKSHKGYVNDAKVSDHHAIIPTEEPLVLSSLSDKERKLYDLIAKRFLAVL 399
Query: 404 MEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE------VTLPEFFIGE 457
M E KV G F G QGW +VY + DE TLP G+
Sbjct: 400 MPAFEYEETKVIAEIGGETFTAKGKTVQSQGWKAVYDMAEEDDEQEDDRDQTLPALQKGD 459
Query: 458 RVRVLQVRREKKKTKPPARYSPAAVIKKMEDL-------------------GIGTKATRA 498
+ V + +TKPPAR++ ++ ME+ G+GT ATRA
Sbjct: 460 TLAVRTLTETSGQTKPPARFNEGTLLSAMENPSAFMQGEEKGLVKTLGETGGLGTVATRA 519
Query: 499 QILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKL 557
I+E L+ IE K + I +T G ++++ + + ++ S LT E+E+K+ I GKL
Sbjct: 520 DIIEKLFNSFLIEKKGQDIFITSKGKQLLQLVPE---DLKSPALTAEWEQKLSAIAAGKL 576
Query: 558 TKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGD 617
I++ K + ++E K + I CP+C G
Sbjct: 577 KSAVFIKDMKAYAHQTVKEIKN-----------------SSQTFRHDNITGTACPEC-GK 618
Query: 618 LIVKYNKKTGKRFV 631
+++K N K G V
Sbjct: 619 MMLKVNGKRGTMLV 632
>gi|10835218 topoisomerase (DNA) III alpha [Homo sapiens]
>gi|11427858|ref|XP_008635.1| topoisomerase (DNA) III
alpha [Homo sapiens] >gi|2501242|sp|Q13472|TP3A_HUMAN
DNA TOPOISOMERASE III ALPHA >gi|1292912|gb|AAB03694.1|
(U43431) DNA topoisomerase III [Homo sapiens]
Length = 1001
Score = 219 bits (553), Expect = 7e-56
Identities = 185/666 (27%), Positives = 314/666 (46%), Gaps = 44/666 (6%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRK---TIFGVPY---YEVFRDGKKLIVASAVGHLYG 55
+L +AEK + A+ IA LS R R+ + F Y Y ++ +++ S GHL
Sbjct: 36 VLCVAEKNDAAKGIADLLSNGRMRRREGLSKFNKIYEFDYHLYGQNVTMVMTSVSGHLLA 95
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEG 112
+ F + + ++ AE K ++++ L + ++ ++ D D EG
Sbjct: 96 HDFQMQFRKWQ--SCNPLVLFEAEIEKYCPENFVDIKKTLERETRQCQALVIWTDCDREG 153
Query: 113 EVIGYTALKYACGVDPS-RAKRMKFSALTKRDLLNAWRNL-EPTINFGMANAGIARHVLD 170
E IG+ + V P+ + R +FS +T + A NL EP +++A R LD
Sbjct: 154 ENIGFEIIHVCKAVKPNLQVLRARFSEITPHAVRTACENLTEPDQR--VSDAVDVRQELD 211
Query: 171 WYWGVNLSRALTHAIKRASGKWV---VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIK 227
G +R T ++R + + ++S G Q PTL F+VER + IQ+FVP+ + IK
Sbjct: 212 LRIGAAFTRFQTLRLQRIFPEVLAEQLISYGSCQFPTLGFVVERFKAIQAFVPEIFHRIK 271
Query: 228 LVIEKNGQKLVANYEKDKIWSEEEAKKIVTE-VKKSKARVSNIEVKRQKRNPPVPFDLGT 286
+ + + N+++ ++++ + V+ A V + K + + P D
Sbjct: 272 VTHDHKDGIVEFNWKRHRLFNHTACLVLYQLCVEDPMATVVEVRSKPKSKWRPQALDTVE 331
Query: 287 LQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRP 346
L++ A + K+T+ IA+ LY +G+ SYPRTE+ P++LN ++++ + P++
Sbjct: 332 LEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPRDLNLTVLVEQQTPDPRWGA 391
Query: 347 YAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEP 406
+A +L P G K D AHP I+PT +L DE++LY+ IVR FLA +
Sbjct: 392 FAQSILERGGPTPRNGNKSDQAHPPIHPT---KYTNNLQGDEQRLYEFIVRHFLACCSQD 448
Query: 407 AVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRR 466
A + V I +F+ G + + +L VY Y + + LP + G + V
Sbjct: 449 AQGQETTVEIDIAQERFVAHGLMILARNYLDVY-PYDHWSDKILPVYEQGSHFQPSTVEM 507
Query: 467 EKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--LGMK 524
+T PP + A +I ME GIGT AT A+ +ET+ R Y+ + P LGM
Sbjct: 508 VDGETSPPKLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTPDKRFLPGHLGMG 567
Query: 525 VIETLEKYVPEIISVELTREFERKMDLIMQGKLTK-----------EEVIEEAKVKLTKI 573
++E + E+ +L E E + LI GK K ++V EA K K
Sbjct: 568 LVEGYDSMGYEMSKPDLRAELEADLKLICDGKKDKFVVLRQQVQKYKQVFIEAVAKAKK- 626
Query: 574 LEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGC 633
L+E + G ELA+ +++I P + KCP+C D+++K KK G ++ C
Sbjct: 627 LDEALAQYFGNGTELAQ------QEDIYPAMPEPIRKCPQCNKDMVLK-TKKNGGFYLSC 679
Query: 634 SNWPKC 639
+P+C
Sbjct: 680 MGFPEC 685
>gb|AAB03695.1| (U43431) DNA topoisomerase III [Homo sapiens]
Length = 976
Score = 219 bits (553), Expect = 7e-56
Identities = 185/666 (27%), Positives = 314/666 (46%), Gaps = 44/666 (6%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRK---TIFGVPY---YEVFRDGKKLIVASAVGHLYG 55
+L +AEK + A+ IA LS R R+ + F Y Y ++ +++ S GHL
Sbjct: 11 VLCVAEKNDAAKGIADLLSNGRMRRREGLSKFNKIYEFDYHLYGQNVTMVMTSVSGHLLA 70
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEG 112
+ F + + ++ AE K ++++ L + ++ ++ D D EG
Sbjct: 71 HDFQMQFRKWQ--SCNPLVLFEAEIEKYCPENFVDIKKTLERETRQCQALVIWTDCDREG 128
Query: 113 EVIGYTALKYACGVDPS-RAKRMKFSALTKRDLLNAWRNL-EPTINFGMANAGIARHVLD 170
E IG+ + V P+ + R +FS +T + A NL EP +++A R LD
Sbjct: 129 ENIGFEIIHVCKAVKPNLQVLRARFSEITPHAVRTACENLTEPDQR--VSDAVDVRQELD 186
Query: 171 WYWGVNLSRALTHAIKRASGKWV---VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIK 227
G +R T ++R + + ++S G Q PTL F+VER + IQ+FVP+ + IK
Sbjct: 187 LRIGAAFTRFQTLRLQRIFPEVLAEQLISYGSCQFPTLGFVVERFKAIQAFVPEIFHRIK 246
Query: 228 LVIEKNGQKLVANYEKDKIWSEEEAKKIVTE-VKKSKARVSNIEVKRQKRNPPVPFDLGT 286
+ + + N+++ ++++ + V+ A V + K + + P D
Sbjct: 247 VTHDHKDGIVEFNWKRHRLFNHTACLVLYQLCVEDPMATVVEVRSKPKSKWRPQALDTVE 306
Query: 287 LQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRP 346
L++ A + K+T+ IA+ LY +G+ SYPRTE+ P++LN ++++ + P++
Sbjct: 307 LEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPRDLNLTVLVEQQTPDPRWGA 366
Query: 347 YAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEP 406
+A +L P G K D AHP I+PT +L DE++LY+ IVR FLA +
Sbjct: 367 FAQSILERGGPTPRNGNKSDQAHPPIHPT---KYTNNLQGDEQRLYEFIVRHFLACCSQD 423
Query: 407 AVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRR 466
A + V I +F+ G + + +L VY Y + + LP + G + V
Sbjct: 424 AQGQETTVEIDIAQERFVAHGLMILARNYLDVY-PYDHWSDKILPVYEQGSHFQPSTVEM 482
Query: 467 EKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--LGMK 524
+T PP + A +I ME GIGT AT A+ +ET+ R Y+ + P LGM
Sbjct: 483 VDGETSPPKLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTPDKRFLPGHLGMG 542
Query: 525 VIETLEKYVPEIISVELTREFERKMDLIMQGKLTK-----------EEVIEEAKVKLTKI 573
++E + E+ +L E E + LI GK K ++V EA K K
Sbjct: 543 LVEGYDSMGYEMSKPDLRAELEADLKLICDGKKDKFVVLRQQVQKYKQVFIEAVAKAKK- 601
Query: 574 LEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGC 633
L+E + G ELA+ +++I P + KCP+C D+++K KK G ++ C
Sbjct: 602 LDEALAQYFGNGTELAQ------QEDIYPAMPEPIRKCPQCNKDMVLK-TKKNGGFYLSC 654
Query: 634 SNWPKC 639
+P+C
Sbjct: 655 MGFPEC 660
>sp|P43012|TOP1_HAEIN DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|687790|gb|AAC43727.1| (U20964)
DNA topoisomerase I [Haemophilus influenzae]
>gi|1587742|prf||2207242C DNA topoisomerase I
[Haemophilus influenzae]
Length = 868
Score = 218 bits (550), Expect = 1e-55
Identities = 183/623 (29%), Positives = 290/623 (46%), Gaps = 67/623 (10%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LAK+ +A D D EGE I + L+ G + R R+ F+ +TK + A+
Sbjct: 99 VSELKSLAKKADHIYLATDLDREGEAIAWH-LREVIGGNDDRFSRVVFNEITKNAIKQAF 157
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
E +N NA R LD G +S L + R LS GRVQ +K L
Sbjct: 158 EKPEQ-LNMDRVNAQQTRRFLDRVVGFMVSPLLWKKVARG------LSAGRVQSVAVKLL 210
Query: 209 VEREREIQSFVPKPYWVIKLVIEKNGQKL----VANYEKDKI--WSEEEAKKIVTEVKKS 262
VEREREI++F P+ YW + ++ ++ V +Y+ K +++EA+ V + S
Sbjct: 211 VEREREIKAFQPEEYWEVAVLTNNQNKQAIRLDVTDYKGKKFDPKNQKEAQSAVDFLNVS 270
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
V+++E K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S
Sbjct: 271 DYVVTDLETKPTSSRPRAPFITSTLQQTASTRLGFGVKKTMMLAQRLYEAGYITYMRTDS 330
Query: 323 QKLPKN-LNF-RLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTGEI 378
L ++ LN R I+N QY +PE KE+ AH AI P+
Sbjct: 331 TNLSQDALNMARTYIEN-HFGAQY---------LPEKPNFYSSKENAQEAHEAIRPSDIR 380
Query: 379 PGPGDL---SKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGW 435
P L KD +LYD+I +FLA M PA +S +T+ AG + G GW
Sbjct: 381 ALPESLEGMEKDAVRLYDLIWCQFLACQMPPAQYDSSTLTVTAGDYTLKAKGRILRFDGW 440
Query: 436 LSVYGKYIKF-DEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTK 494
V + K ++ LP + E++ + +V+ + TKPPAR++ AA++K++E GIG
Sbjct: 441 TKVLPQIGKNPEDQELPSVTVSEKLALKEVQPTQHFTKPPARFTEAALVKELEKRGIGRP 500
Query: 495 ATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIM 553
+T A I+ T+ +RGY+ + + +G V + L + E+++ + T E +D I
Sbjct: 501 STYAAIISTIQERGYVRTENRRFYAEKMGEIVTDRLNESFGELMNYDFTANMEDTLDKIA 560
Query: 554 QGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPK 613
G + + + + + L + + ELE G+ +V D+ KCP
Sbjct: 561 SGSVNWKTELNQFFKDFSSQLSKAELDELEGGMRPNSLVETDI-------------KCPT 607
Query: 614 CGGDLIVKYNKKTGKRFVGCSNW-----PKCDVTYPILQRGEIIPT------------NK 656
CG ++ ++ TG F+GC+ + +C T ++ E++ K
Sbjct: 608 CGRNMAIR-TASTGV-FLGCTGYALPPKERCKTTINLIPEAELLNVLDESSETKALMDRK 665
Query: 657 TC--CNGAPVVIIRDKGRDIEIC 677
C C A + D R I IC
Sbjct: 666 RCTKCGTAMDSYVIDAHRKIHIC 688
>pir||G64119 DNA topoisomerase (EC 5.99.1.2) - Haemophilus influenzae (strain
Rd KW20) >gi|1574197|gb|AAC23012.1| (U32816) DNA
topoisomerase I (topA) [Haemophilus influenzae Rd]
Length = 868
Score = 218 bits (549), Expect = 2e-55
Identities = 183/623 (29%), Positives = 290/623 (46%), Gaps = 67/623 (10%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LAK+ +A D D EGE I + L+ G + R R+ F+ +TK + A+
Sbjct: 99 VSELKSLAKKADHIYLATDLDREGEAIAWH-LREVIGGNDDRFSRVVFNEITKNAIKQAF 157
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
E +N NA R LD G +S L + R LS GRVQ +K L
Sbjct: 158 EKPEQ-LNMDRVNAQQTRRFLDRVVGFMVSPLLWKKVARG------LSAGRVQSVAVKLL 210
Query: 209 VEREREIQSFVPKPYWVIKLVIEKNGQKL----VANYEKDKI--WSEEEAKKIVTEVKKS 262
VEREREI++F P+ YW + ++ ++ V +Y+ K +++EA+ V + S
Sbjct: 211 VEREREIKAFQPEEYWEVAVLTNNQNKQAIRLDVTDYKGKKFDPKNQKEAQSAVDFLNVS 270
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
V+++E K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S
Sbjct: 271 DYVVTDLETKPTSSRPRAPFITSTLQQTASTRLGFGVKKTMMLAQRLYEAGYITYMRTDS 330
Query: 323 QKLPKN-LNF-RLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTGEI 378
L ++ LN R I+N QY +PE KE+ AH AI P+
Sbjct: 331 TNLSQDALNMARSYIEN-HFGAQY---------LPEKPNFYSSKENAQEAHEAIRPSDIR 380
Query: 379 PGPGDL---SKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGW 435
P L KD +LYD+I +FLA M PA +S +T+ AG + G GW
Sbjct: 381 ALPESLEGMEKDAVRLYDLIWCQFLACQMPPAQYDSSTLTVTAGDYTLKAKGRILRFDGW 440
Query: 436 LSVYGKYIKF-DEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTK 494
V + K ++ LP + E++ + +V+ + TKPPAR++ AA++K++E GIG
Sbjct: 441 TKVLPQIGKNPEDQELPSVTVSEKLALKEVQPTQHFTKPPARFTEAALVKELEKRGIGRP 500
Query: 495 ATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIM 553
+T A I+ T+ +RGY+ + + +G V + L + E+++ + T E +D I
Sbjct: 501 STYAAIISTIQERGYVRTENRRFYAEKMGEIVTDRLNESFGELMNYDFTANMEDTLDKIA 560
Query: 554 QGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPK 613
G + + + + + L + + ELE G+ +V D+ KCP
Sbjct: 561 SGSVNWKTELNQFFKDFSSQLSKAELDELEGGMRPNSLVETDI-------------KCPT 607
Query: 614 CGGDLIVKYNKKTGKRFVGCSNW-----PKCDVTYPILQRGEIIPT------------NK 656
CG ++ ++ TG F+GC+ + +C T ++ E++ K
Sbjct: 608 CGRNMAIR-TASTGV-FLGCTGYALPPKERCKTTINLIPEAELLNVLDESSETKALMDRK 665
Query: 657 TC--CNGAPVVIIRDKGRDIEIC 677
C C A + D R I IC
Sbjct: 666 RCTKCGTAMDSYVIDAHRKIHIC 688
>pir||S45077 hypothetical protein gamma - Streptococcus pyogenes plasmid pDB101
>gi|2145593|pir||S68603 hypothetical protein gamma -
Streptococcus pyogenes plasmid pDB101 and pBT233
>gi|456366|emb|CAA45931.1| (X64695) ORF gamma
[Streptococcus pyogenes] >gi|496506|emb|CAA47083.1|
(X66468) orf gamma [Streptococcus pyogenes]
>gi|496507|emb|CAA47084.1| (X66468) orf gamma'
[Streptococcus pyogenes] >gi|739951|prf||2004266D repS
downstream ORF [Streptococcus pyogenes]
Length = 714
Score = 217 bits (547), Expect = 3e-55
Identities = 182/680 (26%), Positives = 325/680 (47%), Gaps = 65/680 (9%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
+++AEKP+ A A A ++ +K + +F D + + GHL LA ++
Sbjct: 4 VILAEKPSQALAYAQAFNQSD--KKDGYFEIKDPLFTD--ETFITFGFGHLVELAEPGNY 59
Query: 63 FG-YPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEGEVIGYT 118
+ + +E +P++ + + AKD K ++A+ +K+ IVA D D EGE I ++
Sbjct: 60 DEKWQNWKLESLPIFPDRYDFEVAKDKGKQFKIVAELLKKANTIIVATDSDREGENIAWS 119
Query: 119 ALKYACGVDPSRA-KRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGVN 176
+ A + KR+ ++L K + + ++NL+P +N+ R + DW G+N
Sbjct: 120 IIHKANAFSKDKTFKRLWINSLEKDVIRSGFQNLQPGMNYYPFYQEAQTRQIADWLIGMN 179
Query: 177 LSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQK 236
S T +++ G S GRVQ PTL + +R+ I++F +P++ ++ I+ N
Sbjct: 180 ASPLYTLNLQQ-KGVQGTFSLGRVQTPTLYLIFQRQEAIENFKKEPFFEVEASIKVNQGS 238
Query: 237 LVANYEKDKIWSEEEAKKIVTEVKKSK-----ARVSNIEVKRQKRNPPVPFDLGTLQREA 291
+ + +E K++K R+++++ K +K N P F L +LQ +
Sbjct: 239 FKGVLSPTQRFKTQEELLAFVSSKQAKIGNQEGRITDVQTKEKKTNSPSLFSLSSLQSKV 298
Query: 292 YSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLL 351
+ + +TL Q LYE SYPRT++ + +N F + N + Y + L
Sbjct: 299 NQLYKATASQTLKAMQGLYEAKLLSYPRTDTPFITEN-EFAYLKANFGK---YSGFLGLD 354
Query: 352 LGMPELKP----VEGKKEDPAHPAIYPTGEIPGPGDLSKDEE---KLYDMIVRRFLALFM 404
L M + +P V+G K H AI PT ++P L+K ++ K+Y ++V+ +A+F+
Sbjct: 355 LEMVQTEPRKRYVDGSKVQ-EHHAIIPTKQVPTESALAKMDDLQRKIYALVVKTTVAMFL 413
Query: 405 EPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVY---GKYIKFDEVTLPEFFIGERVRV 461
+ E K+ F G ++GW ++ K K D TLP IGE V
Sbjct: 414 PDYLYEETKIQTKVADLLFQSIGKTPKQEGWKILFKQQNKEEKEDVQTLPLVIIGEHAEV 473
Query: 462 LQVRREKKKTKPPARYSPAAVIKKMEDL-----------------GIGTKATRAQILETL 504
V+ +K+T+PP ++ ++ M+ GIGT+ATRA I+E L
Sbjct: 474 -DVKSAEKETQPPKAFTEGTLLTAMKTAGKTIDDEEAQKILKDTEGIGTEATRASIIEAL 532
Query: 505 YQRGYIEG-KKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVI 563
Q+ YI+ K + VT G + + +E + S E+T ++E + I + + +E I
Sbjct: 533 KQKEYIQVIKNKLVVTEKGKLLCQAVESQ-HLLTSAEMTAKWETYLKKIGKREGNQENFI 591
Query: 564 EEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDE-IKEEKPIVVGKCPKCGGDLIVKY 622
K + +LE + ++ ++ D +++ KE + +VGKCPKCG ++++K
Sbjct: 592 TNIKKFIVHLLE-------AVPTDIEKLNFSDYQEQKEKEAEKSIVGKCPKCGNNIVLK- 643
Query: 623 NKKTGKRFVGCSNWPKCDVT 642
K F GCSN+P+C T
Sbjct: 644 -----KSFYGCSNYPECKFT 658
>gb|AAC38606.1| (AF007787) type I topoisomerase [Enterococcus faecalis]
Length = 714
Score = 216 bits (544), Expect = 7e-55
Identities = 183/682 (26%), Positives = 326/682 (46%), Gaps = 69/682 (10%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLA-PKQD 61
+++AEKP+ A A AL ++ +K + +F D + + GHL LA P
Sbjct: 4 VILAEKPSQALAYASAL--KQSTKKDCYFEIKDPIFAD--ETFITFGFGHLVELAEPGHY 59
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEGEVIGYT 118
+ + +E +P++ + + A D K ++A+ +K+ IVA D D EGE I ++
Sbjct: 60 DEKWQNWKLESLPIFPDRYDFEVATDKKKQFKIVAELLKQANTIIVATDSDREGENIAWS 119
Query: 119 ALKYACGVDPSRA-KRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGVN 176
+ A + KR+ ++L K + + ++NL+P +N+ R + DW G+N
Sbjct: 120 IIHKANAFSKDKTYKRLWINSLEKDVIRSGFQNLQPGMNYYPFYQEAQTRQIADWLIGMN 179
Query: 177 LSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQK 236
S T +++ G S GRVQ PTL + +R+ I++F +P++ ++ I+ N
Sbjct: 180 ASPLYTLNLQQ-KGVQGTFSLGRVQTPTLYLIFQRQEAIENFRKEPFFEVEASIKVNQGS 238
Query: 237 LVANYEKDKIWSEEEAKKIVTEVKKSKARVSN-------IEVKRQKRNPPVPFDLGTLQR 289
+ + +E +++ V +A++ N ++ K +K N P F L +LQ
Sbjct: 239 FKGVISPTQRFKTQE--ELLAFVSSEQAKIGNQEGIIADVQTKEKKTNSPSLFSLSSLQS 296
Query: 290 EAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAH 349
+ + + +TL Q LYE SYPRT++ + +N F + N + Y +
Sbjct: 297 KVNQLYKATASQTLKAMQGLYEAKLLSYPRTDTPFITEN-EFAYLKANFGK---YSGFLG 352
Query: 350 LLLGMPELKP----VEGKKEDPAHPAIYPTGEIPGPGDLSKDEE---KLYDMIVRRFLAL 402
L L M + +P V+G K H AI PT ++P L+K ++ K+Y ++V+ +A+
Sbjct: 353 LDLEMVQTEPRKRYVDGSKVQ-EHHAIIPTKQVPTESALAKMDDLQRKIYALVVKTTVAM 411
Query: 403 FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE---VTLPEFFIGERV 459
F+ + E K+ F G ++GW ++ + K +E TLP IGE
Sbjct: 412 FLPDYLYEETKIQTKVADLLFQSIGKTPKQEGWKILFKQQTKEEEEDVQTLPLVIIGEHA 471
Query: 460 RVLQVRREKKKTKPPARYSPAAVIKKM-----------------EDLGIGTKATRAQILE 502
V V+ +K+T+PP ++ ++ M E GIGT+ATRA I+E
Sbjct: 472 EV-DVKSAEKETQPPKAFTEGTLLTAMKTANKTVDDEEAIKILQEVEGIGTEATRASIIE 530
Query: 503 TLYQRGYIEG-KKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEE 561
L Q+ YI+ K + VT G + + +E + S E+T ++E + I + + +E
Sbjct: 531 ALKQKEYIQVIKNKLVVTEKGKLLCQAVESQ-HLLTSAEMTAKWETYLKKIGKREGNQEN 589
Query: 562 VIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDE-IKEEKPIVVGKCPKCGGDLIV 620
I K + +LE + ++ ++ D +++ KE + +VGKCPKCG ++++
Sbjct: 590 FITNIKKFIVHLLE-------AVPNDIEKLNFSDYQEQKEKEAEKSIVGKCPKCGNNIVL 642
Query: 621 KYNKKTGKRFVGCSNWPKCDVT 642
K K F GCSN+P+C T
Sbjct: 643 K------KSFYGCSNYPECKFT 658
>sp|Q9KRB2|TOP1_VIBCH DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|11270791|pir||B82163 DNA
topoisomerase I VC1730 [imported] - Vibrio cholerae
(group O1 strain N16961) >gi|9656251|gb|AAF94880.1|
(AE004251) DNA topoisomerase I [Vibrio cholerae]
Length = 876
Score = 213 bits (538), Expect = 4e-54
Identities = 169/561 (30%), Positives = 272/561 (48%), Gaps = 45/561 (8%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LAK +A D D EGE I + L+ G D R KR+ F+ +TK + A+
Sbjct: 101 VAELQKLAKDADSVYLATDLDREGEAIAWH-LREIIGGDEKRYKRVVFNEITKNAIQQAF 159
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
+ +N NA AR +D G +S L + R LS GRVQ +K L
Sbjct: 160 KQ-PGELNMDGVNAQQARRFMDRVVGFMVSPLLWKKVARG------LSAGRVQSVAVKLL 212
Query: 209 VEREREIQSFVPKPYWVIK---LVIEKNGQKLVANYEKD----KIWSEEEAKKIVTEVKK 261
VEREREI++FVP+ +W I L +K +L+ +KD K +E EA V + K
Sbjct: 213 VEREREIKAFVPEEFWDINADTLTADKQDFRLLVA-QKDGLAFKPVNETEALAAVAALNK 271
Query: 262 SKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTE 321
++ V E K P PF TLQ+ A + G+ KKT+ +AQ LYE G+ +Y RT+
Sbjct: 272 AQYEVCKREDKPTTSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITYMRTD 331
Query: 322 SQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDP--AHPAIYPTGEIP 379
S NL+ + + ++ A+L P V G K++ AH AI P+
Sbjct: 332 ST----NLSAEAVENLRGYITKHYGEAYL----PSQPNVYGSKQNAQEAHEAIRPSDVTV 383
Query: 380 GPGDLS---KDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWL 436
DL D KLY +I +F+A M PA +S V++ A + G GW
Sbjct: 384 TADDLEGMEADAHKLYALIWNQFVACQMTPAQYDSTTVSVKAAEYTLKAKGRILKFDGWT 443
Query: 437 SVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKAT 496
V K ++ LP +G+ ++++ + ++ TKPPARY+ AA++K++E GIG +T
Sbjct: 444 RVQRPLGKNEDQILPPVKVGDSLKLVSLDPKQHFTKPPARYTEAALVKELEKRGIGRPST 503
Query: 497 RAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
A I+ T+ RGY++ ++ +G V + L++ ++++ + T E K+D I +G
Sbjct: 504 YASIISTIQDRGYVKVDQRRFFAEKMGEIVTDRLDENFDDLMNYDFTARMEEKLDQIAEG 563
Query: 556 KLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCG 615
++ V++E ++ LE ++ E G++ IV+ ++ CP C
Sbjct: 564 EVNWTAVLDEFFADFSRDLETAEQDESLGGMKPNHIVMTNI-------------LCPTCS 610
Query: 616 GDLIVKYNKKTGKRFVGCSNW 636
+ ++ TG F+GCS +
Sbjct: 611 RPMGIR-TASTGV-FLGCSGY 629
>pir||B82606 conjugal transfer protein XF2059 [imported] - Xylella fastidiosa
(strain 9a5c) >gi|9107177|gb|AAF84859.1|AE004022_15
(AE004022) conjugal transfer protein [Xylella
fastidiosa]
Length = 685
Score = 213 bits (537), Expect = 5e-54
Identities = 208/708 (29%), Positives = 322/708 (45%), Gaps = 102/708 (14%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRD------GKKLIVASAVGHLY 54
M L IAEKP+VA+ IAG L T G Y E D G L A ++
Sbjct: 1 MRLFIAEKPSVAKAIAGELGV------TGKGEGYIECGHDTITWCFGHMLEQAEPDAYIS 54
Query: 55 GLAPKQDFFGYPIFDIEWVPV----YIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDT 110
P G I+ +E +P+ +I + +D AK ++ + L K+ E + A D D
Sbjct: 55 EDVPLNPKTGKKIWRVEELPIIPETWIMQPRED-AKAQLEVIKRLLKKATEIVNAGDPDR 113
Query: 111 EGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEP----TINFGMANAGIAR 166
EG+++ L+Y K ++ ++ +D ++ R L T G ANA AR
Sbjct: 114 EGQLLVDEVLEYF-----DCHKSVQRFWVSAQDSVSVQRGLAALRSNTAYQGFANAARAR 168
Query: 167 HVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVI 226
DW G+N SRA T +R G +L+ GRVQ PTL +V R+REI++F PY I
Sbjct: 169 SRADWLIGINFSRAYTLRAQRG-GSRALLTIGRVQTPTLALVVMRDREIEAFKSIPYHTI 227
Query: 227 KLVIEKNGQKLVANY--EKDKIWSEEEAKKIVTEVKKSKA--------RVSNIEVKRQKR 276
+ + G VA + ++D++ + E + + T + + +V + + +K+
Sbjct: 228 RAAFKHEGGVFVAVWRAKEDQVGLDPEGRLVDTVIANTLVESITGHIGKVIEYKQEPKKK 287
Query: 277 NPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKG-FTSYPRTESQKLPKNLNFRL-- 333
P + L + A + FG+S L++ QSLYE TSYPRT+ LP++ +
Sbjct: 288 AQPRAYSLSDMTLLASNKFGYSAADVLEVCQSLYETHKLTSYPRTDCGYLPESQHADAPH 347
Query: 334 IIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDP----AHPAIYPTGEIPGPGDLSKDEE 389
+++ I + Y A L+ G + ++ K D AH I PT +LS+ E
Sbjct: 348 VLEAIKHV--YPEVAVLVDGANQ--NIKSKTWDDSKITAHHGIIPTMHKGSMANLSEKER 403
Query: 390 KLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE-- 447
+YD+IVR +LA F + VT+ +F + G + GW V YI+ +E
Sbjct: 404 NIYDLIVRVYLAQFYLQHEYLATTVTLEVAGERFDVGGKVVTRNGWRDV---YIEAEEEA 460
Query: 448 ----------VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDL-------- 489
LP G+ V ++ R KTK P+R++ + + ME++
Sbjct: 461 EGESESGSNNQALPNMQNGDVVSCVKATRIDAKTKAPSRFTEGTLTRAMENIHKYVTDAE 520
Query: 490 ---------GIGTKATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEII-S 538
GIGT ATRA I+ L +R ++E K K I T LG +I+ L PE++ S
Sbjct: 521 HKKLLRDGDGIGTSATRASIISELKRRQFLEVKGKQIVSTTLGRSMIDAL----PEVVKS 576
Query: 539 VELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKD 598
LT +ER + I +G+L + I K+E I ++A+ G +K
Sbjct: 577 PVLTALYERMLLSIGEGRLEVDSFI--------------TKQEAFIREQIAKANDGALKL 622
Query: 599 EIKEEKPIV--VGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYP 644
+E P V KC CG L+ + KKTG F CS +P C TYP
Sbjct: 623 NGAKESPKVSETHKCMVCGKGLVRRIGKKTGTNFWSCSGYPTCSQTYP 670
>sp|O83409|TOP1_TREPA DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7449004|pir||D71332 probable DNA
topoisomerase I (topA) - syphilis spirochete
>gi|3322672|gb|AAC65378.1| (AE001217) DNA topoisomerase
I (topA) [Treponema pallidum]
Length = 731
Score = 212 bits (535), Expect = 8e-54
Identities = 183/647 (28%), Positives = 298/647 (45%), Gaps = 71/647 (10%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIE--WVPVYIAEKNKDYAKDYIKALSVLAKR 98
G + +V +++GH+ L PK DIE + P YI + + +K L L+K+
Sbjct: 36 GTQYVVRASMGHVIDL-PKSRL----AIDIEHDFQPEYITVRGRAQC---LKELRTLSKQ 87
Query: 99 VKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG 158
+ +A D D EGE I Y + + KR+ F+ +T + A + P I+
Sbjct: 88 SLQVFLASDRDREGEAIAYHLAQSIQAYCDTPIKRIVFNEITPHAIRAAIGHPVP-IDTA 146
Query: 159 MANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSF 218
NA AR VLD G +L L H +K LS GRVQ L+ + ERE E++ F
Sbjct: 147 KVNAQKARRVLDRLVGYHLCPLLWHKVKNG------LSAGRVQSVALRLICEREVEVKRF 200
Query: 219 VPKPYWVIKLVIEKNGQKLVA-----NYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKR 273
VP+ YW ++ EK+ + A +K S++EA + +S+ARVS I
Sbjct: 201 VPEEYWTVEGTFEKDKKSFSALLILIQGKKAVFKSKQEATSAIGLFSQSEARVSQIRSFE 260
Query: 274 QKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQKL 325
+ P PF TLQ+ A + GF+ +KT+ +AQ LYE G +Y RT+S ++
Sbjct: 261 KNVRPKQPFTTSTLQQCAANRLGFTSRKTMQVAQQLYEGVSLGTHRVGLITYMRTDSVRV 320
Query: 326 PKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGP---- 381
+ ++ + R ++ L G P +GK +D AH AI PT P
Sbjct: 321 SE-----AAVKEV-RAWIATHFSDALPGTPNRYAAKGKSQD-AHEAIRPTYVAHTPERIK 373
Query: 382 GDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGK 441
L++D+ +LY +I RF+A M A S+ I AGP F + + ++QG+ V
Sbjct: 374 AHLTRDQIRLYTLIWERFVASQMTDARVRSLTFEITAGPAVFSATETQVIEQGFYRVLKM 433
Query: 442 YIKFD--EVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQ 499
D + LP GE V + V+ + T+ P RY+ A+++K +E+ GIG +T A
Sbjct: 434 LSPKDLSKAVLPPTKEGEVVALHNVQSVQHFTQGPVRYTDASIVKMLEEKGIGRPSTYAP 493
Query: 500 ILETLYQRGYIEG-KKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLT 558
+ L R Y+ +K + TPLG + + L Y +++ V T E K+D + + K+
Sbjct: 494 TISVLLDRYYVTRIQKQLMPTPLGKVISDLLTTYFHDVVDVSFTARMESKLDEVEEDKIK 553
Query: 559 KEEVIEE----AKVKLTKILEEFKKRELEIGLELARIVVGDVKD---------------- 598
VI + K++ ++++ + E +V D
Sbjct: 554 WNCVIADFYPAFSEKVSTVMKDLNSMR-GVFDEKTDVVCSQCGDTMVKKLGRFGFFLACG 612
Query: 599 ---EIKEEKPIVVGKCPK--CGGDLIVKYNKKTGKRFVGCSNWPKCD 640
E + +P+ + KCP+ C G+++ K + K F GC+ +P CD
Sbjct: 613 KFPECRNTQPVPLAKCPRPACDGNIVGK-KTRGRKEFYGCTRFPVCD 658
>dbj|BAA96895.1| (AB019227) DNA topoisomerase III [Arabidopsis thaliana]
Length = 926
Score = 212 bits (534), Expect = 1e-53
Identities = 195/716 (27%), Positives = 315/716 (43%), Gaps = 57/716 (7%)
Query: 2 ILVIAEKPNVARKIAGALS-------ERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLY 54
+L +AEKP+VA+ +AG LS E R IF Y + ++++ S +GHL
Sbjct: 11 VLNVAEKPSVAKSVAGILSRGTFRTREGRSRYNKIFEFDY-AINGQPCRMLMTSVIGHLM 69
Query: 55 GLAPKQDFFGYPIFD-IEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
L + + D + + + + KD K L A++ ++ D D EGE
Sbjct: 70 ELEFADRYRKWHSCDPADLYQAPVMKHVPEDKKDIKKTLEEEARKSDWLVLWLDCDREGE 129
Query: 114 VIGYTALKYACGVDPSR-AKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWY 172
I + + V + +R FSAL RD+ A +NL N A A AR +D
Sbjct: 130 NIAFEVVDVCRAVKHNLFIRRAHFSALIDRDIHEAVQNLRDP-NQLFAEAVDARQEIDLR 188
Query: 173 WGVNLSRALTHAIK-------RASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWV 225
G + +R T ++ + V+S G Q PTL F+VER EIQ+ P+ +W
Sbjct: 189 IGASFTRFQTMLLRDRFAIDSTGEERSRVISYGPCQFPTLGFIVERYWEIQAHEPEEFWT 248
Query: 226 IKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTE-VKKSKARVSNIEVKRQK-RNPPVPFD 283
I + N+ + ++ A + V++ A V N+ R++ + PP P +
Sbjct: 249 INCSHQSEEGLATFNWMRGHLFDYASAVILYEMCVEEPTATVMNVPHPRERFKYPPYPLN 308
Query: 284 LGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQ 343
L++ A F S + T+ +A+ LY+ GF SYPRTE+ + R +++ +R P
Sbjct: 309 TIELEKRASRYFRLSSEHTMKVAEELYQAGFISYPRTETDSFSSRTDLRAMVEEQTRHPA 368
Query: 344 YRPYAHLLLGMPE----LKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRF 399
+ YA LL PE P G +D AHP I+PT G + S+D +Y+++VR +
Sbjct: 369 WGSYAQRLLE-PEGGLWRNPANGGHDDKAHPPIHPTKFSSGESNWSRDHLNVYELVVRHY 427
Query: 400 LALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERV 459
LA +PAV V I +F SG + + +L VY ++ + +P + G++
Sbjct: 428 LACVSQPAVAAETTVEIDIAGERFSASGRAILAKNYLEVY-RFESWGGSVIPVYEKGQQF 486
Query: 460 RVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVT 519
+ + T+PP A ++ M+ GIGT AT ++ L RGY + + +
Sbjct: 487 IPTTLTLDAAVTRPPPLLCEADLLSCMDKAGIGTDATMHDHIKKLLDRGYATKDANTRFS 546
Query: 520 P--LGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIE-----------EA 566
P LG ++ + E+ L E M+ + G+ TK EV+E +A
Sbjct: 547 PTNLGEALVMGYDDMGYELWKPNLRALMEHDMNEVSVGRKTKAEVLETCLQQMKACFLDA 606
Query: 567 KVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKT 626
+VK +K+LE + I E + + + + VV +C C + +
Sbjct: 607 RVKKSKLLE-----AMTIFFERS----NNTDESESQTAGEVVRRCNLCNESDMALRKNRD 657
Query: 627 GKRFVGCSNWPKCD----VTYPILQRGEIIPTNKTC--CNGAPVVIIRDKGRDIEI 676
G VGC N+P+C + P L E T C C PV I K R I I
Sbjct: 658 GNFMVGCMNYPQCRNAVWLPGPTL---EASVTTNVCQSCGPGPVYKILFKFRQIGI 710
>sp|P57371|TOP1_BUCAI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|10038959|dbj|BAB12994.1|
(AP001118) DNA topoisomerase I [Buchnera sp. APS]
Length = 861
Score = 207 bits (522), Expect = 3e-52
Identities = 157/517 (30%), Positives = 257/517 (49%), Gaps = 31/517 (5%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
I L +A +VK +A D D EGE I + LK G D S+ R+ F+ +T+ + A+
Sbjct: 92 ISELKYIANQVKHIYLATDLDREGEAIAWH-LKEVIGGDSSKFSRVVFNEITQHSIQKAF 150
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
+N+ IN +A AR +D G +S L I R LS GRVQ ++ +
Sbjct: 151 KNVGH-INMNRVHAQQARRFMDRIVGYMISPLLWKKIARG------LSAGRVQSVAVRII 203
Query: 209 VEREREIQSFVPKPYWVIKLVIEKNGQKLVA------NYEKDKIWSEEEAKKIVTEVKKS 262
+RE I++FVP+ YW + + + +K + N +K + +E E V +++KS
Sbjct: 204 ADRESIIKNFVPEEYWKLDVSLISQDKKKINMDVTHYNNKKFRPINENEVSFAVEKIQKS 263
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
V N E K P PF TLQ+ A GFS KKT+ +AQ LYE+G+ +Y RT+S
Sbjct: 264 SCIVKNYEEKISYLKAPAPFITSTLQQSASLRLGFSVKKTMFLAQKLYEEGYITYMRTDS 323
Query: 323 QKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG---EIP 379
L + I+ + + + ++ L P + E K AH AI P+ +
Sbjct: 324 NYLSE-----YAIKKVRKYIKSNYGSNYLPKEPNIYSNE-KHSQEAHEAIRPSDIKIKNI 377
Query: 380 GPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVY 439
L+ +KLY++I +FLA M+ +S+ VT+LA K S + QGW
Sbjct: 378 DSDHLNSSAKKLYELIWNQFLASQMKSVKYKSITVTVLADMFKLQKSERIVMFQGW---- 433
Query: 440 GKYIKFDEVTLPEFFI---GERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKAT 496
K + ++ +F I G ++ + +V +K TKPP R+S A++++++E GIG +T
Sbjct: 434 NKVLIEEKNVFSQFPILQTGSQLFINKVTPSQKFTKPPPRFSEASLVRELEKKGIGRPST 493
Query: 497 RAQILETLYQRGYIEGKKS-IKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
+ I + RGY++ KK+ +G + L+K +I T E+K+D + +
Sbjct: 494 YSAITSKIQDRGYVKIKKNKFYAEKMGEILTIRLKKSFSNLIDYNFTAHMEKKLDQVAEN 553
Query: 556 KLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIV 592
K+T ++++ K ++ LE+ KK E G+EL IV
Sbjct: 554 KVTWRYLLDDFFKKFSEQLEQAKKSPEEGGMELNNIV 590
>sp|P06612|TOP1_ECOLI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7428456|pir||ISECTP DNA
topoisomerase (EC 5.99.1.2) - Escherichia coli
>gi|415338|emb|CAA28164.1| (X04475) put. DNA
topoisomerase I (AA 1-864) [Escherichia coli]
>gi|1742069|dbj|BAA14811.1| (D90764) DNA topoisomerase I
(EC 5.99.1.2) (w-protein) (Relaxing enzyme) (Untwisting
enzyme) (Swivelase). [Escherichia coli]
>gi|1742085|dbj|BAA14826.1| (D90765) DNA topoisomerase I
(EC 5.99.1.2) (w-protein) (Relaxing enzyme) (Untwisting
enzyme) (Swivelase). [Escherichia coli]
>gi|1787529|gb|AAC74356.1| (AE000225) DNA topoisomerase
type I, omega protein [Escherichia coli K12]
Length = 865
Score = 206 bits (520), Expect = 5e-52
Identities = 168/585 (28%), Positives = 279/585 (46%), Gaps = 55/585 (9%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LA++ +A D D EGE I + L+ G D +R R+ F+ +TK + A+
Sbjct: 93 VSELKQLAEKADHIYLATDLDREGEAIAWH-LREVIGGDDARYSRVVFNEITKNAIRQAF 151
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
N +N NA AR +D G +S L I R LS GRVQ ++ +
Sbjct: 152 -NKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKIARG------LSAGRVQSVAVRLV 204
Query: 209 VEREREIQSFVPKPYWVIKL-VIEKNGQKLV--ANYEKDKIW---SEEEAKKIVTEVKKS 262
VEREREI++FVP+ +W + +G+ L ++ DK + ++E+ + V+ ++K+
Sbjct: 205 VEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKA 264
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
+ V E K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S
Sbjct: 265 RYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDS 324
Query: 323 QKLPK---NLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTG- 376
L + N+ I N + +Y +PE KE+ AH AI P+
Sbjct: 325 TNLSQDAVNMVRGYISDNFGK--KY---------LPESPNQYASKENSQEAHEAIRPSDV 373
Query: 377 --EIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQG 434
D+ D +KLY +I R+F+A M PA +S +T+ AG + G G
Sbjct: 374 NVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDG 433
Query: 435 WLSVYGKYIKFDE-VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGT 493
W V K DE LP G+ + ++++ + TKPPAR+S A+++K++E GIG
Sbjct: 434 WTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEKRGIGR 493
Query: 494 KATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLI 552
+T A I+ T+ RGY+ + +G V + LE+ E+++ + T + E +D +
Sbjct: 494 PSTYASIISTIQDRGYVRVENRRFYAEKMGEIVTDRLEENFRELMNYDFTAQMENSLDQV 553
Query: 553 MQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCP 612
+ + V++ T+ L++ +K E G+ ++V+ + CP
Sbjct: 554 ANHEAEWKAVLDHFFSDFTQQLDKAEKDPEEGGMRPNQMVLTSI-------------DCP 600
Query: 613 KCGGDLIVKYNKKTGKRFVGCSNW-----PKCDVTYPILQRGEII 652
CG + ++ TG F+GCS + +C T ++ E++
Sbjct: 601 TCGRKMGIR-TASTGV-FLGCSGYALPPKERCKTTINLVPENEVL 643
>gi|10957138 trsI protein (traI) [Lactococcus lactis] >gi|11270807|pir||T43092
probable transfer complex protein TrsI - Lactococcus
lactis plasmid pMRC01 >gi|3582208|gb|AAC56004.1|
(AE001272) trsI protein (traI) [Lactococcus lactis]
Length = 725
Score = 206 bits (520), Expect = 5e-52
Identities = 194/686 (28%), Positives = 316/686 (45%), Gaps = 83/686 (12%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRD--GKKLIVASAVGHLYGLA-PK 59
+V+AEKP+ A A A + + Y+EV + + GHL LA P+
Sbjct: 4 IVLAEKPSQASDYANAFQKHTKKQG------YFEVSDPVLANETFITYGFGHLVELASPE 57
Query: 60 QDFFGYPIFDIEWVPVY------IAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
Q Y +D++ +P++ I K+K K +S L K + I+A D D EGE
Sbjct: 58 QYDTKYKKWDLKNLPIFPEKYKFIVPKDK---KGQFSIVSDLIKDADQIIIATDSDREGE 114
Query: 114 VIGYTALKYA-CGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDW 171
I ++ L A + KR+ ++L K +LN ++NL+ F R + DW
Sbjct: 115 NIAWSILNKAKIDLKSKDIKRLWINSLEKESILNGFKNLKDGWEFYNFFKEAQTRQISDW 174
Query: 172 YWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIE 231
G+N S T ++R G V S GRVQ PTL + +R EI++F P PY+ I ++
Sbjct: 175 LIGMNASPLFTIELQR-KGINGVYSIGRVQTPTLYLVYKRYLEIKNFKPTPYFEINAEVQ 233
Query: 232 KNGQKL-------VANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDL 284
K + +K+K+ + K I + V++ +S+++ +K P F L
Sbjct: 234 AGADKFNGKLDPYIRFSDKNKLNDFAKEKNIKSGVQEGI--ISDVKKNLKKSQSPRLFSL 291
Query: 285 GTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQY 344
LQ E + S TL Q LYE+ +YPRT+ + N F + +N+S+ +
Sbjct: 292 SDLQTEVNKRYHASASDTLKAVQKLYEQKILTYPRTDCNFITDN-EFNYLKENLSKYISF 350
Query: 345 -RPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD---LSKDEEKLYDMIVRRFL 400
+L P + V+ K H AI T +P + LS E+K+Y ++++ L
Sbjct: 351 LNKDINLNNTNPNKRYVDSSKVQ-EHHAIILTKTVPSKDNFNKLSDLEKKIYQLVLKTTL 409
Query: 401 ALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVY---GKYIKFDEVTLPEFFIGE 457
A+F +P E + F G GW ++ K K DE LP IG+
Sbjct: 410 AMFADPFEYEETVILTKVNLAIFKTIGKTPKNIGWKELFSEESKESKDDENLLPAVTIGD 469
Query: 458 RVRVLQVRREKKKTKPPARYSPAAVIKKM----EDL-------------GIGTKATRAQI 500
V+V + ++K+TKPP Y+ +IK M +DL GIGT+ATRA I
Sbjct: 470 IVKV-DLSVDQKETKPPIPYTEGTLIKAMKTAGKDLDDEEDQEILKDIEGIGTEATRANI 528
Query: 501 LETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK 559
LETL + Y + K + V+ G+ + + +E P + S E+T ++E+ + I Q + T+
Sbjct: 529 LETLKNKQYLLTEKNKLTVSQQGITLCKAVE-LEPLLASAEMTAKWEKALKQIGQKQRTQ 587
Query: 560 EEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPI----VVGKCPKCG 615
+ +E+ K +TKI+ + + + + I+ +K++I +K I + CP C
Sbjct: 588 DNFLEQIKKFITKIINDLPNK-----MNDSSILNSQIKEQITTQKEIETESEISNCPIC- 641
Query: 616 GDLIVKYNKKTGK-----RFVGCSNW 636
KTGK +F GCSN+
Sbjct: 642 ---------KTGKILDKGKFYGCSNY 658
>gb|AAF71288.1|AF255733_1 (AF255733) DNA topoisomerase III alpha [Drosophila melanogaster]
Length = 1250
Score = 206 bits (518), Expect = 8e-52
Identities = 181/668 (27%), Positives = 305/668 (45%), Gaps = 40/668 (5%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFR-------DGKKLIVASAVGHLYG 55
L +AEK + A+ IAG LS R+ + V Y +VF K+++ S GH+
Sbjct: 29 LNVAEKNDAAKTIAGLLSNGAAQRREGYSV-YNKVFDFEAPVRGQNAKMVMTSVSGHMMQ 87
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEG 112
LA + + + D ++ A K DY L + V+ I+ D D EG
Sbjct: 88 LAFQVSYKNWRTVDPR--SLFDAPVEKGVGSDYEPIKRTLEREVRGCQGLIIWTDCDREG 145
Query: 113 EVIGYTALKYACGVDPS-RAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDW 171
E IGY + + P+ R FS +T + A + L + ++A R LD
Sbjct: 146 ENIGYEIIDVCRAIKPNISVYRATFSEITTVAVRRALQQLGQP-DKRQSDAVDVRTELDL 204
Query: 172 YWGVNLSRALTHAIKRASGKWV---VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKL 228
G ++R T ++R + + ++S G Q PTL F+ ER +EI++FV +P+W IK+
Sbjct: 205 RTGAAITRFQTMRLQRLFPEKIADKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKV 264
Query: 229 VIEKNGQKLVANYEKDKIWSEEEAKK---IVTEVKKSKARVSNIEVKRQKRNPPVPFDLG 285
+ + + N+ +++++ +E + + +A V ++ VK + + P P D
Sbjct: 265 LHTIDDLTVEFNWARNRLFDKEACENYLLLCLAEPDPRALVESVTVKPKHKWRPTPLDTV 324
Query: 286 TLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYR 345
+++ S K+T+ IA+ LY KGF SYPRTE+ + K +++ + +
Sbjct: 325 EMEKLGSRKLKLSAKETMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWG 384
Query: 346 PYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFME 405
+A ++ P G K D AHP I+PT +L +E ++Y+++VR FLA +
Sbjct: 385 AFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKLAE---NLQGNEARVYELVVRHFLACVSK 440
Query: 406 PAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
AV V I KF +G ++ +L VY Y K+ + + G+R +V
Sbjct: 441 DAVGSETLVHIDIAGEKFTANGLVIHERNYLDVY-VYDKWSAKQIHHYENGQRFEPTEVS 499
Query: 466 REKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--LGM 523
+ T P + A +I ME GIGT AT A+ + T+ +RGYI + P +GM
Sbjct: 500 LHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIGVLDKGFLVPGVIGM 559
Query: 524 KVIETLEKYVPEIISVELTREFERKMDLIMQG----KLTKEEVIEEAKVKLTKILEEFKK 579
+ E + + +L EFE + LI QG K+ E I + K +I ++
Sbjct: 560 GLYEGYDAMELALAKPQLRAEFELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITDKITA 619
Query: 580 RELEIGLEL-----ARIVVGDVKDEIKEEKPIV--VGKCPKCG-GDLIVKYNKKTGKRFV 631
+ +I + A V + D I+ + +CPKC L +K K ++
Sbjct: 620 MDAKISARINETPAANSAVQEGADGSAPSHGIIQSIFQCPKCNEAPLALKPKKNQQGWYI 679
Query: 632 GCSNWPKC 639
GC+N+P C
Sbjct: 680 GCNNFPDC 687
>pir||B82746 DNA topoisomerase I XF0920 [imported] - Xylella fastidiosa (strain
9a5c) >gi|9105841|gb|AAF83730.1|AE003931_7 (AE003931)
DNA topoisomerase I [Xylella fastidiosa]
Length = 815
Score = 205 bits (516), Expect = 1e-51
Identities = 172/584 (29%), Positives = 287/584 (48%), Gaps = 74/584 (12%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFF----GYPI-FDIEWVPVYIAEKNKDYAKDYIKALSVL 95
GK V ++ GH+ L PK+ G+ + +D+ +KN+ + ++A++
Sbjct: 22 GKDFTVLASYGHVRDLVPKEGAVDPENGFAMRYDL-------IDKNEKH----VEAITKA 70
Query: 96 AKRVKEFIVACDYDTEGEVIGY---TALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLE 152
AK +A D D EGE I + LK + +R+ F+ +T R + A +
Sbjct: 71 AKTADSIYLATDPDREGEAISWHISEILKERGLLKDKPMQRIVFTEITPRAIKEAIQKPR 130
Query: 153 PTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERE 212
I + +A AR LD+ G NLS L ++R LS GRVQ P L+ +VERE
Sbjct: 131 -MIASDLVDAQQARRALDYLVGFNLSPVLWRKVQRG------LSAGRVQSPALRMIVERE 183
Query: 213 REIQSFVPKPYWVIKL------------VIEKNGQKLVANYEKDKIWSEEEA---KKIVT 257
EI++F+ + YW I +I+ +GQK +E+ I + A ++ +
Sbjct: 184 EEIEAFITREYWSIHAECAHPAQHFSAKLIKLDGQK----FEQFTITDSDTAAAAQRRIQ 239
Query: 258 EVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK----- 312
+V + + ++++ K +KR P PF TLQ+EA GF+ +KT+ IAQ LYE
Sbjct: 240 QVAQGRLHITDVTNKERKRRPAPPFITSTLQQEASRKLGFTTRKTMQIAQKLYEGIALGE 299
Query: 313 ----GFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYA-HLLLGMPELKPVEGKKEDP 367
G +Y RT+S L +L+ I++I R Y + L P + + K
Sbjct: 300 EGSVGLITYMRTDSVNL--SLDALSEIRDIIA----RDYGTNALPDKPNVYTTKSKNAQE 353
Query: 368 AHPAIYPTGEIPGPGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAG-PHK 422
AH A+ PT + P LS +E +LY+++ +R +A M PA+ + V + AG H
Sbjct: 354 AHEAVRPTSALRTPTQVAPYLSNEEHRLYELVWKRAVASQMIPAILNTTSVDLAAGNEHV 413
Query: 423 FMLSGARTVKQGWLSVY--GKYIKFDEVT-----LPEFFIGERVRVLQVRREKKKTKPPA 475
F +G V QG+L+VY GK K E LP GE V + ++ E+ T+PP
Sbjct: 414 FRATGTTVVVQGFLAVYEEGKDNKNAEDDDEGRKLPVMKTGENVPLERILTEQHFTQPPP 473
Query: 476 RYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVP 534
RY+ AA++K +E+ GIG +T A I++TL R Y++ + +S + T +G V + L +
Sbjct: 474 RYTEAALVKALEEYGIGRPSTYASIIQTLLFRKYVDMEGRSFRPTDIGRAVSKFLASHFT 533
Query: 535 EIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFK 578
+ + T E ++D I +G+ ++++ V +++E+ K
Sbjct: 534 RYVDYDFTAHLEDELDAISRGEEEWIPLMKKFWVPFKELVEDKK 577
>sp|P46799|TOP1_THEMA DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|2120369|pir||S62737 DNA
topoisomerase I - Thermotoga maritima (strain MSB8)
>gi|881494|gb|AAA68949.1| (U27841) topoisomerase I
[Thermotoga maritima]
>gi|4980754|gb|AAD35346.1|AE001708_14 (AE001708) DNA
topoisomerase [Thermotoga maritima]
Length = 633
Score = 205 bits (515), Expect = 2e-51
Identities = 173/542 (31%), Positives = 265/542 (47%), Gaps = 49/542 (9%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
G + V +++GH+ L PK F G + + ++ P + K K+ + +K L+ +
Sbjct: 25 GNEYEVFASMGHIIDL-PKSKF-GVDL-EKDFEPEFAVIKGKEKVVEKLKDLA----KKG 77
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
E ++A D D EGE I + + + R R+ FS +T R + A +N I+
Sbjct: 78 ELLIASDMDREGEAIAWHIARVTNTL--GRKNRIVFSEITPRVIREAVKNPRE-IDMKKV 134
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
A +AR +LD G +LS L K LS GRVQ TLK + +REREI FVP
Sbjct: 135 RAQLARRILDRIVGYSLSPVLWRNFKSN------LSAGRVQSATLKLVCDREREILRFVP 188
Query: 221 KPYWVIKLVIEKNGQKLVANYE-KDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPP 279
K Y I + N L A + K+K + + E K + + + + VK K PP
Sbjct: 189 KKYHRITV----NFDGLTAEIDVKEKKFFDAETLKEIQSIDELVVEEKKVSVK--KFAPP 242
Query: 280 VPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK--------GFTSYPRTESQKLPKNLN- 330
PF TLQ+EAYS GFS KT+ IAQ LYE F +Y RT+S ++
Sbjct: 243 EPFKTSTLQQEAYSKLGFSVSKTMMIAQQLYEGVETKDGHIAFITYMRTDSTRVSDYAKE 302
Query: 331 -FRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD----LS 385
R +I + + +G + K AH AI PT P + L+
Sbjct: 303 EARNLITEV--------FGEEYVGSKRERRKSNAKIQDAHEAIRPTNVFMTPEEAGKYLN 354
Query: 386 KDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKF 445
D++KLY++I +RFLA M+P+ E + + K+ G TV + Y K K
Sbjct: 355 SDQKKLYELIWKRFLASQMKPSQYEETRFVLRTKDGKYRFKG--TVLKKIFDGYEKVWKT 412
Query: 446 DEVTLP-EFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETL 504
+ T F GE V+ + V+ E+++TKP RY+ +++K+ME LGIG +T A ++ L
Sbjct: 413 ERNTGEFPFEEGESVKPVVVKIEEQETKPKPRYTEGSLVKEMERLGIGRPSTYASTIKLL 472
Query: 505 YQRGYIEGKKS-IKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVI 563
RGYI+ + + T +G V++ LEK +++SV T E E+ +D + QGK T + V+
Sbjct: 473 LNRGYIKKIRGYLYPTIVGSVVMDYLEKKYSDVVSVSFTAEMEKDLDEVEQGKKTDKIVL 532
Query: 564 EE 565
E
Sbjct: 533 RE 534
>pir||D83269 DNA topoisomerase I PA3011 [imported] - Pseudomonas aeruginosa
(strain PAO1) >gi|9949113|gb|AAG06399.1|AE004726_5
(AE004726) DNA topoisomerase I [Pseudomonas aeruginosa]
Length = 868
Score = 203 bits (510), Expect = 7e-51
Identities = 177/588 (30%), Positives = 276/588 (46%), Gaps = 65/588 (11%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
I L LAK +A D D EGE I + L+ A G D SR KR+ F+ +TK+ + A+
Sbjct: 98 IDELRRLAKDADTVYLATDLDREGEAIAWH-LREAIGGDESRYKRVVFNEITKKAIQEAF 156
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
++ NA AR LD G +S L I R LS GRVQ +K +
Sbjct: 157 SQ-PGELDINRVNAQQARRFLDRVVGYMVSPLLWQKIARG------LSAGRVQSVAVKLV 209
Query: 209 VEREREIQSFVPKPYWVIKLVIEKNGQKLVANY---------EKDKIWSEEEAKKIVTEV 259
VEREREI++FVP+ YW + + G AN E K +E +A + ++
Sbjct: 210 VEREREIRAFVPEEYWEVHADL---GTAKGANVRFEVTREKGEAFKPLNEAQAMAALEKL 266
Query: 260 KKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPR 319
K S V+ E + P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y R
Sbjct: 267 KASAYSVAKREDRPTSSRPSAPFITSTLQQAASNRLGFGVKKTMMMAQRLYEAGYITYMR 326
Query: 320 TESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLG---MPELKPVEGKKE--DPAHPAIYP 374
T+S L + + R + G +P V KE AH AI P
Sbjct: 327 TDSTNL-----------SADAIGMVRGFIEDEFGQKYLPGKANVYSSKEGAQEAHEAIRP 375
Query: 375 TGEIPGPGDLS---KDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTV 431
+ P LS +D E+LYD+I R+F+A M PA S V++ AG + G
Sbjct: 376 SDVNLKPTQLSGMERDAERLYDLIWRQFVACQMTPAEYLSTSVSVTAGDFELRAKGRILK 435
Query: 432 KQGWLSVYGKYIK-FDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLG 490
G+ V + K ++ LPE GE ++++++ + TKPPARYS A+++K++E G
Sbjct: 436 FDGYTRVLPQQSKPGEDDVLPEMKEGENLKLIKLDPSQHFTKPPARYSEASLVKELEKRG 495
Query: 491 IGTKATRAQILETLYQRGYI-EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKM 549
IG +T A I+ T+ +RGY+ + +G V + L + ++ T E +
Sbjct: 496 IGRPSTYAAIISTIQERGYVTTHNRRFYAEKMGDIVTDRLNESFANLMDYGFTAGMEEHL 555
Query: 550 DLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVG 609
D + QG+ + +++E +FKK+ LE+A + + ++ +P +
Sbjct: 556 DDVAQGERDWKHLLDE-------FYGDFKKK-----LEVAEV----SEKGMRANQPTLTN 599
Query: 610 -KCPKCGGDLIVKYNKKTGKRFVGCSNW-----PKCDVTYPILQRGEI 651
C +CG ++++ TG F+GCS + +C T ++ EI
Sbjct: 600 IPCRECGRPMMIR-TASTGV-FLGCSGYSLPPKERCKATVNLIPGDEI 645
>sp|Q9ZDK2|TOP1_RICPR DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7437433|pir||H71688 DNA
topoisomerase I (topA) RP326 - Rickettsia prowazekii
>gi|3860886|emb|CAA14786.1| (AJ235271) DNA TOPOISOMERASE
I (topA) [Rickettsia prowazekii]
Length = 776
Score = 201 bits (507), Expect = 2e-50
Identities = 190/637 (29%), Positives = 288/637 (44%), Gaps = 67/637 (10%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
G + V ++ GH+ L K+ G + D ++ Y D A Y+ A+ A++ +
Sbjct: 20 GDEFKVIASFGHIRDLPSKK---GSVLPDKNFLMEYDIS---DKAGKYVDAIVKEARKAE 73
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRA----KRMKFSALTKRDLLNAWRNLEPTIN 156
+A D D EGE I + + + + KR+ F+ +TK+ ++NA N ++
Sbjct: 74 VVYLATDPDREGESISWHVAEVIKEKNKVESDDFFKRVAFNEITKKAIMNAVANPRK-LD 132
Query: 157 FGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQ 216
+ NA AR LD+ G LS L + S GRVQ L+ + +RE EI+
Sbjct: 133 TNLVNAQQARRALDYLVGFTLSPLLWRKLPGCK------SAGRVQSVALRLICDREDEIE 186
Query: 217 SFVPKPYWVIKLVIEKNGQKLVA---------NYEKDKIWSEEEAKKIVTEVKKSKARVS 267
F + YW I L ++ + L +K I +E+EAK + ++K K V
Sbjct: 187 RFKSEEYWDISLKMQNSNNDLFTAKLTHVNDQKLKKFSIINEKEAKDLTQKLKLQKFYVE 246
Query: 268 NIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK--------GFTSYPR 319
IE K+QKR P PF +LQ+EA GFS KKT+ IAQ LYE G +Y R
Sbjct: 247 KIEKKQQKRQPQPPFITSSLQQEAARKLGFSAKKTMQIAQKLYEGVDIGKETIGLITYMR 306
Query: 320 TESQKLPKNLNF---RLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG 376
T+ L + +LI +N QY P P + + K AH AI PT
Sbjct: 307 TDGVTLSNDAIADIRKLIDKNYGN--QYLPI------KPRIYQSKVKNAQEAHEAIRPTN 358
Query: 377 EIPGPGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFML---SGAR 429
P L KD KLY++I R +A ME + + V + LA +K L +G+
Sbjct: 359 ITYTPDSLKQKLEKDYYKLYELIWHRTIACQMENVIMDLV-IANLASENKEYLAKANGSI 417
Query: 430 TVKQGWLSVYGKYI----KFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKK 485
G+ VY + + + D LP E ++ +V K T+PP RYS A+++KK
Sbjct: 418 IAFDGFYKVYRESLDDEDEEDNKMLPPLKEQEHIKTKEVIPNKHFTEPPPRYSEASLVKK 477
Query: 486 MEDLGIGTKATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTRE 544
+E+LGIG +T A IL L R Y+ KK LG V L + + + + T
Sbjct: 478 LEELGIGRPSTYASILSVLQDRKYVALEKKRFIPEELGRLVTVFLVGFFKKYVEYDFTAG 537
Query: 545 FERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKREL-EIGLELARIVVGDVKDEIKEE 603
E ++D I GKL + + +E ++++ EI L + + + E KE
Sbjct: 538 LENELDEIAAGKLEWKTALNNFWRGFNHNIESVNEQKITEIINYLQKALDYHLFGEDKES 597
Query: 604 KPIVVGKCPKC-GGDLIVKYNKKTGKRFVGCSNWPKC 639
K CP C G L +K K F+ CSN+P+C
Sbjct: 598 K-----VCPSCKTGQLSLKLGKFGA--FLACSNYPEC 627
>sp|P78032|TOP1_MYCPN DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|2146113|pir||S73898 DNA
topoisomerase I - Mycoplasma pneumoniae (strain ATCC
29342) >gi|1674272|gb|AAB96220.1| (AE000056) DNA
topoisomerase I [Mycoplasma pneumoniae]
Length = 711
Score = 200 bits (503), Expect = 5e-50
Identities = 168/602 (27%), Positives = 266/602 (43%), Gaps = 80/602 (13%)
Query: 87 DYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLN 146
D IK++ A + +A D D EGE I + D S+ +R+ F+ +TK +L+
Sbjct: 82 DIIKSIKEKASKATNIYLATDPDREGEAISWHVYDVLDEKDKSKCQRITFNEITKNAVLD 141
Query: 147 AWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLK 206
A +N I+ + AR +LD G LSR L + + S GRVQ L+
Sbjct: 142 ALKNPRE-IDQSWVQSQFARQILDRMIGFRLSRLLNNYLSAKSA-------GRVQSVALR 193
Query: 207 FLVEREREIQSFVPKPYWVIKLVIEKNGQ---KLVAN-------------------YEKD 244
FL ERE+EI+SFVP+ +W + +++ + + AN +E++
Sbjct: 194 FLEEREQEIRSFVPRFWWTLDVLLNPKAEGVREACANRSIPIVLREINPALRAGLKFEEE 253
Query: 245 KIWS-----EEEAKKIVTEVKKSKARVSNI-EVKRQKRNPPVPFDLGTLQREAYSAFGFS 298
K S +E + K E K V NI E K +P + +LQ++A + G+S
Sbjct: 254 KSVSGIDFLDEASAKKFGEQLKGVFEVYNIDETKHYSSSPNSAYTTASLQKDAINKLGWS 313
Query: 299 PKKTLDIAQSLYE--------KGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHL 350
KK IAQ LYE SYPRT+S +L Q + Y
Sbjct: 314 SKKVTLIAQHLYEGVSINGEQTALISYPRTDSTRLSAQF------QQSCKEYILNHYGEK 367
Query: 351 LLGMPELKPVEGKKEDP----AHPAIYPTGEIPGP----GDLSKDEEKLYDMIVRRFLAL 402
L + +GKK + AH AI+PT P + KDE LY +I R +A
Sbjct: 368 YLSN-RIVSAKGKKGEKIIQDAHEAIHPTDINITPEMVKNAIKKDEFLLYRLIWIRTVAS 426
Query: 403 FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE----VTLPEFFIGER 458
M + + + +KF S V G+ +Y + + + L + +G+R
Sbjct: 427 LMADCKKSHTHIRFINDGNKFYASSKSLVFDGYRKIYEHFENKESNDLYIDLDKIRVGDR 486
Query: 459 VRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIE-GKKSIK 517
++ ++T P ARY+ A++I+ +E IG +T + RGY K +
Sbjct: 487 FMAKDIKITARQTHPAARYTQASLIEALEKSNIGRPSTYNTMASVNLDRGYASLNKHAFH 546
Query: 518 VTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEF 577
VT LG +V E L K+ +II+ E T+ E+ +D I + K +E + + F
Sbjct: 547 VTQLGEQVNEELSKHFGKIINKEFTKNMEKSLDEIAENKKNYQEFLRD-------FWSNF 599
Query: 578 KKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWP 637
K E ++ G ++ +K+EK V CP C L+ +Y K+ ++FVGCSN+P
Sbjct: 600 K--------EEVKLAEGSIQ-RVKKEKEFVGRDCPSCASPLLYRYTKRGNEKFVGCSNFP 650
Query: 638 KC 639
C
Sbjct: 651 NC 652
>gb|AAD21553.1| (AF088896) topoisomerase I [Zymomonas mobilis]
Length = 1217
Score = 200 bits (503), Expect = 5e-50
Identities = 169/591 (28%), Positives = 274/591 (45%), Gaps = 67/591 (11%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKY--ACGVDPSRAKRMKFSALTKRDLLN 146
+KA+ K I+A D D EGE I + L+ + P +R+ F+A+TK + +
Sbjct: 67 LKAIEDAVKESDSLILATDPDREGEAISWHILELLKTKKLLPDDVERVTFNAITKAAVTD 126
Query: 147 AWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLK 206
A + N + NA +AR LD+ G LS L + A S GRVQ L+
Sbjct: 127 AMAHPRQLDN-DLINAYLARRALDYLVGFTLSPILWRKLPGAK------SAGRVQSARLR 179
Query: 207 FLVEREREIQSFVPKPYWVIKL------------VIEKNGQKLVANYEKDKIWSEEEAKK 254
+V+RE+EI+ F P+ YW ++ +I+ GQKL EK I + +A+
Sbjct: 180 LVVDREQEIEGFKPQEYWSVEADMEADSIGFTSRLIQWRGQKL----EKLSIADKTQAEA 235
Query: 255 IVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGF 314
++V+ VSN+E K RNP PF TLQ+EA GF+ T+ +AQSLYE+G
Sbjct: 236 AQSDVESGHFTVSNVETKPVSRNPQPPFTTSTLQQEAARKLGFAASHTMRLAQSLYEEGL 295
Query: 315 TSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYP 374
+Y RT+ ++ ++ I + R + P V+ K AH AI P
Sbjct: 296 ITYMRTDGVQMDES-----AIAAARKTITQRYDGGYVPDKPRQYQVKAKNAQEAHEAIRP 350
Query: 375 TGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPA--VRESVKVTILAGPHKFMLSGARTVK 432
T + S D +LY++I +R LA M A R +V +T G + ++G +
Sbjct: 351 T-DFSRDKAASGDHARLYELIWKRALASQMASAKLERTTVDLTDGTGQNVLRVTGQVVLF 409
Query: 433 QGWLSVYGKYI---------KFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVI 483
G+L++Y + K LP G+ + R ++ T+PP RYS A+++
Sbjct: 410 SGFLTLYEESADDNANDRDGKEGRARLPLLRAGDAPLKKEFRADQHFTQPPPRYSEASLV 469
Query: 484 KKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKV-TPLGMKVIETLEKYVPEIISVELT 542
KKMEDLGIG +T A ++ L R Y+ +++ + + G + LE++ +S + T
Sbjct: 470 KKMEDLGIGRPSTYASFIQVLKDRAYVTLERNRFIPSEAGRLLTAFLERFFERYVSYDFT 529
Query: 543 REFERKMDLIMQGKLTKEEVIE----EAKVKLTKILEEFKKRELEIGLELARIV------ 592
E +D I G+ ++V++ + K K +++E+ + I EL + +
Sbjct: 530 AGLEDSLDEISGGRADWQKVLDAFWHDFKPKTAEVMEQ---QPSAITAELDKFLEPWLFP 586
Query: 593 -VGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVT 642
GD D +CP C + + G F+ CSN+P+C T
Sbjct: 587 DKGDGHDP---------RECPSCHTGRLALKGGRFG-AFIACSNYPECKYT 627
>pdb|1ECL| Amino Terminal 67kda Domain Of Escherichia Coli Dna Topoisomerase
I (Residues 2-590 Of Mature Protein) Cloning Artifact
Adds Two Residues To The Amino-Terminus Which Were Not
Observed In The Experimental Electron Density (Gly-2,
Ser-1)
Length = 597
Score = 199 bits (500), Expect = 1e-49
Identities = 154/522 (29%), Positives = 257/522 (48%), Gaps = 31/522 (5%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LA++ +A D D EGE I + L+ G D +R R+ F+ +TK + A+
Sbjct: 93 VSELKQLAEKADHIYLATDLDREGEAIAWH-LREVIGGDDARYSRVVFNEITKNAIRQAF 151
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
N +N NA AR +D G +S L I R LS GRVQ ++ +
Sbjct: 152 -NKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKIARG------LSAGRVQSVAVRLV 204
Query: 209 VEREREIQSFVPKPYWVIKL-VIEKNGQKLV--ANYEKDKIW---SEEEAKKIVTEVKKS 262
VEREREI++FVP+ +W + +G+ L ++ DK + ++E+ + V+ ++K+
Sbjct: 205 VEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKA 264
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
+ V E K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S
Sbjct: 265 RYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDS 324
Query: 323 QKLPK---NLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG--- 376
L + N+ I N + +Y P + P +G ++ AH AI P+
Sbjct: 325 TNLSQDAVNMVRGYISDNFGK--KYLPES------PNQYASKGNSQE-AHEAIRPSDVNV 375
Query: 377 EIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWL 436
D+ D +KLY +I R+F+A M PA +S +T+ AG + G GW
Sbjct: 376 MAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDGWT 435
Query: 437 SVYGKYIKFDE-VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKA 495
V K DE LP G+ + ++++ + TKPPAR+S A+++K++E GIG +
Sbjct: 436 KVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEKRGIGRPS 495
Query: 496 TRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQ 554
T A I+ T+ RGY+ + +G V + LE+ E+++ + T + E +D +
Sbjct: 496 TYASIISTIQDRGYVRVENRRFYAEKMGEIVTDRLEENFRELMNYDFTAQMENSLDQVAN 555
Query: 555 GKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDV 596
+ + V++ T+ L++ +K E G+ ++V+ +
Sbjct: 556 HEAEWKAVLDHFFSDFTQQLDKAEKDPEEGGMRPNQMVLTSI 597
>pdb|1CY7|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'-Thymidine
Monophosphate >gi|7245303|pdb|1CY8|A Chain A, Complex Of
E.Coli Dna Topoisomerase I With 5'-Thymidine
Monophosphate And 3'-Thymidine Monophosphate
>gi|7245301|pdb|1CY6|A Chain A, Complex Of E.Coli Dna
Topoisomerase I With 3' Thymidine Monophosphate
>gi|7245486|pdb|1CY4|A Chain A, Complex Of E.Coli Dna
Topoisomerase I With 5'ptptptp3' >gi|7245299|pdb|1CY1|A
Chain A, Complex Of E.Coli Dna Topoisomerase I With
5'ptptpt >gi|7245300|pdb|1CY2|A Chain A, Complex Of
E.Coli Dna Topoisomerase I With Tptptp3'
>gi|7245485|pdb|1CY0|A Chain A, Complex Of E.Coli Dna
Topoisomerase I With 3'-5'-Adenosine Diphosphate
Length = 599
Score = 197 bits (496), Expect = 3e-49
Identities = 155/524 (29%), Positives = 256/524 (48%), Gaps = 35/524 (6%)
Query: 89 IKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
+ L LA++ +A D D EGE I + L+ G D +R R+ F+ +TK + A+
Sbjct: 95 VSELKQLAEKADHIYLATDLDREGEAIAWH-LREVIGGDDARYSRVVFNEITKNAIRQAF 153
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
N +N NA AR +D G +S L I R LS GRVQ ++ +
Sbjct: 154 -NKPGELNIDRVNAQQARRFMDRVVGYMVSPLLWKKIARG------LSAGRVQSVAVRLV 206
Query: 209 VEREREIQSFVPKPYWVIKL-VIEKNGQKLV--ANYEKDKIW---SEEEAKKIVTEVKKS 262
VEREREI++FVP+ +W + +G+ L ++ DK + ++E+ + V+ ++K+
Sbjct: 207 VEREREIKAFVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKA 266
Query: 263 KARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
+ V E K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S
Sbjct: 267 RYSVLEREDKPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDS 326
Query: 323 QKLPK---NLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTG- 376
L + N+ I N + +Y +PE KE+ AH AI P+
Sbjct: 327 TNLSQDAVNMVRGYISDNFGK--KY---------LPESPNQYASKENSQEAHEAIRPSDV 375
Query: 377 --EIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQG 434
D+ D +KLY +I R+F+A M PA +S +T+ AG + G G
Sbjct: 376 NVMAESLKDMEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDG 435
Query: 435 WLSVYGKYIKFDE-VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGT 493
W V K DE LP G+ + ++++ + TKPPAR+S A+++K++E GIG
Sbjct: 436 WTKVMPALRKGDEDRILPAVNKGDALTLVELTPAQHFTKPPARFSEASLVKELEKRGIGR 495
Query: 494 KATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLI 552
+T A I+ T+ RGY+ + +G V + LE+ E+++ + T + E +D +
Sbjct: 496 PSTYASIISTIQDRGYVRVENRRFYAEKMGEIVTDRLEENFRELMNYDFTAQMENSLDQV 555
Query: 553 MQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDV 596
+ + V++ T+ L++ +K E G+ ++V+ +
Sbjct: 556 ANHEAEWKAVLDHFFSDFTQQLDKAEKDPEEGGMRPNQMVLTSI 599
>sp|O61660|TOP3_CAEEL DNA TOPOISOMERASE III >gi|11270818|pir||T43031 DNA topoisomerase
(EC 5.99.1.2) III - Caenorhabditis elegans
>gi|3047013|gb|AAC13567.1| (AF057032) DNA topoisomerase
III [Caenorhabditis elegans]
Length = 759
Score = 197 bits (495), Expect = 4e-49
Identities = 171/599 (28%), Positives = 279/599 (46%), Gaps = 28/599 (4%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRK---TIFGVPYY---EVFRDGKKLIVASAVGHLYGL 56
L +AEK +VA+ +A LS R+ + F Y E+F + V S GH+
Sbjct: 5 LFVAEKNDVAKGVAAILSNGTANRREGRSKFNKIYTLNTELFGQQTAISVTSVSGHMMNF 64
Query: 57 APKQDFFGYPIFD-IEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVI 115
++ + +E + K + L A+R +V D D EGE I
Sbjct: 65 QFHENMSNWQTASMVELFRAPVRHVVTPEMKLIEQTLREQAQRHDILVVWTDCDREGEAI 124
Query: 116 GYTALKYACGVDPSRAK--RMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYW 173
G +K C R R +FS +TK + A RNL +A A R LD
Sbjct: 125 GAEIVK-VCRDSNRRLDIFRARFSEITKAAITRAARNLIRLDEKTVA-AVDCRSELDLRI 182
Query: 174 GVNLSRALTHAIKRASGKWV-------VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVI 226
G +R T ++ + V+S G Q PTL F+ +R + I++FV +P+W
Sbjct: 183 GSAFTRLQTLHLRNRFRDLLGQNDTSQVISYGSCQFPTLGFVTDRYKMIENFVSEPFW-- 240
Query: 227 KLVIE--KNGQKLVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQKRNPPVPFD 283
KL++E + K+ +++++++ + + E K++K A V + K + + P D
Sbjct: 241 KLIVEHTRESHKVEFLWDRNRLFDRDTVDILHDECKETKEAHVEKVAKKPKSKWRPQALD 300
Query: 284 LGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQ 343
L++ S S K+T+ +A+ LY KGF SYPRTE+ K P LN ++Q ++
Sbjct: 301 TVELEKLGISKLRMSAKQTMQVAEKLYSKGFISYPRTETNKFPAGLNLTPLVQQQTQSNI 360
Query: 344 YRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALF 403
+ +A+ +L + P G+K D AHP I+P + L D+ K+Y+++VR FLA
Sbjct: 361 WGDFANEVL-QNGVNPRNGRKSDEAHPPIHPL-KFTEKHQLQGDDWKVYELVVRHFLACV 418
Query: 404 MEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQ 463
+ A E V + G KF SG R G+L VY Y K+ LP + GER +
Sbjct: 419 SQDAQGEETMVNLTVGTEKFHASGLRIRDMGYLKVY-VYEKWGNRLLPTYTEGERFTDFE 477
Query: 464 VRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--L 521
++ KT+ P + A +I M+ GIGT AT A+ +E + R YI + K+ P L
Sbjct: 478 LKIGDGKTQAPDFLTEADLISLMDKYGIGTDATHAEHIEKIKTREYIGVRPDGKLIPSFL 537
Query: 522 GMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKR 580
G+ +++ + + +L E + I G+ K+EV++E K I E +++
Sbjct: 538 GLALVDGYDDMGFAMSKPDLRANLEIGLKEICDGRRQKQEVLDEQIGKYRAIFVESERK 596
>pir||D72038 DNA topoisomerase I CP1103 [imported] - Chlamydophila pneumoniae
(strains CWL029 and AR39) >gi|4377077|gb|AAD18907.1|
(AE001658) DNA Topoisomerase I-Fused to SWI Domain
[Chlamydophila pneumoniae CWL029]
>gi|7190015|gb|AAF38871.1| (AE002266) DNA topoisomerase
I [Chlamydophila pneumoniae AR39]
>gi|8979142|dbj|BAA98977.1| (AP002547) DNA topoisomerase
I-fused to SWI domain [Chlamydophila pneumoniae J138]
Length = 871
Score = 196 bits (494), Expect = 5e-49
Identities = 190/708 (26%), Positives = 322/708 (44%), Gaps = 114/708 (16%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
G + + AS++GH+ L K+ FG + D ++ P Y +K ++I+ L+ ++V
Sbjct: 22 GSEFVFASSIGHIVDLPAKE--FGIDV-DHDFEPQYQVLPDKQEVINHIRKLAAKCEKV- 77
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
++ D D EGE I + D +R+ F+A+TK + A ++ TI+ +
Sbjct: 78 --YLSPDPDREGEAIAWHIANQL--PDSPLIQRVSFNAITKNAVTEALKHPR-TIDMALV 132
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
NA AR +LD G +S L+ +++ SG +S GRVQ LK +V+RE+ I +FVP
Sbjct: 133 NAQQARRLLDRIVGYKISPILSRKLQQRSG----ISAGRVQSVALKLVVDREKAIDAFVP 188
Query: 221 KPYWVIKLVIEK--------------NGQKLVANYEKDK-------IWSEEEAKKIVTEV 259
YW ++++++ G+K + K I SEE+A+ +
Sbjct: 189 VEYWNLRVLMQDPKTTKTFWAHLYAVQGKKWEKEIPEGKTENDVLLINSEEKARHYAELL 248
Query: 260 KKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE-------- 311
+KS ++ +E K ++R P PF TLQ+EA F FS +T+ IAQ+LYE
Sbjct: 249 EKSSYTITRVEAKAKRRFAPPPFITSTLQQEASRHFRFSASRTMSIAQTLYEGVDLDSED 308
Query: 312 -KGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLG---MPELKPVEGKKE-- 365
G +Y RT+S ++ + + R Y G +PE V K+
Sbjct: 309 STGLITYMRTDSVRV-----------DPEALTTVREYIQQTFGKEYLPEKANVYTTKKMT 357
Query: 366 DPAHPAIYPTGEIPGP----GDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPH 421
AH AI PT P LS D+ K+Y++I +RF+A + PA+ +++ V I
Sbjct: 358 QDAHEAIRPTDINLTPDKLKNKLSDDQFKVYNLIWKRFVASQITPAIYDTLAVQITTDTE 417
Query: 422 -KFMLSGARTVKQGWLSVY-----GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPA 475
SG+ +G+L+VY + + ++ LP + + +V +E+ TKP
Sbjct: 418 IDLRASGSLLKFKGFLAVYEEKQDDENDQEEDHPLPPLHAQDALIKEEVSQEQAFTKPLP 477
Query: 476 RYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVP 534
R++ A+++K++E GIG +T A I+ + R Y + + ++ T LG + + LE P
Sbjct: 478 RFTEASLVKELEKSGIGRPSTYATIMNKIQSREYTTKENQRLRPTELGKIISQFLETNFP 537
Query: 535 EIISVELTREFERKMDLIMQGK--------------------LTKEEV-------IEEAK 567
I+ + T E +++LI K KE V IE +K
Sbjct: 538 RIMDIGFTALMEDELELIADNKKPWKLLLQEFWTTFLPVVITAEKEAVIPRILTNIECSK 597
Query: 568 VKLTKILEEFKKREL--------EIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLI 619
K+++ + K E + + K++ E+ P CP CGG +
Sbjct: 598 CHKGKLVKIWSKNSYFYGCSEYPECDYRTSEEELAFNKEDYAEDTP-WDSPCPLCGGVMK 656
Query: 620 VKYNKKTGKRFVGCSNWPKCDVTYPILQRG------EIIPTNKTCCNG 661
V++ + F+GC +P+C T I ++G E IP CNG
Sbjct: 657 VRHGRY--GTFLGCEKYPECRGTISIHKKGEEIEQEEPIPCPAIGCNG 702
>gb|AAF72351.1|AF192329_12 (AF192329) DNA topoisomerase III-like protein [Enterococcus
faecalis]
Length = 693
Score = 194 bits (489), Expect = 2e-48
Identities = 170/648 (26%), Positives = 292/648 (44%), Gaps = 79/648 (12%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAP---- 58
LVIAEKP+VAR IAG + ++ + +G +V+ +GHL A
Sbjct: 5 LVIAEKPSVARSIAGVIGATEK----------HDGYLEGNGYLVSWCIGHLVSFADAGRY 54
Query: 59 -----KQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
K + PI W YI +K D + +L + V + A D EGE
Sbjct: 55 DERFKKWRYEDLPILPETWQ--YIVPDDKKQQFDVLCSL-MQRPDVTGLVCATDAGREGE 111
Query: 114 VIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG-MANAGIARHVLDWY 172
+I + A P +R+ S++ + + + +L+P ++ + + + R DW
Sbjct: 112 LIFRFVYQMAGCQKPF--ERLWISSMEDSAIKDGFAHLKPGGDYDPLYQSALCRAKADWL 169
Query: 173 WGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEK 232
G+N +R + + L+ GRVQ PTLK LV+R+ +I F + Y ++ I
Sbjct: 170 IGINATRLFSVLYHKN------LTVGRVQTPTLKMLVDRDAKITDFKKEKYHIVH--ITA 221
Query: 233 NGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAY 292
G V++ D EA + K++A ++ +++ PP +DL TLQREA
Sbjct: 222 GGADAVSSRFSDAA----EANTVKAACAKAQAVCVSVTREKKTEQPPKLYDLTTLQREAN 277
Query: 293 SAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLL 352
FG++ K+TLD AQ+LY K +YPRT+SQ L ++ + +S + + P+A L
Sbjct: 278 RLFGYTAKQTLDYAQALYLKKLLTYPRTDSQYLTDDM-LPAVESLVSGLWELVPFAKGLN 336
Query: 353 GMPELKPVEGKKEDPAHPAIYPTGEI--PGPGDLSKDEEKLYDMIVRRFLALFMEPAVRE 410
P+ + K+ H AI PT E G G L++ E+KL +I + L P + E
Sbjct: 337 LSPQFDRILNSKKVSDHHAIIPTAEFVKQGFGTLAESEKKLLSLICCKLLCAVAGPHIYE 396
Query: 411 SVKVTILAGPHKFMLSGARTVKQGWLSVYGKY---IKFDE-------VTLPEFFIGERVR 460
+V T +F G + GW + ++ +K D LPE G+
Sbjct: 397 AVTATFTCAGQEFTAKGKTVLSPGWKEIERRFRSSLKTDADEDAEAVRELPELCEGQTFA 456
Query: 461 VLQVRREKKKTKPPARYSPAAVIKKMEDL------------GIGTKATRAQILETLYQRG 508
+ + T PP Y+ ++ ME G+GT ATRA ILE L Q G
Sbjct: 457 DVAASVTEHFTTPPKPYTEDTLLSAMERAGAEDMPEDAERKGLGTPATRAAILEKLVQMG 516
Query: 509 YIEGK-KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAK 567
+++ K K + T G+ + L + + S +LT E+E ++ I +G+ +E ++ +
Sbjct: 517 FVQRKGKQLIPTKDGINLAVVLPE---ALTSPQLTAEWENRLTEIAKGQADPDEFMDGIE 573
Query: 568 VKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCG 615
+ ++++ + + + K ++ + + + +G CP+CG
Sbjct: 574 TQARELVQTYS-------------CISEEKQKLFQAERVPIGTCPRCG 608
>sp|P47368|TOP1_MYCGE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|1361497|pir||E64213 DNA
topoisomerase (EC 5.99.1.2) - Mycoplasma genitalium
>gi|3844712|gb|AAC71340.1| (U39692) DNA topoisomerase I
(topA) [Mycoplasma genitalium]
Length = 709
Score = 193 bits (486), Expect = 5e-48
Identities = 170/651 (26%), Positives = 282/651 (43%), Gaps = 89/651 (13%)
Query: 46 VASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDY-------IKALSVLAKR 98
+ S VGH+ + K F + W + K K+ + + IK++ A
Sbjct: 28 IVSTVGHIREMVYKNFGFDENTYTPIWED-WTKNKQKNPKQKHLLSKFEIIKSIKAKASD 86
Query: 99 VKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG 158
+ +A D D EGE I + D ++ KR+ F+ +TK+ +++A + I+
Sbjct: 87 AQNIFLASDPDREGEAISWHVYDLLDQKDKAKCKRITFNEITKKAVVDALKQPR-NIDLN 145
Query: 159 MANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSF 218
+ AR +LD G LSR L ++ S GRVQ L+FL ERE+EI F
Sbjct: 146 WVESQFARQILDRMIGFRLSRLLNSYLQAKSA-------GRVQSVALRFLEEREKEIAKF 198
Query: 219 VPKPYWVIKLVIEK-NGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNI-------- 269
VP+ +W + +++ K N QK+V + + E ++ +K N+
Sbjct: 199 VPRFWWTVDVLLNKENNQKVVCANKSIPLVLREINPELSASLKLDFEAAENVSGIDFLNE 258
Query: 270 --------------------EVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSL 309
E K +P + +LQ++A + G+S KK +AQ L
Sbjct: 259 ASATRFANQLTGEYEVYFIDEPKIYYSSPNPVYTTASLQKDAINKLGWSSKKVTMVAQRL 318
Query: 310 YE--------KGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVE 361
YE SYPRT+S ++ + + +H L +LK
Sbjct: 319 YEGISVNGKQTALISYPRTDSIRISNQFQ-----SECEKYIEKEFGSHYLADKNKLK--R 371
Query: 362 GKKEDP----AHPAIYPTGEIPGPGDLS----KDEEKLYDMIVRRFLALFMEPAVRESVK 413
KK++ AH I+PT P DL +DE LY +I R +A M A
Sbjct: 372 HKKDEKIIQDAHEGIHPTYITITPNDLKNGVKRDEFLLYRLIWIRTVASLMADAKTSRTI 431
Query: 414 VTILAGPHKFMLSGARTVKQGWLSVYG--KYIKFDE--VTLPEFFIGERVRVLQVRREKK 469
V + +KF S + G+ +Y K DE + L + IG++ ++ +
Sbjct: 432 VRFINQKNKFYTSSKSLLFDGYQRLYEEIKPNTKDELYIDLSKLKIGDKFSFEKISVNEH 491
Query: 470 KTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIET 528
KT PP RY+ A++I+++E IG +T + +RGY + +T LG KV
Sbjct: 492 KTNPPPRYTQASLIEELEKSNIGRPSTYNTMASVNLERGYANLVNRFFYITELGEKVNNE 551
Query: 529 LEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLEL 588
L K+ +I+ E T++ E+ +D I + K+ +E +++ T + K E I
Sbjct: 552 LSKHFGNVINKEFTKKMEKSLDEIAENKVNYQEFLKQF---WTNFKSDVKLAENSI---- 604
Query: 589 ARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKC 639
++K+EK +V CPKC L+ +Y K+ ++FVGCS++PKC
Sbjct: 605 ---------QKVKKEKELVERDCPKCNQPLVYRYTKRGNEKFVGCSDFPKC 646
>sp|O34204|TOP1_FERIS DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|2352095|gb|AAB68788.1| (U97022)
DNA topoisomerase I [Fervidobacterium islandicum]
Length = 699
Score = 192 bits (483), Expect = 1e-47
Identities = 185/612 (30%), Positives = 279/612 (45%), Gaps = 82/612 (13%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPI----FDIEWVPVYIAEKNKDYAKDYIKALSVLA 96
G V S+ GH+ L KQ FG + D E +P K+ + IK ++
Sbjct: 57 GNDYQVISSKGHIRDLPQKQ--FGVDLNSLKLDFEIIP------GKESVVEQIKKMT--- 105
Query: 97 KRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTIN 156
KE ++ D D EGE I + L GV + F+ +T+R + A +N I+
Sbjct: 106 -SGKEVLLPSDQDREGEAIAWH-LSTILGVKGKNI--ITFTEITERAIKEAVKNPRE-ID 160
Query: 157 FGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQ 216
NA +AR VLD G +S L IK A S GRVQ LK + ERERE
Sbjct: 161 MNKVNAQLARRVLDRIVGYMISPLLWRIIKDAR------SAGRVQSAALKIICERERERY 214
Query: 217 SFVPKPY---WVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKR 273
FVP+ Y W+ ++ K+ K +EE +K ++ +VK R+ +I+VK
Sbjct: 215 RFVPQKYFKVWIDIAGLKAYLTKVDGKKIKPTDITEEISKDVLQKVKS--VRLVDIDVKE 272
Query: 274 QKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE--------KGFTSYPRTESQK- 324
++NPP PF TLQ++A S GF KT+ IAQ LYE F +Y RT+S +
Sbjct: 273 VRKNPPAPFITSTLQQDAASKLGFPVSKTMKIAQELYEGVDTKEGHTAFITYMRTDSTRV 332
Query: 325 --LPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPG 382
+ K + I++N R +Y + + K +GK +D AH I P P
Sbjct: 333 SDVAKEAAEKFILKNFGR--EYLNESSEVASKKGSK-TKGKVQD-AHECIRPVDVNITPE 388
Query: 383 D----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSV 438
L KD KLY++I +RF+A M A+ + +G + F S + G+ V
Sbjct: 389 KAKELLDKDHHKLYELIWKRFIASQMSSAIYKQYSYDFESGKYVFEASIRERIFDGFEKV 448
Query: 439 Y---------GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDL 489
Y K +K D+ L ++ + + +T PP RY+ A+++K +E
Sbjct: 449 YTIDNEPSEKHKELKVDQEYL-----------VEPKSAEAQTTPPDRYTEASLVKTLEME 497
Query: 490 GIGTKATRAQILETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERK 548
GIG +T A I++TL RGY ++ +K++ T LG V LE+ P+I+ T E E++
Sbjct: 498 GIGRPSTYATIIQTLLDRGYVVKKRKTLIPTILGFVVNHYLEQRFPDIVDKGFTAEMEKE 557
Query: 549 MDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVV 608
+D + GK +EV++ + K LE K I + I D K + V
Sbjct: 558 LDEVENGKKDWKEVVKSFLKEFNKDLERAKNEFFAIDFD-TDITCEDCSGNYK----LKV 612
Query: 609 GK------CPKC 614
GK CP C
Sbjct: 613 GKYGLYLHCPNC 624
>emb|CAB60518.1| (AL132860) contains similarity to Pfam domain: PF01131 (Prokaryotic
DNA topoisomerase), Score=360.7, E-value=5e-105, N=1;
PF01751 (Toprim domain), Score=65.2, E-value=4.6e-16,
N=1~cDNA EST yk542g3.5 comes from this gene
[Caenorhabditis elegans]
Length = 743
Score = 191 bits (481), Expect = 2e-47
Identities = 150/499 (30%), Positives = 243/499 (48%), Gaps = 21/499 (4%)
Query: 96 AKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAK--RMKFSALTKRDLLNAWRNLEP 153
A+R +V D D EGE IG +K C R R +FS +TK + A RNL
Sbjct: 89 AQRHDILVVWTDCDREGEAIGAEIVK-VCRDSNRRLDIFRARFSEITKAAITRAARNLIR 147
Query: 154 TINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWV-------VLSTGRVQGPTLK 206
+A A R LD G +R T ++ + V+S G Q PTL
Sbjct: 148 LDEKTVA-AVDCRSELDLRIGSAFTRLQTLHLRNRFRDLLGQNDTSQVISYGSCQFPTLG 206
Query: 207 FLVEREREIQSFVPKPYWVIKLVIE--KNGQKLVANYEKDKIWSEEEAKKIVTEVKKSK- 263
F+ +R + I++FV +P+W KL++E + K+ +++++++ + + E K++K
Sbjct: 207 FVTDRYKMIENFVSEPFW--KLIVEHTRESHKVEFLWDRNRLFDRDTVDILHDECKETKE 264
Query: 264 ARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQ 323
A V + K + + P D L++ S S K+T+ +A+ LY KGF SYPRTE+
Sbjct: 265 AHVEKVAKKPKSKWRPQALDTVELEKLGISKLRMSAKQTMQVAEKLYSKGFISYPRTETN 324
Query: 324 KLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD 383
K P LN ++Q ++ + +A+ +L + P G+K D AHP I+P +
Sbjct: 325 KFPAGLNLTPLVQQQTQSNIWGDFANEVL-QNGVNPRNGRKSDEAHPPIHPL-KFTEKHQ 382
Query: 384 LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYI 443
L D+ K+Y+++VR FLA + A E V + G KF SG R G+L VY Y
Sbjct: 383 LQGDDWKVYELVVRHFLACVSQDAQGEETMVNLTVGTEKFHASGLRIRDMGYLKVY-VYE 441
Query: 444 KFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILET 503
K+ LP + GER +++ KT+ P + A +I M+ GIGT AT A+ +E
Sbjct: 442 KWGNRLLPTYTEGERFTDFELKIGDGKTQAPDFLTEADLISLMDKYGIGTDATHAEHIEK 501
Query: 504 LYQRGYIEGKKSIKVTP--LGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEE 561
+ R YI + K+ P LG+ +++ + + +L E + I G+ K+E
Sbjct: 502 IKTREYIGVRPDGKLIPSFLGLALVDGYDDMGFAMSKPDLRANLEIGLKEICDGRRQKQE 561
Query: 562 VIEEAKVKLTKILEEFKKR 580
V++E K I E +++
Sbjct: 562 VLDEQIGKYRAIFVESERK 580
>pir||A56976 transfer complex protein TrsI - Staphylococcus aureus
>gi|310616|gb|AAA71960.1| (L11998) putative
[Staphylococcus aureus] >gi|3676443|gb|AAC61961.1|
(AF051917) putative topoisomerase TraI [Staphylococcus
aureus] >gi|739964|prf||2004267K traI protein
[Staphylococcus sp.]
Length = 700
Score = 190 bits (477), Expect = 5e-47
Identities = 183/679 (26%), Positives = 308/679 (44%), Gaps = 73/679 (10%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKL--IVASAVGHLYGLAPKQ 60
L++ EKP+ A ++ ++++ Y E+ + + + AVGHL L Q
Sbjct: 4 LILCEKPSQAMDLSTVFAKKKKQNG------YMEISDEQLNVSGFLTWAVGHLVELKEPQ 57
Query: 61 D-------FFGYPIF-DIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEG 112
+ F YPI + + +++K KD + K ++ E I+A D EG
Sbjct: 58 EYDEKYKNFSTYPILLEKDDFQFKVSDKTKDQFNNIKKIFK--ENKIDEVIIATDPAREG 115
Query: 113 EVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTIN-FGMANAGIARHVLDW 171
E I Y L D KR+ ++ + + A++N+ P +G G AR + DW
Sbjct: 116 ENIAYKILNQLKVTDKVTIKRLWLTSKVESSIRKAFKNILPKEKTYGFYKEGRARELSDW 175
Query: 172 YWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIE 231
G+NLSR T I R G V+ GRV PTL + RE I+ F K ++ + I
Sbjct: 176 LVGINLSRHFTK-ISRELGNDGVIHIGRVSSPTLNMVYNRENNIKGFKGKKFYKVSATIN 234
Query: 232 KNGQKLVANYEKDKIWSEEEAKKIVTEVK----KSKARVSNIEVKRQKRNPPVPFDLGTL 287
K+ Q++ K+K SE+E + + E K V++IE + PP +DL L
Sbjct: 235 KDEQEVKTEL-KNKFDSEDELHEFLFENDITDLTQKGLVTDIEKEIGYTMPPKFYDLSAL 293
Query: 288 QREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRP- 346
Q + + S K+TL+IAQ+LYEK +YPRT+S+ + ++ ++++NI + +
Sbjct: 294 QEDMNDKYKISAKRTLEIAQTLYEKKLITYPRTDSRYITED-EKEMLLENIDYLKEITKI 352
Query: 347 -YAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFME 405
+ L + P K ED H AI TG DL ++E +Y I++ FM+
Sbjct: 353 NLNNELTNNSLINP--SKIED--HYAILITGNDFNKVDLKEEEINVYKSILQNVAMNFMD 408
Query: 406 PAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
E+ + I F + G G+ ++ K K E T+P F E V + ++
Sbjct: 409 KEQYETTTIEIAVKKLMFEVKGKIIQDNGFKALLNKQ-KTSEETIPNFEKNEEVDI-ELD 466
Query: 466 REKKKTKPPARYSPAAVIKKM-----------------EDLGIGTKATRAQILETLYQRG 508
+K+T PP RY+ ++K M E G+GT ATRA I+E L +
Sbjct: 467 LLEKETTPPKRYTEKTLLKAMANPIETLEDEGLKSTLKEVKGLGTPATRADIIENLKKNK 526
Query: 509 YIEGKKS-IKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAK 567
YI+ +K+ I +T G+ LE ++ + +LT ++E+ ++ I +G+ + I
Sbjct: 527 YIQVQKNKIYITKNGILACLLLEGHL--LSKPDLTGQWEKYLNGISKGEKDDDSFINTIN 584
Query: 568 VKLTK-ILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKT 626
+ K I EE K +E + ++ K+++ + KCP C ++
Sbjct: 585 EMIKKTINEEVKNKE-----SIQKV----AKEKVSTNN---IAKCPACDNGYLI-----D 627
Query: 627 GKRFVGCSNWPK-CDVTYP 644
K F GC+ + C+ T P
Sbjct: 628 RKGFYGCTEYNNGCEFTIP 646
>pir||A82638 DNA topoisomerase III XF1776 [imported] - Xylella fastidiosa
(strain 9a5c) >gi|9106851|gb|AAF84584.1|AE004000_1
(AE004000) DNA topoisomerase III [Xylella fastidiosa]
Length = 619
Score = 190 bits (477), Expect = 5e-47
Identities = 167/607 (27%), Positives = 272/607 (44%), Gaps = 91/607 (14%)
Query: 90 KALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWR 149
K + L + ++A D D EGE+I + CG +R+ SAL + A
Sbjct: 33 KVVKALLAKATHLVIATDADREGELIAREIIDL-CGYR-GPIERLWLSALNDASIRTALG 90
Query: 150 NLEPTIN-FGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFL 208
L P+ + M + +AR DW G+NLSR T + +G VLS GRVQ PTLK +
Sbjct: 91 KLRPSSDTLPMYYSALARSRADWLVGMNLSRLFT-VLGLQAGYDGVLSVGRVQTPTLKLV 149
Query: 209 VEREREIQSFVPKPYWVIKLVIEKNGQKLVANY--------EKDKIWSEEEAKKIVTEVK 260
V+R+REI +F P+W I + + GQ A + + + + A++ +++
Sbjct: 150 VDRDREIAAFKSVPFWAIDVSLSAGGQAFSAQWVPPDGCTDDAGRCLQQPIAQQAAQQIR 209
Query: 261 -KSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE-KGFTSYP 318
S A+V ++E +R + PP+ FDLGTLQ G ++TL+IAQ+LYE T+YP
Sbjct: 210 AASSAQVVSVETERVREGPPLLFDLGTLQEVCSKQLGLDVQETLEIAQALYETHKATTYP 269
Query: 319 RTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED------------ 366
R++S LP+++ + +P LL P L+P+ G+ +
Sbjct: 270 RSDSGYLPESM--------FAEVPTV--LDSLLKTDPSLRPIMGQLDRSQRSRAWNDGKV 319
Query: 367 PAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLS 426
AH I PT E +S+ E +Y +I +LA F+ + + G K + +
Sbjct: 320 TAHHGIIPTLEPANLSAMSEKELAVYRLIRAHYLAQFLPHHEFDRTIAELSCGQQKLVAT 379
Query: 427 GARTVKQGWLSVYGKYIKFDE--------VTLPEFFIGERVRVLQVRREKKKTKPPARYS 478
G + QGW V + + DE LP G +V + + KT PP Y+
Sbjct: 380 GKQVAAQGWHLVLAE-PQADEDGETTARSQVLPALREGLACQVAEAEVKALKTLPPKPYT 438
Query: 479 PAAVIKKMEDL-----------------GIGTKATRAQILETLYQRGYIEGK-KSIKVTP 520
++K M+ + GIGT+ATRA I+ L RGY+ K +SI+ +
Sbjct: 439 QGELVKSMKGVARFVTDPRLKQKLKDTTGIGTEATRANIITGLLTRGYLVKKGRSIRASD 498
Query: 521 LGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKR 580
+I+ + I T +E+ +D+I G+LT + I + +++++ ++
Sbjct: 499 AAFTLIDAVP---AAIADPGTTAVWEQALDMIEAGQLTLDVFIGKQAAWISQLIVQYGST 555
Query: 581 ELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKR--FVGCSNWPK 638
L I ++ G CP+CG ++TGK F CS +P
Sbjct: 556 SLSI-----KVPQGPA--------------CPQCGAPT----RQRTGKTGPFWSCSRYPD 592
Query: 639 CDVTYPI 645
C T P+
Sbjct: 593 CKGTLPV 599
>sp|O60126|TOP3_SCHPO DNA TOPOISOMERASE III >gi|7490479|pir||T39604 DNA topoisomerase (EC
5.99.1.2) III [similarity] - fission yeast
(Schizosaccharomyces pombe) >gi|4388617|emb|CAA19038.1|
(AL023554) dna topoisomerase iii [Schizosaccharomyces
pombe] >gi|5836087|gb|AAD22485.2| (AF126287)
topoisomerase 3 [Schizosaccharomyces pombe]
Length = 622
Score = 189 bits (474), Expect = 1e-46
Identities = 162/591 (27%), Positives = 279/591 (46%), Gaps = 38/591 (6%)
Query: 2 ILVIAEKPNVARKIAGALSE---RRPIRKTIFGVPYYEVFRDG-----KKLIVASAVGHL 53
+L +AEK ++A+ +A L RR ++ + Y F G + + S GHL
Sbjct: 3 VLCVAEKNSIAKSVASILGGGHVRRRDTRSKYVKNYDFSFNFGGNVGSSDVTMTSVSGHL 62
Query: 54 YGLAPKQDFFGYP------IFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACD 107
+ ++ + +FD + + KN + D IK A+ + + D
Sbjct: 63 TEASFPSEYSSWSSVPQDVLFDAQIITS--VSKNAEVLADNIKKE---ARNAQYLYIWTD 117
Query: 108 YDTEGEVIGYTALKYACGVDPS-RAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIAR 166
D EGE IG A +PS + R F+ L + +++A + ++ A+A AR
Sbjct: 118 CDREGEHIGVEISNVARASNPSIQVIRADFNNLERSHIISAAKRPRD-VSKNAADAVDAR 176
Query: 167 HVLDWYWGVNLSRALTHAIKRASG--KWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYW 224
LD+ G +R T ++++ + ++S G Q PTL F+V+R + ++ FVP+ YW
Sbjct: 177 IELDFRLGAIFTRLQTIQLQKSFDILQNKIISYGPCQFPTLGFVVDRWQRVEDFVPETYW 236
Query: 225 VIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQKRNPPVPFD 283
++ V ++ G+ + N+E+ K++ I+ + K A+V NI K + + P+P
Sbjct: 237 HLRFVDKRQGKTIQFNWERAKVFDRLTTMIILENCLECKTAKVVNITQKPKTKYKPLPLS 296
Query: 284 LGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQ 343
L + S KKTL++A++LY GF SYPRTE+ + ++N IIQ ++ +
Sbjct: 297 TVELTKLGPKHLRISAKKTLELAENLYTNGFVSYPRTETDQFDSSMNLHAIIQKLTGAQE 356
Query: 344 YRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALF 403
+ YA LL P +GK D AHP I+P + S+D K+Y++I RRFLA
Sbjct: 357 WDSYAEGLLAGDYRPPRKGKHNDRAHPPIHPVQMVHRSALPSQDHWKVYELITRRFLACC 416
Query: 404 MEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEV-TLPEFFIGERVRVL 462
+ A V + F G ++ +L VY Y K++ LPE+ + E +
Sbjct: 417 SDNAKGAETLVQVKMEEELFSKKGLLVTEKNYLEVY-PYEKWESSDQLPEYRLHEEFQPH 475
Query: 463 QVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLG 522
+ T P+ + +I M+ GIGT AT A+ +E + +R Y+ IK G
Sbjct: 476 ILDMMDSSTSSPSYITEPELIALMDANGIGTDATMAEHIEKVQEREYV-----IKRKKRG 530
Query: 523 MKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKI 573
V E +VP + V L + ++ ++ ++ LTK + +E +V+L I
Sbjct: 531 QGVTE----FVPSSLGVALAKGYD---EIGLEWSLTKPFLRKEMEVQLKNI 574
>emb|CAB60424.1| (AL117203) predicted using Genefinder~contains similarity to Pfam
domain: PF01131 (Prokaryotic DNA topoisomerase),
Score=255.0, E-value=3.3e-73, N=1; PF01751 (Toprim
domain), Score=44.3, E-value=8.6e-10, N=1
[Caenorhabditis elegans]
Length = 615
Score = 188 bits (472), Expect = 2e-46
Identities = 164/581 (28%), Positives = 270/581 (46%), Gaps = 36/581 (6%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKT----IFGVPYYEVFRDGK--KLIVASAVGHLYG 55
+L++AEKP +A IA LS + ++ + V Y+ +G+ + V S GH+
Sbjct: 5 VLMVAEKPLLADSIANLLSNGQAKKRKGWNGVCSVSEYDGQFNGRAARFKVTSTCGHVMS 64
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK--EFIVA-CDYDTEG 112
L F + D +Y A + A +K LA K +F+V D D EG
Sbjct: 65 LDFPPKFNNWERVDP--AELYSAPTQRIEANPKMKMNEFLASEAKNADFLVLWLDCDKEG 122
Query: 113 EVIGYTALKYA-CGVDPSRAK------RMKFSALTKRDLLNAWRNL-EPTINFGMANAGI 164
E I + + C + +R R FSA+T++D+ A RNL P N M+++
Sbjct: 123 ENICFEVIDAVKCAMFKNRQDFMSDVYRAHFSAITEKDIKAAMRNLGRPDQN--MSHSVD 180
Query: 165 ARHVLDWYWGVNLSRALTHAIKRASGKWV--VLSTGRVQGPTLKFLVEREREIQSFVPKP 222
AR LD G + +R T + G V+S G Q PTL F V R +I F P+
Sbjct: 181 ARQELDLRIGCSFTRFQTKFFQGKYGDLDSNVISYGPCQTPTLGFCVTRHDQIVQFKPEQ 240
Query: 223 YWVIK--LVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKAR-VSNIEVKRQKRNPP 279
YWV+K +GQ +++ +I+ E A+ V +KK V ++ K ++ P
Sbjct: 241 YWVLKTNFTTSDDGQIFSPEWQRGRIFDAEVARVFVDRIKKCHTGLVLDVSKKEARKERP 300
Query: 280 VPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNIS 339
+ L R A S+ G SP T+ +A++LY +G+ SYPRTE+ N + + +
Sbjct: 301 CALNTVELMRVASSSLGMSPSTTMHVAEALYTQGYISYPRTETTAYSANFD---LTGTLK 357
Query: 340 RMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRF 399
+ R + ++L +P G + HP I P P G LS D ++Y+ + + F
Sbjct: 358 ILAGDRKWGSVVLADGIKRPKSGVDKGD-HPPITPMR--PNHGGLSGDMSRIYEYVSQHF 414
Query: 400 LALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFF--IGE 457
+A M+ V E V + G +F L G V+ G+ +V +E ++P+ IG
Sbjct: 415 VATLMKQCVYEVTTVKMSCGDEQFTLQGKNVVEPGFTAVMPWLSVEEECSVPKSLQQIGA 474
Query: 458 RVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY--IEGKKS 515
++ + + ++T PP + A +I ME GIGT A+ + T+ QR Y +E +
Sbjct: 475 KIELQNAEIQARETTPPGYLTEAELITLMEKHGIGTDASIPVHINTITQRNYVTVESGRR 534
Query: 516 IKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGK 556
+ T LG ++ K PE++ + E E +++L+ GK
Sbjct: 535 LVPTRLGQCLVRGYWKVDPELVLPTMRAELEEQLNLVASGK 575
>pir||B82870 DNA topoisomerase I UU590 [imported] - Ureaplasma urealyticum
>gi|6899601|gb|AAF31004.1|AE002158_2 (AE002158) DNA
topoisomerase I [Ureaplasma urealyticum]
Length = 677
Score = 187 bits (471), Expect = 3e-46
Identities = 182/672 (27%), Positives = 307/672 (45%), Gaps = 95/672 (14%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK 100
G V + GHL LA K + +D++W + K K K IK + LAK+
Sbjct: 22 GDSYNVIATCGHLRELAKKSGY-DPKTYDLKWEIIKTTNK-KLSKKQQIKTIIDLAKKSN 79
Query: 101 EFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMA 160
+A D D EGE I + D R KR+ F+ +T++ +L + + I+F +
Sbjct: 80 NIYLATDPDREGEAISWHVYDLLPKKDKERVKRITFNEITQKAILKSIDE-KHDIDFNLV 138
Query: 161 NAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVP 220
++ AR +LD G LS + K G LS GRVQ L F+VERE E +SFV
Sbjct: 139 DSQFARRILDRVIGYKLSGLVK---KNLHG----LSAGRVQSIALLFVVERELERRSFVK 191
Query: 221 KPYWVIKLVIEKNG----QKLVANYE----KD------KIWSEEEAKKIVTEVKKSKARV 266
+ ++ I+ +IEKN +K+ + E KD K +++A++++ ++
Sbjct: 192 EEWYQIEGIIEKNIFVSLRKIPYDVELYNQKDNSDSDLKFLHKKDAQRVIDDLSDIFKVY 251
Query: 267 SNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK--------GFTSYP 318
S ++K K + +P L + A + FG+S KT IAQ ++E +YP
Sbjct: 252 SIDDLKITKGDVQLPLTTDKLLQIASNNFGWSANKTTLIAQQMFEGLEINNQQLALITYP 311
Query: 319 RTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED-------PAHPA 371
RT+S++L + + + + G L+ + KK + AH A
Sbjct: 312 RTDSERLSDDF-----------LQEANAFIENNFGKEYLENFKNKKINRKEVNIQDAHEA 360
Query: 372 IYPTGEIPGPGDL----SKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLS- 426
I P P ++ S D KLY+++ + L+ M+ + + +KF +
Sbjct: 361 IRPVDINLKPEEIKDYVSLDIYKLYNLVWNKTLSALMKVPTFNKQVIRFINNEYKFYTAY 420
Query: 427 -GARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKK 485
RT+ L Y K E P +G+ + ++ +K+T PP Y+ A++I
Sbjct: 421 KTIRTLGYWILDFYKKQRDELEFQPPIINVGDEFKKEKIDLIQKETTPPPYYTEASLIAA 480
Query: 486 MEDLGIGTKATRAQILETLYQRGYIEGKKSIKV-TPLGMKVIETLEKYVPEIISVELTRE 544
+++ G+G +T A + RGYI KS + T LG+KVI+ L++ P++IS++ T E
Sbjct: 481 LKNAGVGRPSTYATMATIGTTRGYINKDKSKLIPTELGIKVIQELKEAFPKVISIKFTSE 540
Query: 545 FERKMDLIMQGKLTKEEVI--------EEAKVKLTKILEEFKKRELEIGLELARIVVGDV 596
E ++D+I GKL ++++ EE K TKI
Sbjct: 541 MEERLDVIANGKLFWKDLVSTFIPIFEEEVKQAYTKI----------------------- 577
Query: 597 KDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIPTNK 656
+++ +EK + CP C DL++K + RF+ CSN+P C T L++ EI+ N+
Sbjct: 578 -EKVPDEK--INRLCPICAHDLLIK-RSRMNTRFIACSNFPTCRFT-ESLEKPEIL--NE 630
Query: 657 TCCNGAPVVIIR 668
C N + ++ R
Sbjct: 631 LCPNCSKSLVKR 642
>pir||H81749 DNA topoisomerase I TC0012 [imported] - Chlamydia muridarum
(strain Nigg) >gi|7190053|gb|AAF38905.1| (AE002270) DNA
topoisomerase I [Chlamydia muridarum]
Length = 865
Score = 187 bits (470), Expect = 4e-46
Identities = 177/646 (27%), Positives = 302/646 (46%), Gaps = 90/646 (13%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIE--WVPVYIAEKNKDYAKDYIKALSVLAKR 98
G+ I S++GH+ L K G+ I DIE ++P Y + K+ + I+ + AK+
Sbjct: 22 GEGFIFDSSLGHIVDLPAK----GFGI-DIEKGFIPDYQILEGKE---EVIRKICAEAKK 73
Query: 99 VKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG 158
+A D D EGE I + ++ +R+ F+A+TK + A ++ I+
Sbjct: 74 CDVVYLAPDPDREGEAIAWHIANQL--PKNTKIQRISFNAITKGAVTEALKHPRE-IDMA 130
Query: 159 MANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSF 218
+ NA AR LD G +S L ++R SG +S GRVQ LK +V+RE I+ F
Sbjct: 131 LVNAQQARRFLDRIVGYKISPILGRKLQRWSG----VSAGRVQSVALKLVVDREYAIEQF 186
Query: 219 VPKPYWVIKLVIEK--------------NGQKLVANYEKDK-------IWSEEEAKKIVT 257
VP +W I++ ++ NG+K + K I S+E+A +V+
Sbjct: 187 VPVEFWNIRVNLQDPKSQKTFWAHLHSVNGKKWEKEIPEGKSSEDVVLIDSKEKADDLVS 246
Query: 258 EVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK----- 312
++ + V +E K +KRN PF TLQ+EA + FS +T++IAQ+LYE
Sbjct: 247 LLESATYCVDRVESKEKKRNAYPPFITSTLQQEASRHYRFSSSRTMNIAQTLYEGVDLDS 306
Query: 313 ----GFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPA 368
G +Y RT+S + I+ + + + + P + + +D A
Sbjct: 307 QGAVGLITYMRTDSVRTDPEA-----IKQVRKYIENHFGKEYVPSSPNMYATKKMAQD-A 360
Query: 369 HPAIYPTGEIPGPGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFM 424
H AI PT P L++D+ KLY +I +RF+A M A+ +++ + I +
Sbjct: 361 HEAIRPTDVSLSPESIRTKLTEDQYKLYSLIWKRFVASQMIAAIYDTLAIQIATNKGIDL 420
Query: 425 LSGARTVK-QGWLSVYGKYIKFDE-------VTLPEFFIGERVRVLQVRREKKKTKPPAR 476
+ +K +G+L+VY + K DE + LP+ + ++ ++ E+ TKP R
Sbjct: 421 RATGSCLKFKGFLAVYEE--KRDEEGDEDENIQLPKLHERDELKKEEIEAEQSHTKPLPR 478
Query: 477 YSPAAVIKKMEDLGIGTKATRAQILETLYQRGYI--EGKKSIKVTPLGMKVIETLEKYVP 534
++ A+++K++E GIG +T A I+ + R Y EG++ ++ T LG V + LE P
Sbjct: 479 FTEASLVKELEKSGIGRPSTYATIMNKIQSREYTLKEGQR-LRPTELGKVVCQFLETNFP 537
Query: 535 EIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVG 594
I+ + T + E +++LI K +++++E EL V
Sbjct: 538 RIMDIGFTAKMEDELELIADNKKPWKQLLQEF-------------------CELFLPFVV 578
Query: 595 DVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCD 640
+ E + + CP+C +VK K + F GCS +P CD
Sbjct: 579 TAEKEAFIPRIVTEMDCPRCHKGKLVKIWSKN-RYFFGCSEYPTCD 623
>gb|AAF36767.1| (L35043) DNA topoisomerase I [Mycoplasma gallisepticum]
Length = 719
Score = 185 bits (465), Expect = 1e-45
Identities = 180/636 (28%), Positives = 278/636 (43%), Gaps = 84/636 (13%)
Query: 78 AEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIG---YTALKYACGVDPSRAKRM 134
A KNK K+ I L AK+ E +A D D EGE I Y LK GV+ ++ KR+
Sbjct: 80 AVKNK---KEIIDELVDKAKKADEIYLATDPDREGEAISWHVYDVLKEK-GVNVNKCKRI 135
Query: 135 KFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVV 194
F+ ++++ + NA N I ++ I R LD G LS + I S
Sbjct: 136 IFNEISEKAVKNAIANPRE-IQKDWVSSQITRRRLDRLIGFKLSSLMKSKINADSA---- 190
Query: 195 LSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYE---KDKIWSEE- 250
GRVQ LKF+ ERE I FVP+ +W + ++++ + ++ + KDK+ +E
Sbjct: 191 ---GRVQSIALKFITEREELINKFVPRFWWTLDVILKDGTELMLRKIDEKLKDKLGYKEL 247
Query: 251 -----------EAKKIVTEVKKSKARVSNIEVKRQKRN-PPVPFDLGTLQREAYSAFGFS 298
E ++V + K RV I+ + K + P + TLQ++A + +
Sbjct: 248 EEVSGIDFNTKEDAELVKQHLSDKYRVYAIDTPKLKSSYPKEVYKTSTLQQDAINKLKWR 307
Query: 299 PKKTLDIAQSLYEK--------GFTSYPRTESQKLPKNLNFRLIIQNISRM--PQYRPYA 348
K +AQ LYE SYPRT+S +L + ++ +++ Y
Sbjct: 308 SMKITSVAQELYEGVTIDDEQIALISYPRTDSTRLSPEYG-KTVLDFVAKTYGKDYVATQ 366
Query: 349 HLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGD----LSKDEEKLYDMIVRRFLALFM 404
L G + + K AH AI+P P +S D+ LY +I R +A +M
Sbjct: 367 SQLNGETKANKKQKAKVQDAHEAIHPIDISITPDSVKNKISSDQYSLYKLIWTRTVAHYM 426
Query: 405 EPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFD---EVTLPEFFIGERVRV 461
AV E V + + +KF G+ +Y Y D ++ L F I +
Sbjct: 427 AAAVYELVNIRFINNNNKFYAVNNTLKFDGYKKIYTHYDDKDHLRKLDLNHFAIDKEFEA 486
Query: 462 LQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIE--GKKSIKVT 519
V + +TKPPAR++ A +I+ +E GIG +T + IL+ + +R Y E + K T
Sbjct: 487 KDVLLNEHQTKPPARFTQATLIEALETEGIGRPSTYSTILDIVLKRNYAELVNGRYYKTT 546
Query: 520 PLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK-----------EEVIEEAKV 568
LG K+ L+K P II+ E T+ E +D I QG + EV+ EAK
Sbjct: 547 DLGQKLAFELDKNFPTIINKEFTKNMETTLDEIAQGTVNDVSYLQAFWNDFSEVLNEAKT 606
Query: 569 KLTKILE------------EFKKRELEIGLELARIVVGDVK-DEIKEEKPIVV-----GK 610
+ K +E + +RE G + K E E+KP + +
Sbjct: 607 NIVKKVEYIEGKNCPNCSSQLVRREGRYGPFVGCSNFPKCKFIEKSEQKPKEIVYEEGVE 666
Query: 611 CPKCGGDLIVKYNKKTGKR----FVGCSNWPKCDVT 642
C C LI + KK G+ F+GCSN+PKC T
Sbjct: 667 CELCHAKLIRRVAKKKGRNKDNTFLGCSNFPKCKYT 702
>gi|10956388 pXO1-142 [Bacillus anthracis] >gi|730964|sp|P40114|TOP1_BACAN DNA
TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME)
(UNTWISTING ENZYME) (SWIVELASE) >gi|7474252|pir||E59108
hypothetical protein pXO1-142 - Bacillus anthracis
virulence plasmid pXO1 >gi|478996|gb|AAA22859.1|
(M97227) topoisomerase 1 [Bacillus anthracis]
>gi|4894357|gb|AAD32445.1|AAD32445 (AF065404) pXO1-142
[Bacillus anthracis]
Length = 887
Score = 185 bits (464), Expect = 2e-45
Identities = 184/686 (26%), Positives = 328/686 (46%), Gaps = 65/686 (9%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLA-PKQD 61
L IAEKP VA +I + R +K I PYY + + IV+ GHL L P++
Sbjct: 5 LFIAEKPKVANEIMKSPRFRHS-QKYIGSKPYYGYY-ENDHYIVSWCRGHLLELKNPEEM 62
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKR-----VKEFIVACDYDTEGEVIG 116
Y +F +E +P+ I + + ++ + L +L K V + CD D EGE+I
Sbjct: 63 DPKYKLFQLEHLPL-IFQPSYKVIQENAEQLQILVKLLQRPDVDHAVNICDADREGELIY 121
Query: 117 YTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGV 175
+YA GV+ +++ K S+ +L A LE + G+A + AR LD+ G+
Sbjct: 122 REVYEYA-GVNKKQSRVYK-SSFEAAELEAALNRLESASKYDGLAYSAKARQYLDYLLGM 179
Query: 176 NLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQ 235
N++R T K A K++ LS+GRVQ L + +RE I+++ + Y+ ++L+ + G
Sbjct: 180 NITRGCT--TKLAQNKFL-LSSGRVQMCLLHEIRQRELAIENYREQSYYHLQLITDL-GL 235
Query: 236 KLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAF 295
K V E D++ + K + +K V + + +K+NP + ++L L ++A++
Sbjct: 236 KPVMKTE-DQVLNPSPLKSLGENLKDQYLTVEDFKEGTRKQNPKLLYNLTDLYKDAHAQL 294
Query: 296 GFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMP 355
+ + Q+LYE+GF +YPR+ S+ LP R ++ + + Y+ LL+
Sbjct: 295 QINAETAKKHIQNLYEEGFITYPRSSSRHLPTEQVDR--VKGVMQALAKSRYS-LLVQSV 351
Query: 356 ELKPVEGKKED------PAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVR 409
++ ++ K + +H AI PT + + E++LY ++V+RF+ FM PAV
Sbjct: 352 DIDAIDIKHKTFDDDLVSSHFAIIPTTKQYQEEGRPEIEKQLYSLVVKRFVGNFMRPAVY 411
Query: 410 ESVKVTIL-AGPHKFMLSGARTVKQGWLSVYGKYIKFDEV---TLPEFFIGERVRVLQVR 465
V+++ A + + + + ++G+L V+ + +K + V +P G+ +++
Sbjct: 412 LVRDVSLIDAMGNTYQIKESVLREKGFLEVFQEEVKEESVETFKVPILQKGQELQIYDFE 471
Query: 466 REKKKTKPPARYSPAAVIKKMEDLG----------------IGTKATRAQILETLYQRGY 509
++ KTK PA ++ ++++ ME G IGT AT A + L+++ +
Sbjct: 472 LQESKTKKPALHTESSILTFMETAGRKIDDEHLKELMKGKRIGTVATEAAFIPVLHEKNF 531
Query: 510 IEGKK-SIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKV 568
I+ +K I TP+G IE V +I T E E + I + +++ E I +
Sbjct: 532 IDIEKGKIITTPIGRAFIEQFP--VQQIKDPLYTAEMEGMIHRIEKNEMSYENFIAQTNA 589
Query: 569 KLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGK 628
+ KI +E + + L +K I V +CP CG +I+ K
Sbjct: 590 FVQKITQEIIRIPDTVSYNLIE----------TWKKQIEVCQCP-CGNGIILDRGK---- 634
Query: 629 RFVGCSNWPKCDVTYPILQRGEIIPT 654
F GCSN P C+ P + + IPT
Sbjct: 635 -FFGCSNHPNCNKGLPKRVKEKTIPT 659
>pir||S41543 DNA topoisomerase (EC 5.99.1.2) - Bacillus anthracis virulence
plasmid pXO1
Length = 887
Score = 185 bits (464), Expect = 2e-45
Identities = 184/686 (26%), Positives = 328/686 (46%), Gaps = 65/686 (9%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLA-PKQD 61
L IAEKP VA +I + R +K I PYY + + IV+ GHL L P++
Sbjct: 5 LFIAEKPKVANEIMKSPRFRHS-QKYIGSKPYYGYY-ENDHYIVSWCRGHLLELKNPEEM 62
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKR-----VKEFIVACDYDTEGEVIG 116
Y +F +E +P+ I + + ++ + L +L K V + CD D EGE+I
Sbjct: 63 DPKYKLFQLEHLPL-IFQPSYKVIQENAEQLQILVKLLQRPDVDHAVNICDADREGELIY 121
Query: 117 YTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGV 175
+YA GV+ +++ K S+ +L A LE + G+A + AR LD+ G+
Sbjct: 122 REVYEYA-GVNKKQSRVYK-SSFEAAELEAALNRLESASKYDGLAYSAKARQYLDYLLGM 179
Query: 176 NLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQ 235
N++R T K A K++ LS+GRVQ L + +RE I+++ + Y+ ++L+ + G
Sbjct: 180 NITRGCT--TKLAQNKFL-LSSGRVQMCLLHEIRQRELAIENYREQSYYHLQLITDL-GL 235
Query: 236 KLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAF 295
K V E D++ + K + +K V + + +K+NP + ++L L ++A++
Sbjct: 236 KPVMKTE-DQVLNPSPLKSLGENLKDQYLTVEDFKEGTRKQNPKLLYNLTDLYKDAHAQL 294
Query: 296 GFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMP 355
+ + Q+LYE+GF +YPR+ S+ LP R ++ + + Y+ LL+
Sbjct: 295 QINAETAKKHIQNLYEEGFITYPRSSSRHLPTEQVDR--VKGVMQALAKSRYS-LLVQSV 351
Query: 356 ELKPVEGKKED------PAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVR 409
++ ++ K + +H AI PT + + E++LY ++V+RF+ FM PAV
Sbjct: 352 DIDAIDIKHKTFDDDLVSSHFAIIPTTKQYQEEGRPEIEKQLYSLVVKRFVGNFMRPAVY 411
Query: 410 ESVKVTIL-AGPHKFMLSGARTVKQGWLSVYGKYIKFDEV---TLPEFFIGERVRVLQVR 465
V+++ A + + + + ++G+L V+ + +K + V +P G+ +++
Sbjct: 412 LVRDVSLIDAMGNTYQIKESVLREKGFLEVFQEEVKEESVETFKVPILQKGQELQIYDFE 471
Query: 466 REKKKTKPPARYSPAAVIKKMEDLG----------------IGTKATRAQILETLYQRGY 509
++ KTK PA ++ ++++ ME G IGT AT A + L+++ +
Sbjct: 472 LQESKTKKPALHTESSILTFMETAGRKIDDEHLKELMKGKRIGTVATEAAFIPVLHEKNF 531
Query: 510 IEGKK-SIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKV 568
I+ +K I TP+G IE V +I T E E + I + +++ E I +
Sbjct: 532 IDIEKGKIITTPIGRAFIEQFP--VQQIKDPLYTAEMEGMIHRIEKNEMSYENFIAQTNA 589
Query: 569 KLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGK 628
+ KI +E + + L +K I V +CP CG +I+ K
Sbjct: 590 FVQKITQEIIRIPDTVSYNLIE----------TWKKQIEVCQCP-CGNGIILDRGK---- 634
Query: 629 RFVGCSNWPKCDVTYPILQRGEIIPT 654
F GCSN P C+ P + + IPT
Sbjct: 635 -FFGCSNHPNCNKGLPKRVKEKTIPT 659
>sp|Q9KQF5|TOP3_VIBCH DNA TOPOISOMERASE III >gi|11354876|pir||E82126 DNA topoisomerase
III VC2043 [imported] - Vibrio cholerae (group O1
strain N16961) >gi|9656589|gb|AAF95191.1| (AE004278) DNA
topoisomerase III [Vibrio cholerae]
Length = 647
Score = 185 bits (464), Expect = 2e-45
Identities = 171/635 (26%), Positives = 294/635 (45%), Gaps = 67/635 (10%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGL----AP 58
L IAEKP++AR IA AL +P +K R IV +GHL A
Sbjct: 4 LFIAEKPSLARAIADALP--KPHKKE------QGCIRCANGDIVTWCIGHLLEQVEPDAY 55
Query: 59 KQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYT 118
+ + + + D+ +P + + + + + L K + I A D D EG+++
Sbjct: 56 DERYKKWNMADLPIIPEQWQLRPRKSSSQQLTVVRKLLKEATQIIHAGDPDREGQLLVDE 115
Query: 119 ALKYACGVDPSR---AKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWG 174
+ Y C V S+ +R+ S L + A + L F ++ + +AR DW +G
Sbjct: 116 VIDY-CKVPKSKKETVQRLLISDLNLSAVKRALQGLRSNREFIPLSVSALARSRADWLYG 174
Query: 175 VNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIE-KN 233
+N+SRA T K+A G VLS GRVQ P L +V R+ EI+ F+P Y+ + +I +N
Sbjct: 175 MNMSRAYTLLGKKA-GYQGVLSVGRVQTPVLGLVVRRDEEIEHFIPHDYFTLDALIPYQN 233
Query: 234 GQK---LVANYEKDKI---WSEEEAK--------KIVTEVKKSKARVSNIEVKRQKRNPP 279
G + + A ++ + W +EE + + + + A V+ E + K+ P
Sbjct: 234 GTEYFDIRARWKPSEACLPWQDEEGRVTNRKLVDNVASRIANQPATVTESEQDQTKQAAP 293
Query: 280 VPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEK-GFTSYPRTESQKLPKNLNFR------ 332
+P+ L LQ +A + FS ++ LD+ QSLYEK +YPR++ + LPK +
Sbjct: 294 LPYSLSALQIDAAKRYNFSAQQVLDLCQSLYEKHKLITYPRSDCRYLPKEHLAQAPDVVA 353
Query: 333 LIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLY 392
I N M A L L K K D AH AI PT + LS E K+Y
Sbjct: 354 AIANNAQEMVTAVNDADLSL---RSKAWNDSKVD-AHHAIIPTPKKASVNALSGHEMKVY 409
Query: 393 DMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVT--L 450
+I R++L F A+ K+ F+ G + + GW + G+ + +E +
Sbjct: 410 QLIARQYLMQFYPAAIYAEAKLVFNIAGGIFIAKGRQLLSAGWKVLTGQQDEQEECVDKV 469
Query: 451 PEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKM-----------------EDLGIGT 493
P +G ++ + ++++T+PP ++ A +++ M E G+GT
Sbjct: 470 PPLPVGIVLQCREGEIKQRQTEPPRHFTEATLLQAMTGIARFVADKELKKILRETDGLGT 529
Query: 494 KATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLI 552
+ATRA IL+TL++RG ++ K IK TP G +I L E ++T +E ++ I
Sbjct: 530 EATRAGILDTLFKRGLLQRDNKLIKSTPAGRGLIHALPS---EATYPDMTAHWEHQLQAI 586
Query: 553 MQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLE 587
+ + ++ + +L +++E+ + + + L+
Sbjct: 587 AEKGQAYQPFMQTLQGRLEQLIEQVQVAPVPVSLQ 621
>pir||B70376 reverse gyrase - Aquifex aeolicus >gi|2983417|gb|AAC07000.1|
(AE000712) reverse gyrase [Aquifex aeolicus]
Length = 1146
Score = 184 bits (462), Expect = 3e-45
Identities = 165/595 (27%), Positives = 293/595 (48%), Gaps = 65/595 (10%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQD 61
+LV+ E PN AR IA +P+ + I G+ EV +++ +++GH++ L ++
Sbjct: 597 VLVVVESPNKARTIANFFG--KPMGRKIGGIDVLEVMVGDLYIMITASLGHVFDLVKDKE 654
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALK 121
F G + E+VP+Y + K+ + +K L LA+ V ++ D DTEGE IG+
Sbjct: 655 FHGVIAKNGEYVPIYEVIEGKE---NIVKGLRELAQEVDTVLIGTDPDTEGEKIGWDLGA 711
Query: 122 YACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRAL 181
P+ +R++F +T++ + +A N N + A + R + D + G +SR +
Sbjct: 712 LLSPYIPN-VERIEFHEVTRKAIKHAVENPRD-FNENLVKAQLVRRIADRWVGFEVSRIV 769
Query: 182 THAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANY 241
A + W LS GRVQ P L +++ERE+ + K V+++ ++NG+ L +
Sbjct: 770 QQAFDK---HW--LSGGRVQIPVLGWIIEREKLYR----KKKHVVQITFKENGRWLRLGF 820
Query: 242 EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKK 301
E ++EAK+ +K+ V +E + + +NPP PF T+ +EA + S K
Sbjct: 821 E---FQDKKEAKEFYENLKEIDVEV--LEEREELKNPPPPFTTDTMLKEASDRYRISVPK 875
Query: 302 TLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKP-V 360
+ +AQ L+E G +Y RT+S ++ ++ + + IS LG P V
Sbjct: 876 LMQLAQELFEYGLITYHRTDSTRV-SDVGIGVAKEWISEE----------LGKELFYPRV 924
Query: 361 EGKKEDPAHPAIYPTGEIPGPG-----------DLSKDEEKLYDMIVRRFLALFMEPAVR 409
G E AH I PT + +L+++ LY++I +RF+A M+P
Sbjct: 925 WG--EGGAHECIRPTKPLDVEDLRSMMLAGQLQNLTREHLLLYELIFKRFMASQMKPVKV 982
Query: 410 ESVKVTILA-GPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREK 468
++ KV + A G + ++ +++G+ VY ++ D + V V + ++E
Sbjct: 983 KTKKVKVKALGREQELILTTEILEEGFNKVYPLELQPD--------LKGSVYV-EDKKEL 1033
Query: 469 KKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKV-TPLGMKVIE 527
K Y+ +++++M+ GIG +T A I+ L +RGY+ + + T LG +V E
Sbjct: 1034 KSVPMAYLYTQGSLVEEMKRRGIGRPSTYATIVSKLLERGYVIERHGFLIPTKLGKQVYE 1093
Query: 528 TL---EKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKK 579
L EK +P +S E TR+ E MD + +GK +V++E L K + EF+K
Sbjct: 1094 FLKSREKIMP-FVSEEFTRKLEELMDKVEEGKEDYLQVLDE----LYKKVNEFEK 1143
>pir||A71488 probable DNA topoisomerase I-fused to SWI domain - Chlamydia
trachomatis (serotype D, strain UW3/Cx)
>gi|3329092|gb|AAC68820.1| (AE001335) DNA Topoisomerase
I-Fused to SWI Domain [Chlamydia trachomatis]
Length = 857
Score = 183 bits (461), Expect = 4e-45
Identities = 188/700 (26%), Positives = 318/700 (44%), Gaps = 126/700 (18%)
Query: 41 GKKLIVASAVGHLYGLAPKQDFFGYPIFDIE--WVPVYIAEKNKDYAKDYIKALSVLAKR 98
G+ I S++GH+ L K G+ I DIE +VP Y + K K+ I+ + AK+
Sbjct: 22 GEGFIFDSSLGHIVDLPAK----GFGI-DIENGFVPDYQILEGK---KEVIRKICAEAKK 73
Query: 99 VKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG 158
+A D D EGE I + ++ +R+ F+A+TK + A ++ I+
Sbjct: 74 CDVVYLAPDPDREGEAIAWHIANQL--PKDTKIQRISFNAITKGAVTEALKHPRE-IDMA 130
Query: 159 MANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSF 218
+ NA AR LD G +S L ++R SG +S GRVQ LK +V+RE I+ F
Sbjct: 131 LVNAQQARRFLDRIVGYKISPILGRKLQRWSG----VSAGRVQSVALKLVVDREYAIERF 186
Query: 219 VPKPYWVIKLVIEK--------------NGQKLVANYEKDK-------IWSEEEAKKIVT 257
VP +W I++ ++ NG+K + K I S+E+A +IV
Sbjct: 187 VPVEFWNIRVHLKDPQTQKTFWAHLHSVNGKKWEKEIPEGKTSDEVILIDSKEKADEIVA 246
Query: 258 EVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE------ 311
++ + V +E K +KR+ PF TLQ+EA + FS +T++IAQ+LYE
Sbjct: 247 LLESATYVVDRVESKEKKRHAYPPFITSTLQQEASRHYRFSSSRTMNIAQTLYEGVDLDS 306
Query: 312 ---KGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPA 368
G +Y RT+S + ++ + + + + P + + +D A
Sbjct: 307 QGAVGLITYMRTDSVRTDPE-----AVKQVRKYIEGHFGKEFVPSSPNVYATKKMAQD-A 360
Query: 369 HPAIYPTGEIPGP----GDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFM 424
H AI PT P L++D+ KLY +I +RF+A M A+ +++ + I +
Sbjct: 361 HEAIRPTDVTITPESIRSKLTEDQYKLYSLIWKRFVASQMISAIYDTLAIRITTNKGIDL 420
Query: 425 LSGARTVK-QGWLSVYGKYIKFDE-------VTLPEFFIGERVRVLQVRREKKKTKPPAR 476
+ +K +G+L+VY + K DE + LP+ + + ++ E+ TKP R
Sbjct: 421 RATGSCLKFKGFLAVYEE--KRDEEGDEEENIHLPKLNERDVLTKEELEAEQSHTKPLPR 478
Query: 477 YSPAAVIKKMEDLGIGTKATRAQILETLYQRGYI--EGKKSIKVTPLGMKVIETLEKYVP 534
++ A+++K++E GIG +T A I+ + R Y EG++ ++ T LG V + LE P
Sbjct: 479 FTEASLVKELEKSGIGRPSTYATIMNKIQSREYTLKEGQR-LRPTELGKVVCQFLETNFP 537
Query: 535 EIISVELTREFERKMDLIMQGKLTKEEVIEE----------------------------- 565
I+ + T E +++LI K +++++E
Sbjct: 538 RIMDIGFTAGMEDELELIADNKKPWKQLLQEFCELFLPFVVTAEKEAFIPRIVTEIDCPK 597
Query: 566 -AKVKLTKILE--------------EFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGK 610
K KL KI ++K E E+ + K+E E+ P
Sbjct: 598 CHKGKLVKIWAKNRYFFGCSEYPTCDYKTSEEELTFD---------KNEYAEDTP-WDAP 647
Query: 611 CPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGE 650
C CGG++ V++ K F+GC N+PKC + ++GE
Sbjct: 648 CALCGGEMKVRHGKFGS--FLGCENYPKCHYIVNLFKKGE 685
>sp|P73810|TOP1_SYNY3 DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7437430|pir||S74903 DNA
topoisomerase I - Synechocystis sp. (strain PCC 6803)
>gi|1652946|dbj|BAA17864.1| (D90909) DNA topoisomerase I
[Synechocystis sp.]
Length = 898
Score = 182 bits (456), Expect = 2e-44
Identities = 150/518 (28%), Positives = 231/518 (43%), Gaps = 52/518 (10%)
Query: 74 PVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKR 133
P+Y+ K+K K +K L K E I+A D D EGE I + L+ P KR
Sbjct: 65 PLYVIPKSK---KKVVKELQTALKNADEVILATDEDREGESISWHLLQLLQPKVP--IKR 119
Query: 134 MKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWV 193
M F +T+ + +A N I+ + +A R +LD G LS L I
Sbjct: 120 MVFHEITQEAIRSALENCRD-IDENLVHAQETRRILDRLVGYTLSPLLWKKIAWG----- 173
Query: 194 VLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKN------------GQKLVANY 241
LS GRVQ ++ +V+RER ++F YW +K +E+N G KL
Sbjct: 174 -LSAGRVQSVAVRLIVQRERARRAFKTAGYWDLKAELEQNKNPFQAKLMTLGGTKLANGS 232
Query: 242 EKDK------------IWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQR 289
+ D + E +A + + V N E K R P PF TLQ+
Sbjct: 233 DFDPNTGALLPDKQVVVLDEAQAIALKERLTGKPWAVVNTEEKPGVRKPSPPFTTSTLQQ 292
Query: 290 EAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAH 349
EA G S + T+ +AQ LYE+G+ +Y RT+S L +N + + Y
Sbjct: 293 EANRKLGISARDTMRVAQKLYEEGYITYMRTDSVHLSDQAV--TAARNCVQQMYGKEY-- 348
Query: 350 LLLGMPELKPVEGKKEDPAHPAIYPTG---EIPGPGDLSKDEEKLYDMIVRRFLALFMEP 406
L P+ + K AH AI P G IP L E LY++I +R +A M
Sbjct: 349 -LSPQPKQYTTKSKGAQEAHEAIRPAGTEFRIPNQTGLKDRELALYELIWKRTVACQMAD 407
Query: 407 AVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGK-------YIKFDEVTLPEFFIGERV 459
A + V + +F +G R G+ Y + ++ EV LP +G+R
Sbjct: 408 ARITQLSVLLKVEDAEFRAAGKRIDFPGYFRAYVEGSDDPDAALENQEVILPPLKVGDRP 467
Query: 460 RVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGK-KSIKV 518
++ +T+PPARY+ A+++K +E G+G +T A I+ T+ RGY++ + K++
Sbjct: 468 NCREIDTVGHETQPPARYTEASLVKTLESEGVGRPSTYASIIGTIIDRGYVQMRSKALTP 527
Query: 519 TPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGK 556
T V+ LE + P+++ T E+K+D I GK
Sbjct: 528 TFTAFAVVSLLESHFPDLVDTGFTSRMEQKLDEIAIGK 565
>pir||H75034 reverse gyrase (top-rg) PAB2423 - Pyrococcus abyssi (strain Orsay)
>gi|5458686|emb|CAB50173.1| (AJ248287) reverse gyrase
(top-RG) [Pyrococcus abyssi]
Length = 1214
Score = 180 bits (453), Expect = 3e-44
Identities = 170/619 (27%), Positives = 281/619 (44%), Gaps = 94/619 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+I E PN AR IA + P ++ I + YEV K L + ++ GH++ L + +
Sbjct: 641 LMIVESPNKARTIASFFGQ--PSKRRIGELVAYEVSIGDKMLTILASGGHMFDLVTTEGY 698
Query: 63 FGYPIFDIEWVPVYI----------------------------AEKNKDYAKDYIKALSV 94
G I + P Y+ +N A + +KA+
Sbjct: 699 HGVLILKDDGKPYYVPVYDTIKRCRDCGHQFVDWEQKGVCPKCGSRNVHDALENVKAMRE 758
Query: 95 LAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPT 154
LA V E ++ D DTEGE I + P+ KR++F +T+ +L A +
Sbjct: 759 LALEVDEILIGTDPDTEGEKIAWDIRNVLSPYTPN-IKRIEFHEVTRPAILKAIKEARD- 816
Query: 155 INFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERERE 214
IN A + R + D + G LS+ L + + LS GRVQ P L ++V+R +E
Sbjct: 817 INEDRVKAQLVRRIEDRWIGFELSQKLWEVFENRN-----LSAGRVQTPVLGWIVQRYKE 871
Query: 215 IQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQ 274
F + L +E NG + E AK V EV+ V ++ ++ +
Sbjct: 872 ---FTESETDFLGLTLE-NGISITI----------ENAKGEVKEVE-----VKDVVIEER 912
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLI 334
+ NP P+ + ++A GFS KT+ +AQ L+E G +Y RT+S + N +
Sbjct: 913 EINPLPPYTTDAMLQDASRFLGFSATKTMQLAQDLFELGLCTYHRTDSIHV-SNTGIEIA 971
Query: 335 IQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT--------------GEIPG 380
+ IS +A G E+ AH AI PT G I
Sbjct: 972 KEYISEEIGEEYFAPRKWG-----------EEGAHEAIRPTRPIDTGRLIQLIRDGIITL 1020
Query: 381 PGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPH-KFMLSG-ARTVKQGWLSV 438
P +L+KD +LYD+I RRF+A M+PA R + I++ P + G + GW V
Sbjct: 1021 PRNLTKDHFRLYDLIFRRFIASQMKPA-RVLYEKAIISTPFGDVEVEGYIEILYDGWSRV 1079
Query: 439 YGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRA 498
+K +P+ G++++V +++ + + + Y+ VI M++ GIG +T A
Sbjct: 1080 KPLPLK----QIPKLEKGQKLKVTEIK--QWRAPKVSLYTQGDVIALMKERGIGRPSTYA 1133
Query: 499 QILETLYQRGYI---EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
+I++TL QRGY+ +G+K + T G+KV + L +++S E TR+ E+ MD I +
Sbjct: 1134 KIVQTLLQRGYVIETKGRKKLVPTEKGIKVYQYLVSKYKDLVSEERTRQLEKIMDEIEEA 1193
Query: 556 KLTKEEVIEEAKVKLTKIL 574
K +EV+ E ++ + +
Sbjct: 1194 KADYQEVLRELHEEIKRYI 1212
>gi|10955240 TraE [Enterobacter aerogenes] >gi|7437439|pir||T08528 probable DNA
topoisomerase (EC 5.99.1.2) III - Enterobacter aerogenes
plasmid R751 >gi|1572577|gb|AAC64472.1| (U67194) TraE
[Enterobacter aerogenes]
Length = 687
Score = 180 bits (452), Expect = 5e-44
Identities = 204/720 (28%), Positives = 309/720 (42%), Gaps = 121/720 (16%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
M L IAEKP+VA+ IAG L T G + E D V GH+ A
Sbjct: 1 MRLFIAEKPSVAKAIAGELGA------TGKGDGFIECGTDK----VTWCFGHMLEQADPD 50
Query: 61 DFF---------GYPIFDIEWVPVYIAE---KNKDYAKDYIKALSVLAKRVKEFIVACDY 108
++ G ++ ++ +P+ K KD AK + + L K KE + A D
Sbjct: 51 EYTPDDVPRGQSGKKVWRVDELPIIPESWILKPKDDAKKQLAVIGKLLKEAKEIVNAGDP 110
Query: 109 DTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNL----EPTINFGMANAGI 164
D EG+++ L++ P R R SA +D ++ R L E T G A+A
Sbjct: 111 DREGQLLVDEVLEHFRNSKPVR--RFWVSA---QDSVSVKRGLAALKENTTYAGWADAAR 165
Query: 165 ARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYW 224
R DW G+NLSRA T +R G +L+ GRVQ PTL +V R+REI++F PY
Sbjct: 166 GRQRADWLIGMNLSRAYTLRAQRG-GSRALLTVGRVQTPTLALVVARDREIEAFKAVPYH 224
Query: 225 VIKLVIEKNGQKLVAN----------YEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQ 274
I+ V++ G A Y + ++ A +V VK ++ + + +
Sbjct: 225 TIRAVVQHAGGSFAAAWKAKEDQAGLYSEGRLVDTAVADALVAAVKGQPGTIAAYKQEAK 284
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE------KGFTSYPRTESQKLP-K 327
K+N P+ F L + A + FG+S + L+ Q+LYE + P S+ P +
Sbjct: 285 KQNQPLAFALSDITALASAKFGYSAEDVLNTCQALYETHKLTCTRAPTAPTCRSRSTPTR 344
Query: 328 NLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED---PAHPAIYPTGEIPGP--- 381
+R ++ + P RP +++ V G+ ED P H A + G+ P
Sbjct: 345 RACWR---RSSTSTPTGRP-GRWCRSAYQVQDV-GRLEDHRAPRHRADHAEGQQGRPQRA 399
Query: 382 --GDLSKDEEKLYDMIVRRFLALFMEPAVR---ESVKVTILAGPHKFMLSGARTVKQGWL 436
L D +L ++ PA R + + AG F SG + GW
Sbjct: 400 RAQHLRPDRARLPGAVL---------PAARVHADHRGRSRFAG-ENFAASGKVVTRNGWR 449
Query: 437 SVYGKYIKFDE---------VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKME 487
VY + + E LP G+ V R+ KTKPPAR++ +I+ ME
Sbjct: 450 DVYSQADEEGEKDEDDDSGTQALPSMAQGDAVTCTDATRKDAKTKPPARFTEGTLIRAME 509
Query: 488 DL-----------------GIGTKATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETL 529
++ GIGT ATRA I+ L +R ++ K K I T LG VI+ L
Sbjct: 510 NIHKFVSDAEHKKMLREGDGIGTSATRASIISELKRREFLAVKGKQIISTTLGRSVIDAL 569
Query: 530 EKYVPEII-SVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLEL 588
PE++ S LT +ER + + QG + I + E F + ++
Sbjct: 570 ----PEVVKSPVLTALYERMLKGVEQGTAALDAFITKQ--------ETFIRDQVAKANSG 617
Query: 589 ARIVVGDVKDEIKEEKPI-VVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQ 647
A + G KE P+ + KC CG L + +KK G+ + GCSN+P C TYP L+
Sbjct: 618 AVTIAGG-----KEAAPVSSLHKCMACGSGLSRRPSKKKGQFWWGCSNFPTCKQTYPDLK 672
>pir||T31599 hypothetical protein Y48C3A.q - Caenorhabditis elegans
Length = 646
Score = 178 bits (447), Expect = 2e-43
Identities = 166/611 (27%), Positives = 270/611 (44%), Gaps = 65/611 (10%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKT----IFGVPYYEVFRDGK--KLIVASAVGHLYG 55
+L++AEKP +A IA LS + ++ + V Y+ +G+ + V S GH+
Sbjct: 5 VLMVAEKPLLADSIANLLSNGQAKKRKGWNGVCSVSEYDGQFNGRAARFKVTSTCGHVMS 64
Query: 56 LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVK--EFIVA-CDYDTEG 112
L F + D +Y A + A +K LA K +F+V D D EG
Sbjct: 65 LDFPPKFNNWERVDP--AELYSAPTQRIEANPKMKMNEFLASEAKNADFLVLWLDCDKEG 122
Query: 113 EVIGYTALKYA-CGVDPSRAK------RMKFSALTKRDLLNAWRNL-EPTINFGMANAGI 164
E I + + C + +R R FSA+T++D+ A RNL P N M+++
Sbjct: 123 ENICFEVIDAVKCAMFKNRQDFMSDVYRAHFSAITEKDIKAAMRNLGRPDQN--MSHSVD 180
Query: 165 ARHVLDWYWGVNLSRALTHAIKRASGKWV--VLSTGRVQGPTLKFLVEREREIQSFVPKP 222
AR LD G + +R T + G V+S G Q PTL F V R +I F P+
Sbjct: 181 ARQELDLRIGCSFTRFQTKFFQGKYGDLDSNVISYGPCQTPTLGFCVTRHDQIVQFKPEQ 240
Query: 223 YWVIK--LVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKAR-VSNIEVKRQKRNPP 279
YWV+K +GQ +++ +I+ E A+ V +KK V ++ K ++ P
Sbjct: 241 YWVLKTNFTTSDDGQIFSPEWQRGRIFDAEVARVFVDRIKKCHTGLVLDVSKKEARKERP 300
Query: 280 VPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLN--------- 330
+ L R A S+ G SP T+ +A++LY +G+ SYPRTE+ N +
Sbjct: 301 CALNTVELMRVASSSLGMSPSTTMHVAEALYTQGYISYPRTETTAYSANFDLTGTLKILA 360
Query: 331 ---------------------FRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAH 369
F + +R ++ L G+ K K + H
Sbjct: 361 GDRKWGSVVSQASGNGKIFDFFSIFFDFFDFFDFFRCFSVLADGIKRPKSGVDKGD---H 417
Query: 370 PAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGAR 429
P I P P G LS D ++Y+ + + F+A M+ V E V + G +F L G
Sbjct: 418 PPITPMR--PNHGGLSGDMSRIYEYVSQHFVATLMKQCVYEVTTVKMSCGDEQFTLQGKN 475
Query: 430 TVKQGWLSVYGKYIKFDEVTLPEFF--IGERVRVLQVRREKKKTKPPARYSPAAVIKKME 487
V+ G+ +V +E ++P+ IG ++ + + ++T PP + A +I ME
Sbjct: 476 VVEPGFTAVMPWLSVEEECSVPKSLQQIGAKIELQNAEIQARETTPPGYLTEAELITLME 535
Query: 488 DLGIGTKATRAQILETLYQRGY--IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREF 545
GIGT A+ + T+ QR Y +E + + T LG ++ K PE++ + E
Sbjct: 536 KHGIGTDASIPVHINTITQRNYVTVESGRRLVPTRLGQCLVRGYWKVDPELVLPTMRAEL 595
Query: 546 ERKMDLIMQGK 556
E +++L+ GK
Sbjct: 596 EEQLNLVASGK 606
>gb|AAB49283.1| (U66557) reverse gyrase [Pyrococcus furiosus]
Length = 1214
Score = 178 bits (447), Expect = 2e-43
Identities = 169/610 (27%), Positives = 273/610 (44%), Gaps = 94/610 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+I E PN AR IA + P ++ I + YEV K L + ++ GH++ L + +
Sbjct: 641 LMIVESPNKARTIANFFGQ--PSKRRIGDLVAYEVSIGDKMLTILASGGHMFDLVTTEGY 698
Query: 63 FGY------------PIFD------------IEW----VPVYIAEKNKDYAKDYIKALSV 94
G P++D ++W V +N A + +KA+
Sbjct: 699 HGVLLLEKGGKRYFVPVYDTIKRCRDCGHQFVDWEEKGVCPRCGSRNVYDALENVKAMRD 758
Query: 95 LAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPT 154
LA+ V E ++ D DTEGE I + P KR++F +T+ +L A N
Sbjct: 759 LAQEVDEILIGTDPDTEGEKIAWDIRNVLSPYAPV-IKRIEFHEVTRPAILRAI-NEARD 816
Query: 155 INFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERERE 214
IN NA + R + D + G LS+ L + + LS GRVQ P L ++V+R +E
Sbjct: 817 INEDRVNAQLVRRIEDRWIGFELSQKLWEVFENYN-----LSAGRVQTPVLGWIVQRYKE 871
Query: 215 IQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQ 274
E L E D E V EV V + ++ +
Sbjct: 872 FT--------------ESETDFLGLTLENDITIILEGVSGDVQEVY-----VKEVTIEER 912
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLI 334
+ NP P+ + ++A GFSP T+ +AQ L+E G T+Y RT+S + N +
Sbjct: 913 EINPLPPYTTDAMLQDASRFLGFSPTHTMQLAQDLFELGLTTYHRTDSIHV-SNTGIEIA 971
Query: 335 IQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT--------------GEIPG 380
+ I++ +A G E+ AH AI PT G I
Sbjct: 972 KEYITQEIGEEYFAPRKWG-----------EEGAHEAIRPTRPIDTGRLIQLIRDGIITL 1020
Query: 381 PGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSV-Y 439
P +L+KD KLYD+I RRF+A M+PA + + ++ P+ +G++ V Y
Sbjct: 1021 PRNLTKDHFKLYDLIFRRFMASQMKPA-KVLYERAVIGTPY------GEVEIEGYIDVIY 1073
Query: 440 GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPP-ARYSPAAVIKKMEDLGIGTKATRA 498
+ + + L + E+ ++L+V +K P + Y+ VI M++ GIG +T A
Sbjct: 1074 DGWSRIKPLPLKKLPRLEKDQILKVTEIRKWRAPKVSLYTQGDVIALMKERGIGRPSTYA 1133
Query: 499 QILETLYQRGYI---EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQG 555
+I++TL QRGY+ + KK + T G+KV L +++S E TR+ E+ MD++ +
Sbjct: 1134 KIVQTLLQRGYVIETKSKKKLVPTEKGIKVYHYLVSKYKDLVSEERTRQLEKLMDMVEEA 1193
Query: 556 KLTKEEVIEE 565
K +EV+ E
Sbjct: 1194 KANYQEVLNE 1203
>gi|4507635 topoisomerase (DNA) III beta; topoisomerase III beta [Homo sapiens]
>gi|11417829|ref|XP_009862.1| topoisomerase (DNA) III
beta [Homo sapiens] >gi|6686033|sp|O95985|TP3B_HUMAN DNA
TOPOISOMERASE III BETA-1 >gi|4102879|gb|AAD01614.1|
(AF017146) DNA topoisomerase III beta [Homo sapiens]
>gi|4321652|gb|AAD15791.1| (AF053082) DNA topoisomerase
III beta [Homo sapiens]
>gi|4768877|gb|AAD29670.1|AF125216_1 (AF125216) DNA
topoisomerase III beta [Homo sapiens]
Length = 862
Score = 175 bits (439), Expect = 2e-42
Identities = 186/685 (27%), Positives = 304/685 (44%), Gaps = 65/685 (9%)
Query: 2 ILVIAEKPNVARKIA-----GALSERRPIRKTIFGVPYYEVFRDGK-KLIVASAVGHLYG 55
+L++AEKP++A+ IA G+LS + + Y F + + S GH+
Sbjct: 4 VLMVAEKPSLAQSIAKILSRGSLSSHKGLNGACSVHEYTGTFAGQPVRFKMTSVCGHVMT 63
Query: 56 LAPKQDFFG-YPIFD----IEWVPVYIAEKNKDYAK-DYIKALSVLAKRVKEFIVACDYD 109
L DF G Y +D E EK + K + +K L V + ++ D D
Sbjct: 64 L----DFLGKYNKWDKVDPAELFSQAPTEKKEANPKLNMVKFLQVEGRGCDYIVLWLDCD 119
Query: 110 TEGEVIGYTALKYACGV------DPSRAKRMKFSALTKRDLLNAWRNL-EPTINFGMANA 162
EGE I + L V R +FS++T D+ NA L EP N ++
Sbjct: 120 KEGENICFEVLDAVLPVMNKAHGGEKTVFRARFSSITDTDICNAMACLGEPDHNEALSVD 179
Query: 163 GIARHVLDWYWGVNLSRALTHAIKRASGKW-----VVLSTGRVQGPTLKFLVEREREIQS 217
AR LD G +R T K GK+ ++S G Q PTL F VER +IQS
Sbjct: 180 --ARQELDLRIGCAFTRFQT---KYFQGKYGDLDSSLISFGPCQTPTLGFCVERHDKIQS 234
Query: 218 FVPKPYWVIKLVIEKNGQK-LVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQK 275
F P+ YWV++ + + + L+ ++++ +++ E A+ + K K A+V K +
Sbjct: 235 FKPETYWVLQAKVNTDKDRSLLLDWDRVRVFDREIAQMFLNMTKLEKEAQVEATSRKEKA 294
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLII 335
+ P+ + + R A S+ G P+ + A+ LY +G+ SYPRTE+ P+N + + +
Sbjct: 295 KQRPLALNTVEMLRVASSSLGMGPQHAMQTAERLYTQGYISYPRTETTHYPENFDLKGSL 354
Query: 336 QNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMI 395
+ + P + LL +P +G + HP I P + +L D +LY+ I
Sbjct: 355 RQQANHPYWADTVKRLLAEGINRPRKG-HDAGDHPPITPM-KSATEAELGGDAWRLYEYI 412
Query: 396 VRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFI 455
R F+A ++ GP F SG + G+ V E +LP
Sbjct: 413 TRHFIATVSHDCKYLQSTISFRIGPELFTCSGKTVLSPGFTEVMPWQSVPLEESLPTCQR 472
Query: 456 GERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY--IEGK 513
G+ V +V+ +K+T PP + A +I ME GIGT A+ + + QR Y +E
Sbjct: 473 GDAFPVGEVKMLEKQTNPPDYLTEAELITLMEKHGIGTDASIPVHINNICQRNYVTVESG 532
Query: 514 KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKI 573
+ +K T LG+ ++ K E++ + E++++LI QGK +V L
Sbjct: 533 RRLKPTNLGIVLVHGYYKIDAELVLPTIRSAVEKQLNLIAQGKADYRQV-------LGHT 585
Query: 574 LEEFKKRELEIGLELARIVVGDVKDEIKEE--KPIV-----VGKCPKCGGDLIVKYNKKT 626
L+ FK++ +A + DE+ E P+ + +C KC +KY +
Sbjct: 586 LDVFKRKFHYFVDSIAGM------DELMEVSFSPLAATGKPLSRCGKC--HRFMKYIQAK 637
Query: 627 GKRFVGCSNWPKCDVTYPILQRGEI 651
R + CS+ CD TY + Q G I
Sbjct: 638 PSR-LHCSH---CDETYTLPQNGTI 658
>sp|Q9X909|TOP1_STRCO DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7480634|pir||T36664 probable DNA
topoisomerase I - Streptomyces coelicolor
>gi|4539561|emb|CAB38480.1| (AL035636) probable DNA
topoisomerase I [Streptomyces coelicolor A3(2)]
Length = 952
Score = 174 bits (436), Expect = 3e-42
Identities = 166/611 (27%), Positives = 262/611 (42%), Gaps = 97/611 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLY----GLAP 58
LVI E P A+ I G L G +V ++VGH+ G A
Sbjct: 14 LVIVESPAKAKTIKGYL---------------------GPGYVVEASVGHIRDLPSGAAE 52
Query: 59 KQDFFGYPI----FDIE--WVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEG 112
+ + + D+E + P+Y+ +K K +K L L K E +A D D EG
Sbjct: 53 VPEKYTGEVRRLGVDVEHDFQPIYVVNADK---KSQVKKLKDLLKESDELFLATDEDREG 109
Query: 113 EVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWY 172
E I + + P KRM F +TK + A N +N + +A R +LD
Sbjct: 110 EAIAWHLQEVLKPKIP--VKRMVFHEITKDAIRAAVANPRE-LNQKLVDAQETRRILDRL 166
Query: 173 WGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYW-------- 224
+G +S L + LS GRVQ + +VERERE +F YW
Sbjct: 167 YGYEVSPVLWKKVMPR------LSAGRVQSVATRLVVERERERIAFRSAEYWDLTGTFAT 220
Query: 225 -----------VIKLVIEKNGQKLVANYEKDKI----------WSEEEAKKIVTEVKKSK 263
++ + +G+++ + D + E A+ + ++ ++
Sbjct: 221 GRAGDASDPSSLVARLQTVDGRRVAQGRDFDSLGQLKSANTLHLDEANARALAAALENTR 280
Query: 264 ARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQ 323
V ++E K +R+P PF TLQ+EA GF K T+ +AQ LYE G+ +Y RT+S
Sbjct: 281 FAVRSVESKPYRRSPYAPFRTTTLQQEASRKLGFGAKSTMQVAQKLYENGYITYMRTDST 340
Query: 324 KLPKNLNFRLIIQNISRMPQYRPY-AHLLLGMPELKPVEGKKEDPAHPAIYPTGE---IP 379
L + +R + Y A L P + K AH AI P+G+ P
Sbjct: 341 TLSDT------AVSAARAQVTQLYGADYLPPQPRTYAGKVKNAQEAHEAIRPSGDRFRTP 394
Query: 380 GPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPH-----KFMLSGARTVKQG 434
L+ D+ KLY++I +R +A M+ A SV V I +F SG G
Sbjct: 395 AETGLTGDQFKLYELIWKRTVASQMKDATGNSVTVKIGGAASDGRDVEFSASGKTITFHG 454
Query: 435 WLSVY-------GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKME 487
+L Y + E LP+ G+ + ++ + TKPPARY+ A+++K++E
Sbjct: 455 FLKAYVEGADDPNAELDDRERRLPQVAEGDALTAEEITVDGHATKPPARYTEASLVKELE 514
Query: 488 DLGIGTKATRAQILETLYQRGYIEGKKSIKVTP--LGMKVIETLEKYVPEIISVELTREF 545
+ IG +T A I+ T+ RGY+ KK + P L V+ LEK+ ++ + T
Sbjct: 515 EREIGRPSTYASIIGTILDRGYV-FKKGTALVPSFLSFAVVNLLEKHFGRLVDYDFTARM 573
Query: 546 ERKMDLIMQGK 556
E +D I +G+
Sbjct: 574 EDDLDRIARGE 584
>sp|P43704|TOP3_HAEIN DNA TOPOISOMERASE III >gi|1075354|pir||G64068 DNA topoisomerase (EC
5.99.1.2) III - Haemophilus influenzae (strain Rd KW20)
>gi|1573420|gb|AAC22103.1| (U32727) DNA topoisomerase
III (topB) [Haemophilus influenzae Rd]
Length = 651
Score = 174 bits (436), Expect = 3e-42
Identities = 171/613 (27%), Positives = 281/613 (44%), Gaps = 66/613 (10%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
M L IAEKP++AR IA L + R F + G +V VGHL A
Sbjct: 1 MRLFIAEKPSLARAIADVLPKPHQ-RGDGF-------IKCGDNDVVTWCVGHLLEQAEPD 52
Query: 61 DFFG-YPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEGEVIG 116
+ + + +E +P+ + K+ K LSV+ K + + + A D D EG+++
Sbjct: 53 AYDPKFKQWRLEHLPIIPEKWQLLPRKEVKKQLSVVEKLIHQADTLVNAGDPDREGQLLV 112
Query: 117 YTALKYACGVDPSRAK--RMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYW 173
YA R K R S L + A + L+P NF +A + +AR DW +
Sbjct: 113 DEVFSYANLSAEKRDKILRCLISDLNPSAVEKAVKKLQPNRNFIPLATSALARARADWLY 172
Query: 174 GVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVI--- 230
G+N++RA T R +G VLS GRVQ P L +V R+ EI+ F PK ++ ++ +
Sbjct: 173 GINMTRAYTIR-GRQTGYDGVLSVGRVQTPVLGLIVRRDLEIEHFQPKDFFEVQAWVNPE 231
Query: 231 ---EKNGQKLVA-------------NYEKD--KIWSEEEAKKIVTEVKKSKARVSNIEVK 272
EK +K A +Y+ D ++ S+ A+K+V + A V+ +
Sbjct: 232 SKEEKTPEKSTALFSALWQPSKACEDYQDDDGRVLSKGLAEKVVKRITNQPAEVTEYKDV 291
Query: 273 RQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYE-KGFTSYPRTESQKLPKN--L 329
R+K P+P+ L LQ +A FG S + LD Q LYE +YPR++ + LP+
Sbjct: 292 REKETAPLPYSLSALQIDAAKRFGMSAQAVLDTCQRLYETHRLITYPRSDCRYLPEEHFA 351
Query: 330 NFRLIIQNIS-RMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDE 388
++ IS Y+ +++L + KK + AH AI PT + P +L+++E
Sbjct: 352 ERHNVLNAISTHCEAYQVLPNVILTEQRNRCWNDKKVE-AHHAIIPTAK-NRPVNLTQEE 409
Query: 389 EKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKY--IKFD 446
+Y +I R++L F A K+T+ F+ GW + GK +
Sbjct: 410 RNIYSLIARQYLMQFCPDAEYRKSKITLNIAGGTFIAQARNLQTAGWKELLGKEDDTENQ 469
Query: 447 EVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKM-----------------EDL 489
E LP G+ + + KKT+PP ++ A ++ M E
Sbjct: 470 EPLLPIVKKGQILHCERGEVMSKKTQPPKPFTDATLLSAMTGIARFVQDKELKKILRETD 529
Query: 490 GIGTKATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEIISVELTREFERK 548
G+GT+ATRA I+E L++RG++ K ++I T G +I+ L + ++T +E +
Sbjct: 530 GLGTEATRAGIIELLFKRGFLTKKGRNIHSTETGRILIQALPNIATQ---PDMTAHWESQ 586
Query: 549 MDLIMQGKLTKEE 561
+ I Q + T ++
Sbjct: 587 LTDISQKQATYQQ 599
>sp|O51768|TOP1_BORBU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7437431|pir||C70203 DNA
topoisomerase I (topA) homolog - Lyme disease spirochete
>gi|2688756|gb|AAC67161.1| (AE001180) DNA topoisomerase
I (topA) [Borrelia burgdorferi]
Length = 848
Score = 173 bits (434), Expect = 6e-42
Identities = 180/696 (25%), Positives = 286/696 (40%), Gaps = 89/696 (12%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+I E P A+ I L E +V + +GH+ L
Sbjct: 6 LIIVESPTKAKTIKKFLDE---------------------SFLVEACIGHVVDLPNNAKE 44
Query: 63 FGYPIFDIEWV-----------PVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTE 111
EW P+YI NK K + L L K + E +A D D E
Sbjct: 45 IPKEYKKYEWANISIDYNNGFNPIYIIPSNK---KPIVSKLKKLVKTINEIYLATDQDRE 101
Query: 112 GEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDW 171
GE I + LK + KRM F +T+ + + +N I+ + NAG AR +LD
Sbjct: 102 GETIAFH-LKEVLKI--KNYKRMIFHEITETAITESLKNTR-NIDMNLVNAGEARRILDR 157
Query: 172 YWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIE 231
+G +S L + LS GRVQ LK L+E+E+ +F Y+ I L +
Sbjct: 158 LYGYTISPLLWKKVAYG------LSAGRVQSVGLKLLIEKEKTRINFKKANYYSILLQCK 211
Query: 232 KNGQKLVANYEKDKIWSEE--EAKKIVTEVKK-------------------------SKA 264
+ L+ + ++I + E K V E K K
Sbjct: 212 HEKKNLLLEAKLEEIDGKNIAEGKDFVNETGKLKNIAKTTIITQDLMIELEKELKNGQKI 271
Query: 265 RVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQK 324
+ +IE K+ K PP PF TLQ+E K+ + AQ LYE G+ +Y RT+S
Sbjct: 272 ELISIETKKIKIPPPKPFTTSTLQQEINKRLKIGTKQIMQHAQKLYEHGYITYMRTDSHN 331
Query: 325 LPKNLNFRL--IIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPG 382
+ K ++ II+N Y + + + K AH AI P+ EI P
Sbjct: 332 IAKIAKDKITKIIKN--------KYGKEYIEEKDRIYEKEKMAQNAHEAIRPS-EIFIPN 382
Query: 383 DL----SKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSV 438
+ SK +++Y +I R + M+ A++E++K+T F S + + G+L
Sbjct: 383 ETIEIESKTAKEIYKIIWDRTIISGMKDAIKENIKLTFKYKNLIFRSSFTKIIFDGFLKH 442
Query: 439 YGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRA 498
+ + + G+ +++++ + +TK P RY+ A++++KME GIG +T +
Sbjct: 443 TKEQDEHLNINFDLIKKGDTFSIVKMKTSEHETKAPFRYTEASLVQKMEKEGIGRPSTYS 502
Query: 499 QILETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKL 557
I+ TL +R Y + ++ T G VI LEKY P +I + T E K+D I GKL
Sbjct: 503 TIISTLLEREYAFKLNNTLMPTIKGAAVINLLEKYFPVLIELNFTSNMEEKLDKIAIGKL 562
Query: 558 TKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGD 617
K + + + + + + E +I R V+ K E K + K G
Sbjct: 563 DKIKYLSKFYNGKKGLKDTVMQLEPKIDSSEFRTVIESQKIENKNSINYTI-NIGKYGPY 621
Query: 618 LIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEIIP 653
LI K + + N K D I+ E+ P
Sbjct: 622 LIFKGHNYSINAKTPLENLYKKDEIEKIINEKELKP 657
>gi|6755851 topoisomerase (DNA) III beta; Topo III beta [Mus musculus]
>gi|6686042|sp|Q9Z321|TP3B_MOUSE DNA TOPOISOMERASE III
BETA-1 >gi|3868800|dbj|BAA34227.1| (AB013603)
topoisomerase III beta [Mus musculus]
Length = 862
Score = 172 bits (432), Expect = 1e-41
Identities = 185/685 (27%), Positives = 302/685 (44%), Gaps = 65/685 (9%)
Query: 2 ILVIAEKPNVARKIA-----GALSERRPIRKTIFGVPYYEVFRDGK-KLIVASAVGHLYG 55
+L++AEKP++A+ IA G +S + + Y F + S GH+
Sbjct: 4 VLMVAEKPSLAQSIAKILSRGNMSSHKGLNGACSVHKYTGTFAGQPVHFKMTSVCGHVMT 63
Query: 56 LAPKQDFFG-YPIFD----IEWVPVYIAEKNKDYAK-DYIKALSVLAKRVKEFIVACDYD 109
L DF G Y +D E EK + K + +K L V + ++ D D
Sbjct: 64 L----DFLGKYNKWDKVDPAELFSQAPTEKKEANPKLNMVKFLQVEGRGCDYVVLWLDCD 119
Query: 110 TEGEVIGYTALKYACGV------DPSRAKRMKFSALTKRDLLNAWRNL-EPTINFGMANA 162
EGE I + L V R +FS++T D+ NA L EP N ++
Sbjct: 120 KEGENICFEVLDAVLPVMNNAHNGEKTVFRARFSSITDTDICNAMTRLSEPDHNEALSVD 179
Query: 163 GIARHVLDWYWGVNLSRALTHAIKRASGKW-----VVLSTGRVQGPTLKFLVEREREIQS 217
AR LD G +R T K GK+ ++S G Q PTL F VER +IQS
Sbjct: 180 --ARQELDLRIGCAFTRFQT---KYFQGKYGDLDSSLISFGPCQTPTLGFCVERHDKIQS 234
Query: 218 FVPKPYWVIKLVIEKNGQK-LVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQK 275
F P+ YWV++ + + ++ L+ ++++ +++ E A+ + K K A V K +
Sbjct: 235 FKPETYWVLQAKVHTDKEESLLLDWDRVRVFDWEIAQMFLNMTKLEKEAWVEATSRKEKA 294
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLII 335
+ P+ + + R A SA G P+ + IA+ LY +G+ SYPRTE+ P+N + + +
Sbjct: 295 KQRPLALNTVEMLRVASSALGMGPQHAMQIAERLYTQGYISYPRTETTHYPENFDLKGSL 354
Query: 336 QNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMI 395
+ + P + LL +P +G + HP I P + +L D +LY+ I
Sbjct: 355 RQQANHPYWADSVKQLLAEGINRPRKG-HDAGDHPPITPM-KSATEAELGGDAWRLYEYI 412
Query: 396 VRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFI 455
R F+A ++ GP F G + G+ + E +LP
Sbjct: 413 TRHFIATVSHDCKYLQSTISFRIGPEHFTCMGKTVISPGFTEIMPWQSVPLEESLPTCQK 472
Query: 456 GERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY--IEGK 513
G+ V +V+ +K+T PP + A +I ME GIGT A+ + + QR Y +E
Sbjct: 473 GDTFTVGEVKMLEKQTSPPDYLTEAELITLMEKHGIGTDASIPVHINNICQRNYVTVESG 532
Query: 514 KSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKI 573
+ +K T LG+ ++ K E++ + E++++LI QGK +V L
Sbjct: 533 RRLKPTNLGIVLVHGYYKIDAELVLPTIRSAVEKQLNLIAQGKADYHQV-------LGHT 585
Query: 574 LEEFKKRELEIGLELARIVVGDVKDEIKEE--KPIV-----VGKCPKCGGDLIVKYNKKT 626
L+ FK++ +A + DE+ E P+ + +C KC +KY +
Sbjct: 586 LDIFKRKFHYFVDSIAGM------DELMEVSFSPLAATGKPLSRCGKC--HRFMKYIQAK 637
Query: 627 GKRFVGCSNWPKCDVTYPILQRGEI 651
R + CS+ CD TY + Q G I
Sbjct: 638 PSR-LHCSH---CDETYTLPQNGTI 658
>sp|O96651|TOP3_DROME DNA TOPOISOMERASE III >gi|4235475|gb|AAD13219.1| (AF099909)
topoisomerase III [Drosophila melanogaster]
Length = 875
Score = 169 bits (423), Expect = 1e-40
Identities = 165/662 (24%), Positives = 296/662 (43%), Gaps = 36/662 (5%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRK--TIFGVPYYEV---FRDGKKLI--VASAVGHLY 54
+L++AEKP++A +AG LS R K T G +E FR+ + + S GH+
Sbjct: 4 VLMVAEKPSLAASLAGILSNGRCTAKRGTGNGCSTHEWTGNFRNEGSVHFRMTSVCGHVM 63
Query: 55 GLAPKQDFFGYPIFD-IEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
L + + + D I+ +K + ++ K L+ A+ ++ D D EGE
Sbjct: 64 SLDFNKKYNCWDKVDPIQLFGCATEKKETNPKQNMRKFLAHEARGCDYLVLWLDCDKEGE 123
Query: 114 VIGYT---ALKYACG--VDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHV 168
I + A+K+ R FSA+T++D+ A L N A + AR
Sbjct: 124 NICFEVMDAVKHVINNVYSDQVTYRAHFSAITEKDIKKAMETLGHP-NENEAKSVDARQE 182
Query: 169 LDWYWGVNLSRALTHAIKRASGKW--VVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVI 226
LD G +R T + G ++S G Q PTL F V+R +IQ+F P+ +W +
Sbjct: 183 LDLRIGCAFTRFQTKFFQDRYGDLDSSLISYGPCQTPTLGFCVKRHDDIQTFKPESFWHL 242
Query: 227 KLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKK-SKARVSNIEVKRQKRNPPVPFDLG 285
+L+ + ++ + + +++ ++ A ++ VK+ KA V ++ K ++ P +
Sbjct: 243 QLLAGQ--PEVTLEWARGRVFKKDIAIMLLNRVKEHKKATVESVASKEAYKSKPQALNTV 300
Query: 286 TLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYR 345
L R S G P + + IA+ LY +G+ SYPRTE+ + P N + ++ + +
Sbjct: 301 ELMRICSSGLGIGPFQAMQIAERLYTQGYISYPRTETNQYPTNFDLPAVLHVLKPSADFG 360
Query: 346 PYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFME 405
A +LG +++ K+ HP I P ++ D +D ++Y+ I R F+
Sbjct: 361 EEARSILG--DIQTPRKGKDAGDHPPITPM-KLGNRSDFDRDTWRVYEFICRHFMGTVSR 417
Query: 406 PAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
+ G F + + + G+ V + P F G +V + VR
Sbjct: 418 DLKYRVTTAKLSVGMETFSCTASVLIDAGFTKVMTWSAFGKDEPQPPFVQGTQVAINDVR 477
Query: 466 REKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY--IEGKKSIKVTPLGM 523
+ +T PP + + +I ME+ GIGT A+ + + QR Y IE + + T LG+
Sbjct: 478 LIESQTGPPDYLTESELITLMEEHGIGTDASIPVHINNICQRNYVHIENGRKLMPTTLGI 537
Query: 524 KVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELE 583
++ +K PE++ + E ER + LI QG ++V+ A +K+ K+ + + ++
Sbjct: 538 VLVHGYQKIDPELVLPTMRTEVERMLTLIAQGSANFQDVLRHA-IKIFKLKFMYFVKNID 596
Query: 584 IGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTY 643
L + + + K +C KC +KY + R + CS+ CD TY
Sbjct: 597 SMDALFEVSFSPLAESGKAH-----SRCGKC--RRYMKYIQTKPAR-LHCSH---CDETY 645
Query: 644 PI 645
+
Sbjct: 646 AL 647
>gb|AAF46144.1| (AE003437) Top3beta gene product [Drosophila melanogaster]
Length = 875
Score = 169 bits (423), Expect = 1e-40
Identities = 165/662 (24%), Positives = 296/662 (43%), Gaps = 36/662 (5%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRK--TIFGVPYYEV---FRDGKKLI--VASAVGHLY 54
+L++AEKP++A +AG LS R K T G +E FR+ + + S GH+
Sbjct: 4 VLMVAEKPSLAASLAGILSNGRCTAKRGTGNGCSTHEWTGNFRNEGSVHFRMTSVCGHVM 63
Query: 55 GLAPKQDFFGYPIFD-IEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGE 113
L + + + D I+ +K + ++ K L+ A+ ++ D D EGE
Sbjct: 64 SLDFNKKYNCWDKVDPIQLFGCATEKKETNPKQNMRKFLAHEARGCDYLVLWLDCDKEGE 123
Query: 114 VIGYT---ALKYACG--VDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHV 168
I + A+K+ R FSA+T++D+ A L N A + AR
Sbjct: 124 NICFEVMDAVKHVINNVYSDQVTYRAHFSAITEKDIKKAMETLGHP-NENEAKSVDARQE 182
Query: 169 LDWYWGVNLSRALTHAIKRASGKW--VVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVI 226
LD G +R T + G ++S G Q PTL F V+R +IQ+F P+ +W +
Sbjct: 183 LDLRIGCAFTRFQTKFFQDRYGDLDSSLISYGPCQTPTLGFCVKRHDDIQTFKPESFWHL 242
Query: 227 KLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKK-SKARVSNIEVKRQKRNPPVPFDLG 285
+L+ + ++ + + +++ ++ A ++ VK+ KA V ++ K ++ P +
Sbjct: 243 QLLAGQ--PEVTLEWARGRVFKKDIAIMLLNRVKEHKKATVESVASKEAYKSKPQALNTV 300
Query: 286 TLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYR 345
L R S G P + + IA+ LY +G+ SYPRTE+ + P N + ++ + +
Sbjct: 301 ELMRICSSGLGIGPFQAMQIAERLYTQGYISYPRTETNQYPTNFDLPAVLHVLKPSADFG 360
Query: 346 PYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFME 405
A +LG +++ K+ HP I P ++ D +D ++Y+ I R F+
Sbjct: 361 EEARSILG--DIQTPRKGKDAGDHPPITPM-KLGNRSDFDRDTWRVYEFICRHFMGTVSR 417
Query: 406 PAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
+ G F + + + G+ V + P F G +V + VR
Sbjct: 418 DLKYRVTTAKLSVGMETFSCTASVLIDAGFTKVMTWSAFGKDEPQPPFVQGTQVAINDVR 477
Query: 466 REKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY--IEGKKSIKVTPLGM 523
+ +T PP + + +I ME+ GIGT A+ + + QR Y IE + + T LG+
Sbjct: 478 LIESQTGPPDYLTESELITLMEEHGIGTDASIPVHINNICQRNYVHIENGRKLMPTTLGI 537
Query: 524 KVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELE 583
++ +K PE++ + E ER + LI QG ++V+ A +K+ K+ + + ++
Sbjct: 538 VLVHGYQKIDPELVLPTMRTEVERMLTLIAQGSANFQDVLRHA-IKIFKLKFMYFVKNID 596
Query: 584 IGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTY 643
L + + + K +C KC +KY + R + CS+ CD TY
Sbjct: 597 SMDALFEVSFSPLAESGKAH-----SRCGKC--RRYMKYIQTKPAR-LHCSH---CDETY 645
Query: 644 PI 645
+
Sbjct: 646 AL 647
>gi|10956714 topoisomerase I [Xylella fastidiosa] >gi|11279673|pir||C82861
topoisomerase I XFa0003 [imported] - Xylella fastidiosa
(strain 9a5c) >gi|9112241|gb|AAF85572.1|AE003851_3
(AE003851) topoisomerase I [Xylella fastidiosa]
Length = 660
Score = 169 bits (423), Expect = 1e-40
Identities = 186/637 (29%), Positives = 288/637 (45%), Gaps = 89/637 (13%)
Query: 37 VFRDGKKLIVASAVGHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLA 96
+ DG K +A++VGH+ L K+ P F P Y + + + + L L
Sbjct: 18 ILGDGWK--IAASVGHVRDLPQKEMGVAAPDFK----PSY---ELTERGEGVVAKLKNLL 68
Query: 97 KRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTIN 156
K+ +A D D EGE I + + +P R + +A + L A R TI+
Sbjct: 69 KQADSVYLATDPDREGEAISWHLQQCLKLSNPLRVTFNEITANAVKASLVAPR----TID 124
Query: 157 FGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQ 216
A AR VLD G +S L+ R +GK LS GRVQ P ++ +VEREREI+
Sbjct: 125 VKRVAAQEARRVLDRLVGYMVSPELS----RLTGKR--LSAGRVQSPAVRLVVEREREIK 178
Query: 217 SFVPKPYWVIKLVI---EKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVK- 272
+F ++ L + +G+ K K +E+ + + + A+V + VK
Sbjct: 179 AFKVTNHFGAMLFFADAKTSGEWSAEWLTKPKFVAEDNPYFMDRDFAAAVAQVKAVVVKS 238
Query: 273 ----RQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKN 328
KR+PP PF T+Q+ A G PK +D AQ LYE+G +Y RT++
Sbjct: 239 FDESEAKRSPPPPFTTSTMQQAASVTLGVDPKAAMDAAQKLYEQGHITYHRTDNPN---- 294
Query: 329 LNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPA---HPAIYPTG-EIPGPGDL 384
+ + S Y L L + E KP + K A HPA+ PT E+ G+
Sbjct: 295 ------VSDESLGDIYAVSVKLGLDIAE-KPRKFKAPAGAQVGHPAVTPTHWEVEEAGET 347
Query: 385 SKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPH-------KFMLSGARTVKQGWLS 437
S D++ LY +I R +A + A R +V+ L +F G + QGWL
Sbjct: 348 S-DQKALYKLIRLRAIACQLADA-RYAVRTVRLEAAQPVGGKNVEFEARGRTLIYQGWLK 405
Query: 438 -VYGKYIKFDEVT-------LPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDL 489
+ G + ++ +P GE + V + + +KKTKPP+ Y+ A ++KK+E
Sbjct: 406 LIAGDQTEEEDGNEKESSNPIPVCAPGECLDVARGKLLEKKTKPPSHYTQATLVKKLESE 465
Query: 490 GIGTKATRAQILETLYQRGYIE-GKKSIKVTPLGMKVIETL-EKYVPEIISVELTREFER 547
GIG AT A I++ + RGY++ KK + T G ++++L K+ E + + TRE E
Sbjct: 466 GIGRPATYAAIMDNIVSRGYVKTEKKYLFPTETGELIVDSLVGKF--EFLDLGFTREIEE 523
Query: 548 KMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIV 607
+D I QG+ + VI AKV ++ +EL+ + V
Sbjct: 524 SLDRIAQGESGYKAVI--AKV------------HDQLNMELSTLQVSATPKH-------- 561
Query: 608 VGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYP 644
C +CG L + K G F GCS +P C VT+P
Sbjct: 562 --PCQECGKPL-RRIPGKNG-HFWGCSGYPDCSVTFP 594
>sp|P14294|TOP3_ECOLI DNA TOPOISOMERASE III >gi|78399|pir||JV0049 DNA topoisomerase (EC
5.99.1.2) III - Escherichia coli >gi|11514602|pdb|1D6M|A
Chain A, Crystal Structure Of E. Coli Dna Topoisomerase
Iii >gi|148026|gb|AAA83923.1| (J05076) topoisomerase III
[Escherichia coli] >gi|1742870|dbj|BAA15551.1| (D90819)
DNA topoisomerase III (EC 5.99.1.-) [Escherichia coli]
>gi|1742874|dbj|BAA15554.1| (D90820) DNA topoisomerase
III (EC 5.99.1.-) [Escherichia coli]
>gi|1788061|gb|AAC74833.1| (AE000271) DNA topoisomerase
III [Escherichia coli K12]
Length = 653
Score = 168 bits (422), Expect = 2e-40
Identities = 166/628 (26%), Positives = 292/628 (46%), Gaps = 69/628 (10%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
M L IAEKP++AR IA L +P RK G + E G +V +GHL A
Sbjct: 1 MRLFIAEKPSLARAIADVLP--KPHRK---GDGFIEC---GNGQVVTWCIGHLLEQAQPD 52
Query: 61 DFFG-YPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAK---RVKEFIVACDYDTEGEVIG 116
+ Y +++ +P+ + K L+V+ + E + A D D EG+++
Sbjct: 53 AYDSRYARWNLADLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLV 112
Query: 117 YTALKYACGVDPSR--AKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYW 173
L Y R +R + L + + A L F + + +AR DW +
Sbjct: 113 DEVLDYLQLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSALARARADWLY 172
Query: 174 GVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKL-VIEK 232
G+N++RA T + R +G VLS GRVQ P L +V R+ EI++FV K ++ +K ++
Sbjct: 173 GINMTRAYT-ILGRNAGYQGVLSVGRVQTPVLGLVVRRDEEIENFVAKDFFEVKAHIVTP 231
Query: 233 NGQKLVANYEKDKI---WSEEE--------AKKIVTEVKKSKARVSNIEVKRQKRNPPVP 281
++ A ++ + + +EE A+ +V + A V++ KR+ + P+P
Sbjct: 232 ADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQPAIVTSYNDKRESESAPLP 291
Query: 282 FDLGTLQREAYSAFGFSPKKTLDIAQSLYE-KGFTSYPRTESQKLP-KNLNFRLIIQNIS 339
F L LQ EA FG S + LDI Q LYE +YPR++ + LP ++ R + N
Sbjct: 292 FSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITYPRSDCRYLPEEHFAGRHAVMNAI 351
Query: 340 RMPQYRPYAHLLLGMPELKP------VEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYD 393
+ +A LL P + P + KK D AH AI PT +L+++E K+Y+
Sbjct: 352 SV-----HAPDLLPQPVVDPDIRNRCWDDKKVD-AHHAIIPTAR-SSAINLTENEAKVYN 404
Query: 394 MIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE---VTL 450
+I R++L F AV + + KF+ + GW ++ G + +E L
Sbjct: 405 LIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTLLGSKERDEENDGTPL 464
Query: 451 PEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDL-----------------GIGT 493
P G+ + + +++T+PP ++ A ++ M + G+GT
Sbjct: 465 PVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGT 524
Query: 494 KATRAQILETLYQRGYIEGK-KSIKVTPLGMKVIETLEKYVPEIIS-VELTREFERKMDL 551
+ATRA I+E L++RG++ K + I T G + +L PE+ + ++T +E +
Sbjct: 525 EATRAGIIELLFKRGFLTKKGRYIHSTDAGKALFHSL----PEMATRPDMTAHWESVLTQ 580
Query: 552 IMQGKLTKEEVIEEAKVKLTKILEEFKK 579
I + + ++ ++ L +++++ K+
Sbjct: 581 ISEKQCRYQDFMQPLVGTLYQLIDQAKR 608
>gi|6323263 DNA Topoisomerase III; Top3p [Saccharomyces cerevisiae]
>gi|136001|sp|P13099|TOP3_YEAST DNA TOPOISOMERASE III
>gi|68485|pir||ISBYT3 DNA topoisomerase (EC 5.99.1.2)
III - yeast (Saccharomyces cerevisiae)
>gi|173002|gb|AAA35161.1| (M24939) DNA topoisomerase
[Saccharomyces cerevisiae] >gi|609366|gb|AAB67406.1|
(U19027) Top3p: DNA Topoisomerase III [Saccharomyces
cerevisiae]
Length = 656
Score = 168 bits (420), Expect = 3e-40
Identities = 157/635 (24%), Positives = 281/635 (43%), Gaps = 68/635 (10%)
Query: 2 ILVIAEKPNVARKIAGALSERRP---------IRKTIFGVPYYEVFRDGK--KLIVASAV 50
+L +AEK ++A+ ++ L R ++ F + R+G ++ + S
Sbjct: 3 VLCVAEKNSIAKAVSQILGGGRSTSRDSGYMYVKNYDFMFSGFPFARNGANCEVTMTSVA 62
Query: 51 GHLYGLAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACD 107
GHL G+ D G+ I+ ++ A N+ + K S + + + ++ D
Sbjct: 63 GHLTGIDFSHDSHGWGKCAIQ--ELFDAPLNEIMNNNQKKIASNIKREARNADYLMIWTD 120
Query: 108 YDTEGEVIGYTALKYACG----VDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAG 163
D EGE IG+ + A + + R FS L ++ +LNA RN ++ +A
Sbjct: 121 CDREGEYIGWEIWQEAKRGNRLIQNDQVYRAVFSHLERQHILNAARN-PSRLDMKSVHAV 179
Query: 164 IARHVLDWYWGVNLSRALTHAIK----------------RASGK--WVVLSTGRVQGPTL 205
R +D GV +R LT ++ R K V+S G Q PTL
Sbjct: 180 GTRIEIDLRAGVTFTRLLTETLRNKLRNQATMTKDGAKHRGGNKNDSQVVSYGTCQFPTL 239
Query: 206 KFLVEREREIQSFVPKPYWVIKLVIEK--NGQKLVANYEKDKIWSEEEAK---KIVTEVK 260
F+V+R I++FVP+ +W I+LV+E NG +++ ++ + E
Sbjct: 240 GFVVDRFERIRNFVPEEFWYIQLVVENKDNGGTTTFQWDRGHLFDRLSVLTFYETCIETA 299
Query: 261 KSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRT 320
+ A+V +++ K + P+P LQ+ + K++LD A+ LY+KGF SYPRT
Sbjct: 300 GNVAQVVDLKSKPTTKYRPLPLTTVELQKNCARYLRLNAKQSLDAAEKLYQKGFISYPRT 359
Query: 321 ESQKLPKNLNFRLIIQNISRMPQ--------YRPYAHLLLGMPELK--------PVEGKK 364
E+ P ++ + +++ +++ Q + YA LL PE P G
Sbjct: 360 ETDTFPHAMDLKSLVEKQAQLDQLAAGGRTAWASYAASLL-QPENTSNNNKFKFPRSGSH 418
Query: 365 EDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFM 424
+D AHP I+P + ++S E ++Y+ + R FLA E A +S+ + + +F
Sbjct: 419 DDKAHPPIHPIVSLGPEANVSPVERRVYEYVARHFLACCSEDAKGQSMTLVLDWAVERFS 478
Query: 425 LSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIK 484
SG +++ +L VY LP + V + + + T PP + + +I
Sbjct: 479 ASGLVVLERNFLDVYPWARWETTKQLPRLEMNALVDIAKAEMKAGTTAPPKPMTESELIL 538
Query: 485 KMEDLGIGTKATRAQILETLYQRGYIEGKK-----SIKVTPLGMKVIETLEKYVPE--II 537
M+ GIGT AT A+ ++ + R Y+ +K ++ T LG+ ++ E E
Sbjct: 539 LMDTNGIGTDATIAEHIDKIQVRNYVRSEKVGKETYLQPTTLGVSLVHGFEAIGLEDSFA 598
Query: 538 SVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTK 572
RE E+ + I +G +K +V+++ K K
Sbjct: 599 KPFQRREMEQDLKKICEGHASKTDVVKDIVEKYRK 633
>pir||G70399 reverse gyrase - Aquifex aeolicus >gi|2983618|gb|AAC07187.1|
(AE000726) reverse gyrase [Aquifex aeolicus]
Length = 1177
Score = 166 bits (417), Expect = 6e-40
Identities = 177/623 (28%), Positives = 282/623 (44%), Gaps = 98/623 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
LVI E PN AR IAG +P + + YEV + L++ +++GH+ L + F
Sbjct: 607 LVIVESPNKARTIAGFFG--KPQMRLVEDSVAYEVPLGDRLLVITASLGHVLDLVTDKGF 664
Query: 63 FGYPIFDIEWVPVYIAEK----------NKDYAK-----------DYIKALSVLAKRVKE 101
FG ++PVY K +Y K + IK + ++ V E
Sbjct: 665 FGVLDDTYPYLPVYDTIKICRETHEQHTEYEYLKKRCKGKIEDKLEIIKGVREVSYEVDE 724
Query: 102 FIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMAN 161
+A D D EGE IGY + + KR +F +T + A +N ++ +
Sbjct: 725 VFIATDPDAEGEKIGYDLYLLSKPFN-FNIKRAEFHEVTPKAFREAIQNPRE-VDLNLVK 782
Query: 162 AGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPK 221
A + R +LD + G LS L A + KW LS GRVQ P L ++++R E +
Sbjct: 783 AQLVRRILDRWVGFTLSHILWDAFGK---KW--LSAGRVQTPVLGWVIKRYEESK----- 832
Query: 222 PYWVIKLVIEKNGQKLV-ANYEKDKIWSEEE--AKKIVTEVKKSKARVSNIEVKRQKRNP 278
EK G+ L+ N KI E+ AK+I +++ + +SN + +++ P
Sbjct: 833 ---------EKKGEILLHVNDFPLKIEIEDLMFAKEIFKDLELADISLSNPQ--EEEKRP 881
Query: 279 PVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNI 338
P+ T+ +A S KT+ I Q L+E G+ +Y RT+S + + +
Sbjct: 882 LPPYTTDTVLEDANEKLHLSAHKTMKILQELFEAGYITYHRTDSTR----------VSDA 931
Query: 339 SRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLS----------KDE 388
+ +PY + G P E AH I PT + P DL +D
Sbjct: 932 GKYLVAKPYITKMFGEEYFYP-RSWGEGGAHECIRPTRPLE-PKDLEFMITAGIAEFEDP 989
Query: 389 E---KLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQ-GWLSVYGKYIK 444
E K+Y++I +RF+A M PA + ++ + ++ VK+ G+ +Y +
Sbjct: 990 ENALKVYELIFKRFMASQMRPAKVITEEIILKLPYFEWKERVVTEVKEHGFDLMYPTFKV 1049
Query: 445 FD-----EVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQ 499
F E+T EF RE K P Y+ +I++M+ G+G +T AQ
Sbjct: 1050 FPKKEKLEITHKEF------------REVPKVYP---YTQGTLIQEMKRRGLGRPSTYAQ 1094
Query: 500 ILETLYQRGYIEGKKSIKV-TPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLT 558
I++TL +R Y+ +K + T LG +V E L K+ PE S ELTR+ E MD I +G+L
Sbjct: 1095 IVQTLLERHYVVEEKGFLIPTDLGREVYEYLTKHFPEWTSEELTRKLEEAMDKIERGELD 1154
Query: 559 KEEVIEEA-KVK-LTKILEEFKK 579
EV++E ++K L K + FKK
Sbjct: 1155 YMEVLKEVHRIKVLLKEEKAFKK 1177
>pir||S23866 probable DNA topoisomerase (EC 5.99.1.2) III - Bacillus firmus
(fragment)
Length = 506
Score = 162 bits (406), Expect = 1e-38
Identities = 133/486 (27%), Positives = 232/486 (47%), Gaps = 38/486 (7%)
Query: 45 IVASAVGHLYG-LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKAL-----SVLAKR 98
++ +AVGH+ L P + Y + ++ +P+ I D + L ++ KR
Sbjct: 15 LICAAVGHILEFLEPGELNEKYKSYSLDSLPIIIDLFQYKVVSDKKEVLQRIKDTIFDKR 74
Query: 99 VKEFIVACDYDTEGEVIGYTAL-KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTIN- 156
VK I+A D EGE IG L + C KR+ S++T + A+ L+
Sbjct: 75 VKTIILATDAAAEGEYIGRNILYRLHC---KKTIKRLWTSSMTAFSIQKAFSQLKADAET 131
Query: 157 FGMANAGIARHVLDWYWGVNLSRALTHAIKRAS--GKWVVLSTGRVQGPTLKFLVERERE 214
+ AR D+ G+ LSRA +K +S GRVQ P L +V+RER
Sbjct: 132 LPLYYQAKARAESDYMIGLTLSRAYGILLKEQGIVPHNTTISLGRVQTPLLAEIVKRERL 191
Query: 215 IQSFVPKPYWVIKLVIEKNGQKLVANY---EKDKIWSEEEAKKIVTEVKKSKARVSNIEV 271
++ F + +W +K G + ++++I++EE+ +++ V+ + + ++
Sbjct: 192 LEQFTAENFWTVKATFNNQGNVYEGEWFHEKENRIFTEEQDEQLCELVRNQSSTIMEMKE 251
Query: 272 KRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNF 331
+ + PP+ + L TLQ +A +AFGF P +TL AQSLY+KG+ SYPRT+ +++ ++ +
Sbjct: 252 EMRTYQPPLLYXLSTLQMDAGNAFGFKPAETLKYAQSLYDKGYLSYPRTQDERITES-DA 310
Query: 332 RLIIQNISRMPQYRPYAHLLLGMPELKPVEGKK---EDPAHPAIYPTGEIPGPGDLSKDE 388
R + NI + + + L +P + K+ E H A+ T +IP DLS+DE
Sbjct: 311 RELENNIQFLSGH-DTSGALFPLPVSTLMNNKRYIGEVTDHHALLITDKIPKDKDLSEDE 369
Query: 389 EKLYDMIVRRFLAL-FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE 447
+ +Y ++V+R LA + + A+ +T + F G + +G + ++
Sbjct: 370 KSIYHLVVKRILAAHYPDVAMSHKEIITKVMDRFTFRSKGKELLSKGRHHIIPP-TNEND 428
Query: 448 VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVI---------------KKMEDLGIG 492
+ LP G V K KTKPP RY+ +++I K + +L +G
Sbjct: 429 IMLPTLLKGSEGVVTDTLTTKSKTKPPNRYTSSSLIGFMKNAAQAIEDEDRKSISNLPLG 488
Query: 493 TKATRA 498
T+ATRA
Sbjct: 489 TEATRA 494
>gb|AAA26423.1| (L10329) traE [Plasmid RP4]
Length = 737
Score = 161 bits (404), Expect = 2e-38
Identities = 194/739 (26%), Positives = 302/739 (40%), Gaps = 116/739 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
LVIAEKP +A+ I L RK YYE D V GH+ L +D+
Sbjct: 6 LVIAEKPELAKAIVEGLGGGS--RKD----GYYECGSDR----VTWCYGHMLALLDPEDY 55
Query: 63 FG-YPIFDIEWVP-VYIAEKNKDY----AKDYIKALSVLAKRVKEFIVACDYDTEGEVIG 116
Y +++ +P V+I + K AK K + L K+ K + A D D EG+++
Sbjct: 56 DERYANWNMADLPIVHIPWRKKPSGDAGAKAQFKTILSLLKQAKSVVHAGDPDDEGQLLV 115
Query: 117 YTALKYA-CGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGV 175
L+YA C + R + R L A R+ G++ A AR V D +G
Sbjct: 116 DEILEYANCRLPVQRLLINDNNVKIVRRQLAAMRDNREFA--GLSAAAEARSVGDQLYGF 173
Query: 176 NLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQ 235
N++R T A RA G +LS GRVQ P L +V R RE + Y+++ E G
Sbjct: 174 NITRLYTLAA-RAKGYQGLLSVGRVQTPILGLVVRRCRENAAHQKTYYYLVNGQFEVEGI 232
Query: 236 KLVANY---------EKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGT 286
+ A Y EK ++ ++E A+ I V AR+ ++ K ++ P+P++L
Sbjct: 233 QFPARYQVADGDPVDEKGRLSNKEHAEGIAAAVSGQPARIVSVTTKAKEAAAPLPYNLLK 292
Query: 287 LQREAYSAFGFSPKKTLDIAQSLYEK-GFTSYPRTESQKLPKNLN------FRLIIQNIS 339
LQ +A FGF P + DI Q+L EK +Y R++ + L + + I Q
Sbjct: 293 LQMDASRKFGFKPDQVKDITQALREKHKLITYNRSDCEYLSEEQHGDAPGVLAAIAQTAP 352
Query: 340 RMPQYRPYAHLLLGMPELKP-VEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRR 398
+ A+ P +K + AH AI PT L+ E+K+Y +I R
Sbjct: 353 MLAAAAQRAN-----PTIKSRAFNSSKVSAHHAIIPTESTADLSKLTDAEQKIYLLIARA 407
Query: 399 FLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFD---------EVT 449
++A F + + V G H+F + T GW +Y + E
Sbjct: 408 YVAQFWPKHLYDQTDVLAQVGDHRFGVRSNVTTSPGWKILYKNDAGNEDLEGNADDIEQD 467
Query: 450 LPEFFIGERVRVLQVRREKKKTKPPARYSPAAVI-------------------------K 484
L + G+ + E+++TKP Y+ +++ K
Sbjct: 468 LRKLRDGQAGTCTDAKAEQQETKPQPLYTMESLLSDLTRVAKYIRDDRLRKILIEKDKGK 527
Query: 485 KMEDLGIGTKATRAQILETLYQRGY-IEGKKSIKVTPLGMKVIETLEKYVPEIISV-ELT 542
+ E GIGT ATR I+ TL++RGY +E K I TP G ++ + L P+ ++T
Sbjct: 528 QGEHGGIGTPATRDSIIATLFERGYLVEKGKHIVSTPTGEELYDAL----PDTARFPDMT 583
Query: 543 REFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEI----------GLELARIV 592
+ + I G+ + E + + K L + G L R+
Sbjct: 584 ALWHEQQKAIQAGERDTLSFVNELMEYIGAEVANIKDNGLNMKIDTHPCPSCGKPLRRLK 643
Query: 593 VGDVKD----------------EIKEEKPI--------VVGKCPKCGGDLIVKYNKKTGK 628
D + + K KP+ + KC CG L + KK G
Sbjct: 644 KKDKNEYFWGCTGFADGCKFACDDKGGKPVPREAPKVSELHKCMACGHGLSRRPGKKRGM 703
Query: 629 RFVGCSNWPKCDVTYPILQ 647
+ GCSN+P C TYP L+
Sbjct: 704 FWWGCSNFPTCKQTYPDLK 722
>sp|O69548|TOP1_MYCLE DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|3097241|emb|CAA18818.1|
(AL023093) DNA topoisomerase I [Mycobacterium leprae]
Length = 947
Score = 158 bits (395), Expect = 2e-37
Identities = 168/618 (27%), Positives = 261/618 (42%), Gaps = 106/618 (17%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ-- 60
LVI E P ARK++G L G IV S+ GH+ L
Sbjct: 18 LVIVESPTKARKLSGYL---------------------GSAYIVESSRGHIRDLPRTAAD 56
Query: 61 ---DFFGYPI------FDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTE 111
F P D ++ P+YI K K + L L + V E +A D D E
Sbjct: 57 VPAKFKSEPWARLGVNVDADFEPLYIITPEK---KSTVTELKGLLQGVDELYLATDGDRE 113
Query: 112 GEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDW 171
GE I + ++ P KRM F +T+ +L A + ++ + +A R +LD
Sbjct: 114 GEAIAWHLMQTLKPRVP--VKRMVFHEITEHAILAAAAHPRE-LDIDLVDAQETRRILDR 170
Query: 172 YWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYW--VIKL- 228
+G +S L K+ + K LS GRVQ + +V+RER+ +F YW V KL
Sbjct: 171 LYGYEVSPVLW---KKVAPK---LSAGRVQSVATRIIVQRERDRMAFCSAVYWDIVAKLD 224
Query: 229 --VIEKNGQKLV----------------------------ANYEKDKIWSEEEAKKIVTE 258
V + Q L K + + A +
Sbjct: 225 ASVSDPTAQPLTFVARLTAVDGLRVATGRDFGAMGTLRGDCEVSKIIVLDDLTATTLAAG 284
Query: 259 VKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYP 318
++ ++ V++ E K R P PF TLQ+EA FS ++T+ IAQ LYE G+ +Y
Sbjct: 285 LRGAQLTVASAEEKLYTRRPYPPFMTSTLQQEAGRKLRFSAERTMSIAQRLYENGYITYM 344
Query: 319 RTESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLG-MPELKPVEGKKEDPAHPAIYPTGE 377
RT+S L ++ N +R + Y + P + K AH AI P GE
Sbjct: 345 RTDSTTLSESAI------NAARTQARQLYGEEYVSDSPRQYTRKVKNAQEAHEAIRPAGE 398
Query: 378 IPGPGD-----LSKDEEKLYDMIVRRFLALFMEPA--VRESVKVTILAGPHK--FMLSGA 428
D L DE ++Y+++ RR +A M A S+++ AG F SG
Sbjct: 399 TFATPDAVCNELDGDEFRIYELVWRRTVASQMADARGTTLSLRIEGRAGEQHVVFSASGR 458
Query: 429 RTVKQGWLSVYGKYIKFDEVT----------LPEFFIGERVRVLQVRREKKKTKPPARYS 478
G+L Y + + DE+ LP G+ + V+ + + T PPARY+
Sbjct: 459 TLTFPGFLKAYVETV--DELAGGEADDAERRLPHLTSGQLLDVIDLTPDGHATNPPARYT 516
Query: 479 PAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP-LGMKVIETLEKYVPEII 537
A+++K +E+LGIG +T + I++T+ RGY++ K S V + V LE++ ++
Sbjct: 517 EASLVKALEELGIGRPSTYSSIIKTVQDRGYVQKKGSALVPSWVAFAVTGLLEQHFGRLV 576
Query: 538 SVELTREFERKMDLIMQG 555
+ T E ++D I G
Sbjct: 577 DYDFTAAMEDELDEIANG 594
>sp|Q59567|TOP1_MYCTU DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|7437432|pir||G70563 DNA
topoisomerase (EC 5.99.1.2) I topA - Mycobacterium
tuberculosis (strain H37RV) >gi|2105048|emb|CAB08843.1|
(Z95436) topA [Mycobacterium tuberculosis]
Length = 934
Score = 158 bits (395), Expect = 2e-37
Identities = 164/621 (26%), Positives = 261/621 (41%), Gaps = 112/621 (18%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLA----- 57
LVI E P ARK+A L G IV S+ GH+ L
Sbjct: 20 LVIVESPTKARKLASYL---------------------GSGYIVESSRGHIRDLPRAASD 58
Query: 58 -----PKQDFFGYPI-FDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTE 111
Q + + D ++ P+YI K + + L L K V E +A D D E
Sbjct: 59 VPAKYKSQPWARLGVNVDADFEPLYIISPEK---RSTVSELRGLLKDVDELYLATDGDRE 115
Query: 112 GEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDW 171
GE I + L+ P KRM F +T+ + A ++ + +A R +LD
Sbjct: 116 GEAIAWHLLETLKPRIP--VKRMVFHEITE-PAIRAAAEHPRDLDIDLVDAQETRRILDR 172
Query: 172 YWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIE 231
+G +S L K+ + K LS GRVQ + +V RER+ +F YW I ++
Sbjct: 173 LYGYEVSPVLW---KKVAPK---LSAGRVQSVATRIIVARERDRMAFRSAAYWDILAKLD 226
Query: 232 KN-------------------GQKLVANYEKDK-----------IWSEEEAKKIVTEVKK 261
+ G+++ + D + E A + +
Sbjct: 227 ASVSDPDAAPPTFSARLTAVAGRRVATGRDFDSLGTLRKGDEVIVLDEGSATALAAGLDG 286
Query: 262 SKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTE 321
++ V++ E K R P PF TLQ+EA FS ++T+ IAQ LYE G+ +Y RT+
Sbjct: 287 TQLTVASAEEKPYARRPYPPFMTSTLQQEASRKLRFSAERTMSIAQRLYENGYITYMRTD 346
Query: 322 SQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPV------EGKKEDPAHPAIYPT 375
S L + S + R A L G + P + K AH AI P
Sbjct: 347 STTLSE-----------SAINAARTQARQLYGDEYVAPAPRQYTRKVKNAQEAHEAIRPA 395
Query: 376 GEIPGPGDLSK--------DEEKLYDMIVRRFLALFMEPA--VRESVKVTILAGPHK--F 423
GE D + D+ +LY++I +R +A M A + S+++T ++G + F
Sbjct: 396 GETFATPDAVRRELDGPNIDDFRLYELIWQRTVASQMADARGMTLSLRITGMSGHQEVVF 455
Query: 424 MLSGARTVKQGWLSVY--------GKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPA 475
+G G+L Y G E LP G+R+ ++++ + T PPA
Sbjct: 456 SATGRTLTFPGFLKAYVETVDELVGGEADDAERRLPHLTPGQRLDIVELTPDGHATNPPA 515
Query: 476 RYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP-LGMKVIETLEKYVP 534
RY+ A+++K +E+LGIG +T + I++T+ RGY+ K S V + V LE++
Sbjct: 516 RYTEASLVKALEELGIGRPSTYSSIIKTIQDRGYVHKKGSALVPSWVAFAVTGLLEQHFG 575
Query: 535 EIISVELTREFERKMDLIMQG 555
++ + T E ++D I G
Sbjct: 576 RLVDYDFTAAMEDELDEIAAG 596
>sp|P34184|TOP1_BACFI DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE)
Length = 505
Score = 158 bits (395), Expect = 2e-37
Identities = 133/486 (27%), Positives = 232/486 (47%), Gaps = 39/486 (8%)
Query: 45 IVASAVGHLYG-LAPKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKAL-----SVLAKR 98
++ +AVGH+ L P + Y + ++ +P+ I D + L ++ KR
Sbjct: 15 LICAAVGHILEFLEPGELNEKYKSYSLDSLPIIIDLFQYKVVSDKKEVLQRIKDTIFDKR 74
Query: 99 VKEFIVACDYDTEGEVIGYTAL-KYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTIN- 156
VK I+A D EGE IG L + C KR+ S++T + A+ L+
Sbjct: 75 VKTIILATDAAAEGEYIGRNILYRLHC---KKTIKRLWTSSMTAFSIQKAFSQLKADAET 131
Query: 157 FGMANAGIARHVLDWYWGVNLSRALTHAIKRAS--GKWVVLSTGRVQGPTLKFLVERERE 214
+ AR D+ G+ LSRA +K +S GRVQ P L +V+RER
Sbjct: 132 LPLYYQAKARAESDYMIGLTLSRAYGILLKEQGIVPHNTTISLGRVQTPLLAEIVKRERL 191
Query: 215 IQSFVPKPYWVIKLVIEKNGQKLVANY---EKDKIWSEEEAKKIVTEVKKSKARVSNIEV 271
++ F + +W +K G + ++++I++EE+ +++ V+ + + ++
Sbjct: 192 LEQFTAENFWTVKATFNNQGNVYEGEWFHEKENRIFTEEQDEQLCELVRNQSSTIMEMKE 251
Query: 272 KRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNF 331
+ + PP+ + L TLQ +A +AFGF P +TL AQSLY+KG+ SYPRT+ +++ ++ +
Sbjct: 252 EMRTYQPPLLY-LSTLQMDAGNAFGFKPAETLKYAQSLYDKGYLSYPRTQDERITES-DA 309
Query: 332 RLIIQNISRMPQYRPYAHLLLGMPELKPVEGKK---EDPAHPAIYPTGEIPGPGDLSKDE 388
R + NI + + + L +P + K+ E H A+ T +IP DLS+DE
Sbjct: 310 RELENNIQFLSGH-DTSGALFPLPVSTLMNNKRYIGEVTDHHALLITDKIPKDKDLSEDE 368
Query: 389 EKLYDMIVRRFLAL-FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE 447
+ +Y ++V+R LA + + A+ +T + F G + +G + ++
Sbjct: 369 KSIYHLVVKRILAAHYPDVAMSHKEIITKVMDRFTFRSKGKELLSKGRHHIIPP-TNEND 427
Query: 448 VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVI---------------KKMEDLGIG 492
+ LP G V K KTKPP RY+ +++I K + +L +G
Sbjct: 428 IMLPTLLKGSEGVVTDTLTTKSKTKPPNRYTSSSLIGFMKNAAQAIEDEDRKSISNLPLG 487
Query: 493 TKATRA 498
T+ATRA
Sbjct: 488 TEATRA 493
>gi|10955488 44 pct identical(12 gaps) to gp:RP4TRAEDF_1[TraE of plasmid RP4]
[Escherichia coli] >gi|9971682|dbj|BAB12633.1|
(AP002527) 44 pct identical(12 gaps) to
gp:RP4TRAEDF_1[TraE of plasmid RP4] [Escherichia coli]
Length = 718
Score = 158 bits (395), Expect = 2e-37
Identities = 177/685 (25%), Positives = 281/685 (40%), Gaps = 103/685 (15%)
Query: 1 MILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ 60
M L IAEKP VA I AL ++ + + IV + GH+ P +
Sbjct: 1 MKLFIAEKPAVANDIVKALGGN---------FTRHDGWFESDNTIVTNCFGHIIESQPPE 51
Query: 61 DFFG-YPIFDIEWVPVY---IAEKNKDYAKDYIKALSVLAKR--VKEFIVACDYDTEGEV 114
++ Y + IE +P+ + + + A+ +K + L +R V E I A D D EG++
Sbjct: 52 NYNPEYKEWKIETLPLRLYPVKYQPVESAEKQVKTIIELIRRADVTEIIHAGDPDDEGQL 111
Query: 115 IGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYW 173
+ L+YA P KR+ + T + A N + +F G+ +AR V D +
Sbjct: 112 LVDEVLEYAGNTKP--VKRVLINDNTLPAVKKALANPKNNRDFRGLYLKALARSVADAIY 169
Query: 174 GVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKN 233
G++++RA T K K V LS GRVQ P L +V R R ++ Y+ + ++
Sbjct: 170 GLSMTRAYTIPAKTKGYKGV-LSVGRVQTPVLGLIVNRTRANKNHKSSFYYTMTGHFQRG 228
Query: 234 GQKLVANYEK------------DKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVP 281
+ AN++ DK W+ A T + A V +K P+P
Sbjct: 229 ADVIRANWKPGEFAPLTDRKLLDKTWANGTA----TSLAGKPATVEAAATDDKKTAAPLP 284
Query: 282 FDLGTLQREAYSAFGFSPKKTLDIAQSLYEK-GFTSYPRTESQKLPKNLNFRLIIQNISR 340
F+L LQ+ F + +KTLDI Q L EK +Y R++ L + S
Sbjct: 285 FNLVRLQQYMNKKFKMTAQKTLDITQQLREKYKAITYNRSDCSYLSD--------EQFSE 336
Query: 341 MPQYRPYAHLLLGMP-ELKPVEGKK-----EDPAHPAIYPTGEIPGPGDLSKDEEKLYDM 394
PQ + P ++ K + AH AI PT +P LS DE +Y
Sbjct: 337 APQIIDALKSVFDQPMDIDTTRKSKAFNSAKVTAHTAIIPTVSVPDVNALSTDERNVYLA 396
Query: 395 IVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVT----- 449
I + +L FM + V V I G F +T G+ + G D+
Sbjct: 397 IAQHYLVQFMPEKAYQEVSVAIQCGDESFYARARKTTDSGFEAFLGVENAGDDEAEVEND 456
Query: 450 ------LPEFFIGERVRVLQVRREKKKTKPPARYSPAAVI-------------------- 483
L + GE V +V +KKT PP ++ A ++
Sbjct: 457 DSDFDLLCKIRTGETVTTKEVVVNEKKTTPPPLFTEATLLAALVRVADFVTDPVIKKLLK 516
Query: 484 -----KKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKV-TPLGMKVIETLEKYVPEI- 536
KK E GIGT ATRA ILETL +R YI +K + T G +I+ L P+I
Sbjct: 517 EKDRDKKDEHGGIGTPATRASILETLKKRNYITLEKGKLIPTDTGYALIDAL----PDIA 572
Query: 537 ISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDV 596
++ ++T + K LI G++T E+ ++E L ++ E+++
Sbjct: 573 VNPDMTALWAEKQTLIENGEMTIEQFVDELYNDLIPMISNANSAEIKVS----------- 621
Query: 597 KDEIKEEKPIVVGKCPKCGGDLIVK 621
+ + CP CG ++++
Sbjct: 622 PSAPSGQSQRLSSPCPSCGKQIVIR 646
>pir||JC5211 DNA topoisomerase (EC 5.99.1.2) I - Mycobacterium tuberculosis
>gi|1395205|gb|AAC44599.1| (U40159) topoisomerase I
[Mycobacterium tuberculosis]
Length = 900
Score = 157 bits (393), Expect = 4e-37
Identities = 166/622 (26%), Positives = 265/622 (41%), Gaps = 115/622 (18%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGL-APKQD 61
LVI E P ARK+A L G IV S+ GH+ L P++
Sbjct: 26 LVIVESPTKARKLASYL---------------------GSGYIVESSRGHIRDLRGPRRC 64
Query: 62 FFGYPI---------FDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEG 112
Y D ++ P+YI K + + L L K V E +A D D EG
Sbjct: 65 TRKYKSQPWARLGVNVDADFEPLYIISPEK---RSTVSELRGLLKDVDELYLATDGDREG 121
Query: 113 EVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWY 172
E I + L+ P KRM F +T+ + A ++ + +A R +LD
Sbjct: 122 EAIAWHLLETLKPRIP--VKRMVFHEITE-PAIRAAAEHPRDLDIDLVDAQETRRILDRL 178
Query: 173 WGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEK 232
+G +S L K+ + K LS GRVQ + +V RER+ +F YW I ++
Sbjct: 179 YGYEVSPVLW---KKVAPK---LSAGRVQSVATRIIVARERDRMAFRSAAYWDILAKLDA 232
Query: 233 N------------------GQKLVANYEKDKIWSE-EEAKKIVTEVKKSKAR-------- 265
+ + VA W+ +A K + + ++ R
Sbjct: 233 SVSDPDAAPPTFSARLTAVAGRRVATGAISTRWARCAKATKSLCSTRGARPRWPAGLDGT 292
Query: 266 ---VSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTES 322
V++ E K R P PF TLQ+EA FS ++T+ IAQ LYE G+ +Y RT+S
Sbjct: 293 QLTVASAEEKPYARRPYPPFMTSTLQQEASRKLRFSAERTMSIAQRLYENGYITYMRTDS 352
Query: 323 QKLPKNL------NFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG 376
L ++ R + + R P R Y + K AH AI P G
Sbjct: 353 TTLSESAINAARTQARQLYGDGVRRPAPRQYTRKV-----------KNAQEAHEAIRPAG 401
Query: 377 EIPGPGDLSK--------DEEKLYDMIVRRFLALFMEPA--VRESVKVTILAGPHK--FM 424
E D + D+ +LY++I +R +A M A + S+++T ++G + F
Sbjct: 402 ETFATPDAVRRELDGPNIDDFRLYELIWQRTVASQMADARGMTLSLRITGMSGHQEVVFS 461
Query: 425 LSGARTVKQGWLSVYGKYIKFDEVT----------LPEFFIGERVRVLQVRREKKKTKPP 474
+G G+L Y + + DE+ LP G+R+ ++++ + T PP
Sbjct: 462 ATGRTLTFPGFLKAYVETV--DELVGGEADDAERRLPHLTPGQRLDIVELTPDGHATNPP 519
Query: 475 ARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTP-LGMKVIETLEKYV 533
ARY+ A+++K +E+LGIG +T + I++T+ RGY+ K S V + V LE++
Sbjct: 520 ARYTEASLVKALEELGIGRPSTYSSIIKTIQDRGYVHKKGSALVPSWVAFAVTGLLEQHF 579
Query: 534 PEIISVELTREFERKMDLIMQG 555
++ + T E ++D I G
Sbjct: 580 GRLVDYDFTAAMEDELDEIAAG 601
>pir||G75403 DNA topoisomerase I - Deinococcus radiodurans (strain R1)
>gi|6459127|gb|AAF10943.1|AE001983_4 (AE001983) DNA
topoisomerase I [Deinococcus radiodurans]
Length = 1021
Score = 157 bits (392), Expect = 5e-37
Identities = 166/584 (28%), Positives = 238/584 (40%), Gaps = 90/584 (15%)
Query: 41 GKKLIVASAVGHLYGLAP---------KQDFFGYPIFDIE--WVPVYIAEKNKDYAKDYI 89
G+ V S+VGH+ L K + D+E + P+Y+ K K +
Sbjct: 65 GQGYAVESSVGHIRDLPRSAADIPEKYKGQAWARLGLDVEHDFQPLYVVSPEK---KQKV 121
Query: 90 KALSVLAKRVKEFIVACDYDTEGEVIG---YTALKYACGVDPSRAKRMKFSALTKRDLLN 146
L LA E I+A D D EGE I Y LK V KRM F +T R+ +
Sbjct: 122 AQLRKLAAEADEIILATDDDREGESIAWHLYQELKPKVPV-----KRMVFHEIT-REAIQ 175
Query: 147 AWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLK 206
A I+ + A AR +D +G +S L + LS GRVQ +
Sbjct: 176 AAIAAPRQIDRNLVEAQEARRAVDRLYGYEVSPVLWRKVAPK------LSAGRVQSVATR 229
Query: 207 FLVEREREIQSFVPKPYWVIKL-----------------VIEKNGQKLVANYEKD----- 244
LVERERE FV +W + + + E G++L A + D
Sbjct: 230 MLVERERERMRFVAATWWDVVVTAQALTAQAGEQTFPARLTEVQGERLAAGKDFDPLTGQ 289
Query: 245 -------KIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGF 297
++ E EA I +K +V E K PP PF TLQ+E
Sbjct: 290 LRPGAGVRLLGEAEALAISEGLKGQTLKVLTAEEKPFTSRPPAPFITSTLQQEGSRKLRM 349
Query: 298 SPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPY-AHLLLGMPE 356
S + T+ AQ LYE G+ +Y RT+S L N +R Y A L P
Sbjct: 350 SAQTTMRTAQRLYEGGYITYMRTDSTNLSSEA------VNAARGQVKDMYGAPYLSPQPR 403
Query: 357 LKPVEGKKEDPAHPAIYPTGEIPGP-----GDLSKDEEKLYDMIVRRFLALFMEPAVRES 411
+ + K AH AI P G G+LS DE +LYD+I +R +A M A S
Sbjct: 404 VYAKKSKNAQEAHEAIRPAGSTFRTPEQLRGELSGDEWRLYDLIWKRTVASQMSDARGRS 463
Query: 412 VKV----------TILAGPHKFMLSGARTVKQGWLSVY-------GKYIKFDEVTLPEFF 454
++V T + P SG G+L Y ++ + LP
Sbjct: 464 LRVRLGGQTASGQTADSVPVVLNASGRTIDFPGFLRAYVEGSDDPAAALEDRDTPLPPLK 523
Query: 455 IGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKK 514
G+ VR V+ E +T+PPARY+ A++++ +E GIG +T A IL T+ RGY KK
Sbjct: 524 XGDAVRAQDVKAEDHETQPPARYTEASLVQALEGAGIGRPSTYASILGTIQDRGYAL-KK 582
Query: 515 SIKVTP--LGMKVIETLEKYVPEIISVELTREFERKMDLIMQGK 556
+ P LE + ++ + T + E +D I G+
Sbjct: 583 GTALVPSWTAFATSALLEHHFGTLVDYDFTAKMEEDLDEIAGGR 626
>pir||PQ0259 hypothetical protein I - Enterococcus faecalis plasmid pAM-beta-1
(fragment)
Length = 487
Score = 153 bits (382), Expect = 7e-36
Identities = 131/495 (26%), Positives = 236/495 (47%), Gaps = 36/495 (7%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLA-PKQD 61
+++AEKP+ A A AL ++ +K + +F D + + GHL LA P
Sbjct: 4 VILAEKPSQALAYASAL--KQSTKKDCYFEIKDPIFAD--ETFITFGFGHLVELAEPGHY 59
Query: 62 FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEGEVIGYT 118
+ + +E +P++ + + A D K ++A+ +K+ IVA D D EGE I ++
Sbjct: 60 DEKWQNWKLESLPIFPDRYDFEVATDKKKQFKIVAELLKQANTIIVATDSDREGENIAWS 119
Query: 119 ALKYACGVDPSRA-KRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGVN 176
+ A + KR+ ++L K + + ++NL+P +N+ R + DW G+N
Sbjct: 120 IIHKANAFSKDKTYKRLWINSLEKDVIRSGFQNLQPGMNYYPFYQEAQTRQIADWLIGMN 179
Query: 177 LSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQK 236
S T +++ G S GRVQ PTL + +R+ I++F +P++ ++ I+ N
Sbjct: 180 ASPLYTLNLQQ-KGVQGTFSLGRVQTPTLYLIFQRQEAIENFRKEPFFEVEASIKVNQGS 238
Query: 237 LVANYEKDKIWSEEEAKKIVTEVKKSKARVSN-------IEVKRQKRNPPVPFDLGTLQR 289
+ + +E +++ V +A++ N ++ K +K N P F L +LQ
Sbjct: 239 FKGVISPTQRFKTQE--ELLAFVSSEQAKIGNQEGIIADVQTKEKKTNSPSLFSLSSLQS 296
Query: 290 EAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAH 349
+ + + +TL Q LYE SYPRT++ + +N F + N + Y +
Sbjct: 297 KVNQLYKATASQTLKAMQGLYEAKLLSYPRTDTPFITEN-EFAYLKANFGK---YSGFLG 352
Query: 350 LLLGMPELKP----VEGKKEDPAHPAIYPTGEIPGPGDLSKDEE---KLYDMIVRRFLAL 402
L L M + +P V+G K H AI PT ++P L+K ++ K+Y ++V+ +A+
Sbjct: 353 LDLEMVQTEPRKRYVDGSKVQEHH-AIIPTKQVPTESALAKMDDLQRKIYALVVKTTVAM 411
Query: 403 FMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEV---TLPEFFIGERV 459
F+ + E K+ F G ++GW ++ + K +E TLP IGE
Sbjct: 412 FLPDYLYEETKIQTKVADLLFQSIGKTPKQEGWKILFKQQTKEEEEDVQTLPLVIIGEHA 471
Query: 460 RVLQVRREKKKTKPP 474
V V+ +K+T+PP
Sbjct: 472 EV-DVKSAEKETQPP 485
>pir||G72614 probable reverse gyrase APE1376 - Aeropyrum pernix (strain K1)
>gi|5105059|dbj|BAA80373.1| (AP000061) 1222aa long
hypothetical reverse gyrase [Aeropyrum pernix]
Length = 1222
Score = 143 bits (356), Expect = 8e-33
Identities = 135/496 (27%), Positives = 221/496 (44%), Gaps = 53/496 (10%)
Query: 85 AKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDL 144
+K ++ L LA V E ++A D D EGE I + +P+ +R +F +T R +
Sbjct: 737 SKSVVEILRKLASEVDEIVIATDPDREGEKIAWDVFLAVRPYNPN-VRRGRFHEVTPRAV 795
Query: 145 LNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPT 204
+ A R+ E ++ + A R ++D + G +LS TH + S W L GRVQ P
Sbjct: 796 IEALRSGE-SVEKSLIEAQKVRRIVDRWIGFHLS---THLKLKFSKPW--LGAGRVQTPV 849
Query: 205 LKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKA 264
L ++V+R RE Q + Y VI + G+ +Y E K++
Sbjct: 850 LGWIVDRYREWQD--TRGYLVI-FKLSSGGR---TSYFTQNRLEVENLKRV------EWL 897
Query: 265 RVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQK 324
V +I K ++RNPP P+ +A G S + IAQ L+E G +Y RT+S +
Sbjct: 898 EVVDIAGKTEERNPPPPYTTDEYLYDASRKLGLSAGLAMKIAQDLFESGLITYHRTDSTR 957
Query: 325 LPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYP---------- 374
+ +L ++ ++ G+ G E AH AI P
Sbjct: 958 VSPT-GVKLALEYLASR-----------GLEGEAQPRGWGEGGAHEAIRPVRPIDAQDLE 1005
Query: 375 ----TGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGART 430
+G I P L++ ++YDMI RRF+A M+PA + V+ T+ AG F +G
Sbjct: 1006 RAVLSGSIRIPIRLTRLHIRVYDMIFRRFIASQMKPATLDIVEATLQAGETVFNHAGVAR 1065
Query: 431 VKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLG 490
V+ G+ V + E L G+R+ V V K K Y ++K M + G
Sbjct: 1066 VRGGYALVNPPRV---EEWLARLSPGDRIDVEDVLVVKSSLK--RLYRAGDIVKMMREHG 1120
Query: 491 IGTKATRAQILETLYQRGYIEGKKSIKV---TPLGMKVIETLEKYVPEIISVELTREFER 547
IG +T A+ +E + GY+ K ++ T G+ + + L +++SV+ TR E
Sbjct: 1121 IGRPSTYAKAIEQNRRHGYVIESKKMRYLIPTKTGVSIYDYLSNGFKKLVSVDTTRRLEE 1180
Query: 548 KMDLIMQGKLTKEEVI 563
++ + +G E V+
Sbjct: 1181 ALERVEKGVEKPEAVL 1196
>pir||C72409 reverse gyrase - Thermotoga maritima (strain MSB8)
>gi|2738604|gb|AAC01563.1| (AF013268) reverse gyrase
[Thermotoga maritima]
>gi|4980668|gb|AAD35266.1|AE001702_6 (AE001702) reverse
gyrase [Thermotoga maritima]
Length = 1104
Score = 141 bits (353), Expect = 2e-32
Identities = 151/611 (24%), Positives = 265/611 (42%), Gaps = 86/611 (14%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQD 61
+L+I E P A ++ L R RK + + V +G L A+ GH+Y L K
Sbjct: 543 LLIIVESPTKAETLSRFLG-RASSRKERNIIVHEAVTGEGVILFTATR-GHVYDLVTKGG 600
Query: 62 FFGYPIFDIEWVPVY----------------------IAEKNKDYAKDYIKALSVLAKRV 99
G + ++VPVY + KN D + ++AL ++
Sbjct: 601 IHGVEEENGKFVPVYNSLKRCRDCGYQFTEDRDECPVCSSKNIDDKTETLRALREISLEA 660
Query: 100 KEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFGM 159
E +VA D D EGE I + +Y S +R++ +T+ A ++ ++F +
Sbjct: 661 DEILVATDPDVEGEKISWDVTQYLLPSTRS-LRRIEMHEITRYGFKKARESVR-FVDFNL 718
Query: 160 ANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFV 219
A I R V D + G LS L R++ LS GRVQ L ++VERE E +
Sbjct: 719 VKAQIVRRVQDRWIGFELSGKLQKRFGRSN-----LSAGRVQSTVLGWIVEREEEYK--- 770
Query: 220 PKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPP 279
K L++ +NG L + KI A +VT V+ +A +++NP
Sbjct: 771 -KSEKDFTLLVLENGVNLEV---EGKI-----ADDVVTVVELQEAE--------EEKNPL 813
Query: 280 VPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNIS 339
P+ + E ++ +DI Q L+EKGF +Y RT+S ++ L QN++
Sbjct: 814 PPYTTSSALSEISQKLRLGVQEVMDILQDLFEKGFITYHRTDSTRI------SLEGQNVA 867
Query: 340 RMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGP-----------GDLSKDE 388
R + +G ++ + AH AI P I DL+K
Sbjct: 868 RTYLRK------IGKEDIFMGRSWSTEGAHEAIRPVKPIDARELEEMIEEGLIADLTKKH 921
Query: 389 EKLYDMIVRRFLALFMEPA-VRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDE 447
++Y++I RFLA V++ + + G + ++ GW F
Sbjct: 922 LRVYELIFNRFLASQSAAVKVKKQIVTVDVDGKRMGIEQIVEILRDGW-------NLFVP 974
Query: 448 VTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQR 507
+T+ F ++ + + KK T P ++ A+++++M+ GIG +T A+I+E L++R
Sbjct: 975 LTVSPRFEHRTYKIKEKKFYKKHTVP--LFTQASIVEEMKKRGIGRPSTYAKIVEVLFRR 1032
Query: 508 GYI--EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEE 565
GY+ + K ++ T G+ V L++ + ++ E TR E MD + +G+ + +
Sbjct: 1033 GYVYEDKYKRVRPTRFGVMVYSYLKERYEKYVTEETTRRLEEIMDKVERGEEDYQATLRL 1092
Query: 566 AKVKLTKILEE 576
++ ++EE
Sbjct: 1093 LYEEIKSLMEE 1103
>dbj|BAA20009.1| (D87012) topoisomerase-III [Homo sapiens]
Length = 753
Score = 136 bits (338), Expect = 1e-30
Identities = 179/710 (25%), Positives = 295/710 (41%), Gaps = 110/710 (15%)
Query: 2 ILVIAEKPNVARKIA-----GALSERRPIRKTIFGVPYYEVFRDGK-KLIVASAVGHLYG 55
+L++AEKP++A+ IA G+LS + + Y F + + S GH+
Sbjct: 4 VLMVAEKPSLAQSIAKILSRGSLSSHKGLNGACSVHEYTGTFAGQPVRFKMTSVCGHVMT 63
Query: 56 LAPKQDFFG-YPIFD----IEWVPVYIAEKNKDYAK-DYIKALSVLAKRVKEFIVACDYD 109
L DF G Y +D E EK + K + +K L V + ++ D D
Sbjct: 64 L----DFLGKYNKWDKVDPAELFSQAPTEKKEANPKLNMVKFLQVEGRGCDYIVLWLDCD 119
Query: 110 TEGEVIGYTALKYACGV------DPSRAKRMKFSALTKRDLLNAWRNL-EPTINFGMANA 162
EGE I + L V R +FS++T D+ NA L EP N ++
Sbjct: 120 KEGENICFEVLDAVLPVMNKAHGGEKTVFRARFSSITDTDICNAMACLGEPDHNEALSVD 179
Query: 163 GIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKP 222
AR LD G + +L +S G Q PTL F VER +IQSF P+
Sbjct: 180 --ARQELDLRIGCAFTSSL-------------ISFGPCQTPTLGFCVERHDKIQSFKPET 224
Query: 223 YWVIKLVIEKN-GQKLVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQKRNPPV 280
YWV++ + + + L+ ++++ +++ E A+ + K K A+V K + + P+
Sbjct: 225 YWVLQAKVNTDKDRSLLLDWDRVRVFDREIAQMFLNMTKLEKEAQVEATSRKEKAKQRPL 284
Query: 281 PFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISR 340
+ + R P+ + A+ LY +G+ SYPRTE+ P+N + + ++ +
Sbjct: 285 ALNTVEMLR-------MGPQHAMQTAERLYTQGYISYPRTETTHYPENFDLKGSLRQQAN 337
Query: 341 MPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYP----------TGEIPGPGDLSKDEEK 390
P + LL +P +G + HP I P T IP P + +
Sbjct: 338 HPYWADTVKRLLAEGINRPRKG-HDAGDHPPITPMKSATEAELGTALIPYPVCFQGGKGE 396
Query: 391 LYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQG-----------WLSVY 439
L + F+A ++ GP F SG + G ++
Sbjct: 397 LR----QHFIATVSHDCKYLQSTISFRIGPELFTCSGKTVLSPGHTTGPAFLLCAFMGRQ 452
Query: 440 GKYIKFD---------EVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLG 490
YI E +LP G+ V +V+ +K+T PP + A +I ME G
Sbjct: 453 TFYIVSGDGRPRSVPLEESLPTCQRGDAFPVGEVKMLEKQTNPPDYLTEAELITLMEKHG 512
Query: 491 IGTKATRAQILETLYQRGY--IEGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERK 548
IGT A+ + + QR Y +E + +K T LG+ ++ K E++ + E++
Sbjct: 513 IGTDASIPVHINNICQRNYVTVESGRRLKPTNLGIVLVHGYYKIDAELVLPTIRSAVEKQ 572
Query: 549 MDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEE--KPI 606
++LI QGK +V L L+ FK++ +A + DE+ E P+
Sbjct: 573 LNLIAQGKADYRQV-------LGHTLDVFKRKFHYFVDSIAGM------DELMEVSFSPL 619
Query: 607 V-----VGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTYPILQRGEI 651
+ +C KC +KY + R + CS+ CD TY + Q G I
Sbjct: 620 AATGKPLSRCGKC--HRFMKYIQAKPSR-LHCSH---CDETYTLPQNGTI 663
>gi|11498629 reverse gyrase (top-RG) [Archaeoglobus fulgidus]
>gi|7446075|pir||H69377 reverse gyrase (top-RG) homolog -
Archaeoglobus fulgidus >gi|2649571|gb|AAB90219.1|
(AE001033) reverse gyrase (top-RG) [Archaeoglobus
fulgidus]
Length = 1054
Score = 132 bits (330), Expect = 9e-30
Identities = 145/598 (24%), Positives = 255/598 (42%), Gaps = 79/598 (13%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L I E P AR+I+ +P K + G YE+ L+V +++GH+ L + F
Sbjct: 508 LFIVESPTKARQISRFFG--KPSVKVLDGAVVYEIPMQKYVLMVTASIGHVVDLITNRGF 565
Query: 63 FGYPIFDIEWVPVYIAEK----------------------NKDYAKDYIKALSVLAKRVK 100
G + + +VPVY + K N D ++ I+AL LA +
Sbjct: 566 HGV-LVNGRFVPVYASIKRCRDCGYQFTEDRESCPKCGSENVDNSRSRIEALRKLAHDAE 624
Query: 101 EFIVACDYDTEGEVIGYTA--LKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINFG 158
IV D DTEGE I + L CG KR +F +T+R +L A +L ++
Sbjct: 625 FVIVGTDPDTEGEKIAWDLKNLLSGCGA----VKRAEFHEVTRRAILEALESLRD-VDEN 679
Query: 159 MANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSF 218
+ A + R + D + G LS+ L + LS GR Q P L ++++R +E
Sbjct: 680 LVKAQVVRRIEDRWIGFVLSQKLWERFNNRN-----LSAGRAQTPVLGWIIDRFQE---- 730
Query: 219 VPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNP 278
+ +K+ + D + +E + +T + +E + + R P
Sbjct: 731 ------------SRERRKIAIVRDFDLVLEHDEEEFDLT--------IKLVEEREELRTP 770
Query: 279 PVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNI 338
P+ T+ +A FS K+T+ IAQ L+E G +Y RT+S ++ ++ R+ + +
Sbjct: 771 LPPYTTETMLSDANRILKFSVKQTMQIAQELFENGLITYHRTDSTRV-SDVGQRIAKEYL 829
Query: 339 SRMPQYRPYAHLLLGMPE-LKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVR 397
R + G E ++P D I G + G L + LYD+I R
Sbjct: 830 GDDFVGREWGE--SGAHECIRPTRPLTRDDVQRLI-QEGVLVVEG-LRWEHFALYDLIFR 885
Query: 398 RFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGK-YIKFDEVTLPEFFIG 456
RF+A P ++ + G ++ + G+ Y + V +
Sbjct: 886 RFMASQCRP-------FKVVVKKYSIEFDGKTAEEERIVRAEGRAYELYRAVWVKNEL-- 936
Query: 457 ERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSI 516
+V+ E K ++ + +I+ M++ GIG +T A I++ L+ R Y+ K
Sbjct: 937 -PTGTFRVKAEVKSVPKVLPFTQSEIIQMMKERGIGRPSTYATIVDRLFMRNYVVEKYGR 995
Query: 517 KV-TPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKI 573
+ T LG+ V L + + +S + TR+ E +MD I +G+L + +E+ ++ I
Sbjct: 996 MIPTKLGIDVFRFLVRRYAKFVSEDRTRDLESRMDAIERGELDYLKALEDLYAEIKSI 1053
>sp|P34185|TOP1_SYNP7 DNA TOPOISOMERASE I (OMEGA-PROTEIN) (RELAXING ENZYME) (UNTWISTING
ENZYME) (SWIVELASE) >gi|322050|pir||S32158 DNA
topoisomerase (EC 5.99.1.2) - Synechococcus sp
>gi|288126|emb|CAA51086.1| (X72391) Topoisomerase I
[Synechococcus sp.]
Length = 839
Score = 124 bits (308), Expect = 4e-27
Identities = 141/531 (26%), Positives = 226/531 (42%), Gaps = 61/531 (11%)
Query: 69 DIE--WVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDTEGEVIGYTALKYACGV 126
D+E + P+YI K+K K +K L K E I+A D D EG+VI + L+
Sbjct: 58 DVENNFAPLYIVPKDK---KKIVKTLKDALKDADELILATDEDREGKVISWHLLQLLQPR 114
Query: 127 DPSRAKRMKFSALTKRDLLNAWRNLEPTINFGMANAGIARHVLDWYWGVNLSRAL--THA 184
P A F +T+ + A L + + +A SR+L H
Sbjct: 115 CPRSA--WSFDEITQEAIQAAHEKLSGCRSAALVHAQETSQD---------SRSLGGLHP 163
Query: 185 IKRASGKWVVLS-TGRVQGPTLKFLVEREREIQSFVPKPYWVIK--LVIEKN-------- 233
+ A K + GRVQ ++ LV+RER ++F YW +K L +E
Sbjct: 164 VGPALEKNCLGPIAGRVQSVAVRLLVQRERARRAFRQGSYWDLKAQLTVEAGQFEAKLWT 223
Query: 234 --GQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNI---------EVKRQK----RNP 278
GQ+L + D+ + A + V + + +A I +V +K N
Sbjct: 224 LAGQRLATGNDFDESTGQIIAGRQVCLLDQQEAEALPIRRPDPALASKVAEEKPTHCANQ 283
Query: 279 PVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNI 338
PF TLQ+E+ S ++T+ +AQSLYE+GF +Y RT+S L + I+
Sbjct: 284 RPPFTTSTLQQESNRKLRLSARETMRVAQSLYERGFITYMRTDSVHLSQQ-----AIEAA 338
Query: 339 SRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTG---EIPGPGDLSKDEEKLYDMI 395
+ + L P + K AH AI P G +P LS E +YD+I
Sbjct: 339 RSCVEQMYGKNYLSPQPRQFTTKSKNAQEAHEAIRPAGNTFRLPQETGLSGAEFAVYDLI 398
Query: 396 VRRFLALFMEPAVRESVKVTILAGPHKF--MLSGARTVKQGWLSVYGKYIKFDEVTLPEF 453
+R +A M A + + V + +F + SG+ + LSV G + P
Sbjct: 399 WKRTIASQMAEARQTMLSVLLEVDNAEFAPVASGSISRASSALSVEGSDDPDAALEDPRN 458
Query: 454 F------IGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQR 507
G R K +PPARY+ A+++K +E+ GIG +T A I+ T+ R
Sbjct: 459 SAAGVEGCGSPHLSGTGRESVMKPQPPARYTEASLVKMLENEGIGRPSTYASIIGTIVDR 518
Query: 508 GYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKL 557
GY + ++ T V LE++ P+++ + E+ +D I G++
Sbjct: 519 GYAQLVSNTLTPTFTAFAVTALLEQHFPDLVDTSFSARMEQSLDDISNGEV 569
>pir||T04488 DNA topoisomerase homolog F8F16.30 - Arabidopsis thaliana
>gi|2827516|emb|CAA16524.1| (AL021633) DNA topoisomerase
like-protein [Arabidopsis thaliana]
>gi|7270023|emb|CAB79839.1| (AL161578) DNA topoisomerase
like-protein [Arabidopsis thaliana]
Length = 1179
Score = 123 bits (306), Expect = 6e-27
Identities = 127/497 (25%), Positives = 207/497 (41%), Gaps = 68/497 (13%)
Query: 95 LAKRVKEFIVACDYDTEGEVIGYTALKY----ACGVDPSRAKRMKFSALTKRDLLNAWRN 150
LA R + I+A D D EGE I + ++ + R+ F +T+ + +A ++
Sbjct: 508 LATRAENLILASDPDREGEAIAWHIIEMLQQQGALHESMTVARVVFHEITESAIKSALQS 567
Query: 151 LEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVE 210
I+ + +A +AR LD+ G N+S L + S GRVQ L + +
Sbjct: 568 PRE-IDGDLVHAYLARRALDYLIGFNISPLLWRKLPGCP------SAGRVQSAALALVCD 620
Query: 211 REREIQSFVPKPYWVIKLVIEKNGQKLVAN----------YEKDKIWSEEEAKKIVTEVK 260
RE EI F P+ YW + + ++ + + I SE A+ I +K
Sbjct: 621 RESEIDGFKPQEYWTVGIKVKGKDNSATFSAHLTSLNSKRLNQLSISSEANAQDIEQRIK 680
Query: 261 KSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRT 320
V + ++NPP P+ TLQ++A + FS T+ IA ++
Sbjct: 681 SEGFLVKGTKTSTTRKNPPTPYITSTLQQDAANKLHFSTAHTMKIA----DEAIKDIQSL 736
Query: 321 ESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPG 380
+++ KN S P R Y K V+ +E AH AI PT
Sbjct: 737 VAERYGKNFT--------SDSP--RKY---------FKKVKNAQE--AHEAIRPTDIRRL 775
Query: 381 PGD----LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHK--FMLSGARTVKQG 434
P L D KLY +I R +A MEPA +++ I F S ++ G
Sbjct: 776 PSTIASLLDADSLKLYTLIWSRAVACQMEPASIAQIQLDIGNASESIIFRSSCSKVEFLG 835
Query: 435 WLSVY----GKYIKFDE-----------VTLPEFFIGERVRVLQVRREKKKTKPPARYSP 479
+ +VY K IK ++ TL G+ +++ +V ++ T+ P RYS
Sbjct: 836 YQAVYEDPEAKAIKNNDNDQSSEREETFKTLSSLKDGDLLQIGEVELKQHHTQHPPRYSE 895
Query: 480 AAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIKVTPLGMKVIET-LEKYVPEIIS 538
+++KK+E+LGIG +T A I L R Y+ K + +++ L Y EI
Sbjct: 896 GSLVKKLEELGIGRPSTYASIFRVLQHRKYVTIKNRVLYPEFRARMVSAFLTHYFTEITD 955
Query: 539 VELTREFERKMDLIMQG 555
T + E ++D + G
Sbjct: 956 YSFTADMETELDNVSGG 972
>dbj|BAA97984.1| (AB045324) unnamed protein product [Mus musculus]
Length = 464
Score = 121 bits (300), Expect = 3e-26
Identities = 124/456 (27%), Positives = 200/456 (43%), Gaps = 37/456 (8%)
Query: 2 ILVIAEKPNVARKIA-----GALSERRPIRKTIFGVPYYEVFRDGK-KLIVASAVGHLYG 55
+L++AEKP++A+ IA G +S + + Y F + S GH+
Sbjct: 4 VLMVAEKPSLAQSIAKILSRGNMSSHKGLNGACSVHKYTGTFAGQPVHFKMTSVCGHVMT 63
Query: 56 LAPKQDFFG-YPIFD----IEWVPVYIAEKNKDYAK-DYIKALSVLAKRVKEFIVACDYD 109
L DF G Y +D E EK + K + +K L V + ++ D D
Sbjct: 64 L----DFLGKYNKWDKVDPAELFSQAPTEKKEANPKLNMVKFLQVEGRGCDYVVLWLDCD 119
Query: 110 TEGEVIGYTALKYACGV------DPSRAKRMKFSALTKRDLLNAWRNL-EPTINFGMANA 162
EGE I + L V R +FS++T D+ NA L EP N ++
Sbjct: 120 KEGENICFEVLDAVLPVMNNAHNGEKTVFRARFSSITDTDICNAMTRLSEPDHNEALSVD 179
Query: 163 GIARHVLDWYWGVNLSRALTHAIKRASGKW-----VVLSTGRVQGPTLKFLVEREREIQS 217
AR LD G +R T K GK+ ++S G Q PTL F VER +IQS
Sbjct: 180 --ARQELDLRIGCAFTRFQT---KYFQGKYGDLDSSLISFGPCQTPTLGFCVERHDKIQS 234
Query: 218 FVPKPYWVIKLVIEKNGQK-LVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVKRQK 275
F P+ YWV++ + + ++ L+ ++++ +++ E A+ + K K A V K +
Sbjct: 235 FKPETYWVLQAKVHTDKEESLLLDWDRVRVFDWEIAQMFLNMTKLEKEAWVEATSRKEKA 294
Query: 276 RNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLII 335
+ P+ + + R A SA G P+ + IA+ LY +G+ SYPRTE+ P+N + + +
Sbjct: 295 KQRPLALNTVEMLRVASSALGMGPQHAMQIAERLYTQGYISYPRTETTHYPENFDLKGSL 354
Query: 336 QNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEKLYDMI 395
+ + P + LL +P +G + HP I P + +L D +LY+ I
Sbjct: 355 RQQANHPYWADSVKQLLAEGINRPWKG-HDAGDHPPITPM-KSATEAELGGDAWRLYEYI 412
Query: 396 VRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTV 431
R F+A ++ GP F G +
Sbjct: 413 TRHFIATVSHDCKYLQSTISFRIGPEHFTCMGKTVI 448
>pir||G71870 topoisomerase I - Helicobacter pylori (strain J99)
>gi|4155510|gb|AAD06509.1| (AE001522) topoisomerase I
[Helicobacter pylori J99]
Length = 686
Score = 119 bits (295), Expect = 1e-25
Identities = 146/580 (25%), Positives = 246/580 (42%), Gaps = 67/580 (11%)
Query: 46 VASAVGHLYGLAPKQDFFGY-PIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIV 104
V + +GH L + G+ P FD + ++ K + + I+A + K+ +
Sbjct: 25 VFATIGHFMQLKSYDENNGFKPTFDYD-------QEKKKHIFEMIEAC-----KNKKVYI 72
Query: 105 ACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRN--LEPTINFGMANA 162
A D D EG IGY + V S R +F +T + +N L N M +
Sbjct: 73 ATDPDREGYAIGYMFYQKIKNV-ASSIYRAEFFEITPSGINKGLQNALLFENTNRQMYQS 131
Query: 163 GIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKP 222
+AR V D G LS L A+ + G S GRVQ P LK +V+R+REI+ F P
Sbjct: 132 ALARRVADMLLGFTLSPYLGKALGQMKGS----SAGRVQTPCLKLIVDRDREIEKFKALP 187
Query: 223 ------YWVIKLVIEKNGQKLVANY-----EKDKIWSEEEAKKIVTEVKKSKA-RVSNIE 270
Y + + + +++ + E+ K +EEA K+ +K +KA + +++
Sbjct: 188 ENEKVSYQIQAKINDSANREVTIKHCDEKGEEIKFNDKEEALKLFESLKDNKACLLKDLK 247
Query: 271 VKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLN 330
+ P PF TL +A S G S + +AQ+L+E G +Y RT+++ L ++
Sbjct: 248 NSVVETKPKKPFITSTLLEKASSMLGLSISEVQSLAQNLFEAGLITYIRTDAESL--SVE 305
Query: 331 FRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT---------GEIPGP 381
F ++ Y P L E K + + + AH AI T +
Sbjct: 306 FLDETESF-----YAPIYKDLYLKREYKAGK-QSQAEAHEAIRITHPHTTEDLESIVYNA 359
Query: 382 GDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYG- 440
++D KLY +I R + + A+ + + F S G+L+++
Sbjct: 360 NITNQDALKLYQLIFERTIESQGKNAIYDKQDLLFKIKNEYFKCSVKGLKSAGFLAMFSK 419
Query: 441 KYIKFDEVTLPE------------FFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMED 488
K ++ DE + I + + + + K P+ Y A +K +E+
Sbjct: 420 KELENDESNDDKDNKEKEQNAQFNLKIDDVLSLNDLVLSTIKRNAPSAYKEADFVKLLEN 479
Query: 489 LGIGTKATRAQILETLYQRGYI----EGKKSIKVTPLGMKVIETLEKYVPEIISVELTRE 544
GIG +T A L TL +R YI + K I T G +V+E E II + T++
Sbjct: 480 KGIGRPSTYASYLPTLVKREYISISQDKKHIITPTHKGKRVVEVFENAYQFIIDLTYTKQ 539
Query: 545 FERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEI 584
E +D I++ K + + I K KI E+ ++ + EI
Sbjct: 540 MEEVLDEIVENKSSYVDFISNLNSKCPKI-EKLERNDDEI 578
>sp|Q08582|TOPG_SULAC REVERSE GYRASE [INCLUDES: HELICASE; TOPOISOMERASE ]
>gi|1076165|pir||A47445 reverse gyrase - Sulfolobus
acidocaldarius >gi|152943|gb|AAA72346.1| (L10651) reverse
gyrase [Sulfolobus acidocaldarius]
Length = 1248
Score = 118 bits (293), Expect = 2e-25
Identities = 151/651 (23%), Positives = 282/651 (43%), Gaps = 108/651 (16%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQ- 60
+L++ E PN A+ I+ S RP + I + YE K L+V ++ GH+Y L +
Sbjct: 626 VLLVVESPNKAKTISSFFS--RPSIRQIGNMRVYETVLGDKVLMVTASGGHVYDLTTQDM 683
Query: 61 DFFGYPIF----DIEWVPVYIA----EKNKDYAK-----------------DYIKALSVL 95
+G I + ++P+Y + E N + D +K+++VL
Sbjct: 684 GIYGVDIMKQNSSLVFIPIYNSIKKCENNHQFTDFFESNKCPRCMTTKVRYDSLKSINVL 743
Query: 96 ---AKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLE 152
A E ++ D DTEGE I + L A S +R +F +T++ +L A N
Sbjct: 744 RNLAVEADEVLIGTDPDTEGEKIAWD-LYLALRPYNSNIRRAEFHEVTRKAILQAI-NQP 801
Query: 153 PTINFGMANAGIARHVLDWYWGVNLSRALT------HAIKRASGKWVV------LSTGRV 200
N + + + R + D + G LS L + +S K + LS GRV
Sbjct: 802 REFNVNLVKSQLVRRIEDRWIGFKLSSILQTRFWPEYCKSLSSNKQLNCNENKNLSAGRV 861
Query: 201 QGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVK 260
Q P L ++V+R E Q + Y+ I++ ++ ++D + + + E+
Sbjct: 862 QTPVLSWIVDRYTEYQRNKSRVYYG---KIDQLQDIVIYVPKQDGVRKNSKIVVVFNEIN 918
Query: 261 KSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRT 320
+ + ++ P P+ TL ++ + FG S +T+ IAQ L+E G +Y RT
Sbjct: 919 QLE----------EEFGPLPPYTTDTLLSDSNNFFGLSAPETMRIAQDLFELGLITYHRT 968
Query: 321 ESQKLPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPT----- 375
+S ++ N + +N + Y ++ KP + AH I PT
Sbjct: 969 DSNRI-SNTGIS-VAENYLKDVLGDKYTNI------FKP-RSWGDGGAHEGIRPTKPIDV 1019
Query: 376 ---------GEIPGPGDLSKDEEKLYDMIVRRFLALFMEP--AVRESVKVTILAGPHKFM 424
GE+ L+ + K+YD+I RRF++ + P +E VK+ + K
Sbjct: 1020 EQLRLLIEEGELELAKRLTNNHFKVYDIIFRRFISSQIIPLKVRKEIVKIELYGENKKEK 1079
Query: 425 LSGARTVKQGWLSVYGKYIKFDEVTLPEF----------FIGERVRVL--------QVRR 466
++ + + + + G + + + +F + ER++ L +
Sbjct: 1080 INSNQNIIE---VITGITLPGIDTEISKFAYVPVRNVSRSVAERLKELGRSIPTDFSIEI 1136
Query: 467 EKKKTKPPAR-YSPAAVIKKMEDLGIGTKATRAQILETLYQRGYI-EGKKSIKVTP--LG 522
K Y+ A ++ +M++ IG +T A I+ T+ +RGY+ E K+ K+ P LG
Sbjct: 1137 SNSFIKSTVNLYTQADLVMEMKNKKIGRPSTYATIIGTILRRGYVLESLKTKKLIPTRLG 1196
Query: 523 MKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKI 573
++V + L + +S + TR+ + MD++ G+ EEV+++ ++ +I
Sbjct: 1197 VEVNKYLNENYGRFVSEDRTRKLLQLMDMVEAGQEKYEEVLKQVYEEINEI 1247
>gb|AAK41237.1| Reverse gyrase (topR-2) [Sulfolobus solfataricus]
Length = 1166
Score = 118 bits (293), Expect = 2e-25
Identities = 155/630 (24%), Positives = 252/630 (39%), Gaps = 98/630 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYE-VFRDGKKLIVASAV---GHL----- 53
L+I E P A+ IA S RP + VP YE + DG ++ V V GH+
Sbjct: 582 LLIVESPTKAKTIAKMFS--RPSVRIRNKVPVYETIIVDGNQIYVLDIVASKGHIVDLTL 639
Query: 54 -----YGLAPKQDFFGYPIFDI---------------EWVPVYIAEKNKDYAKDYIKALS 93
YG+ + D P +D+ + P Y N A+ I L
Sbjct: 640 EDIGYYGIKVEDDGTIKPYYDLIKKCLDCNKIFSSASDKCP-YCGSANLQSAQTTINLLR 698
Query: 94 VLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEP 153
LA V + +A D DTEGE I Y + + S R+ + +TK+ +L A RN +
Sbjct: 699 ELALSVDKVFIASDPDTEGEKIAYDLASFLSPYN-SNVYRVVYHEITKKAILEALRNPKK 757
Query: 154 TINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERER 213
IN + + I R + D + G LS L + GRVQ P L ++V +
Sbjct: 758 -INTNLVMSQIVRRIEDRWIGFTLSNLLKTKFNGHNH-----GAGRVQTPVLGWIVNKTI 811
Query: 214 EIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSK-ARVSNIEVK 272
+ +S + ++ +A Y K +SE+ +K+ + + AR+ I +
Sbjct: 812 KYKSAMGHVVYID-----------IAGYSIKKYFSEK--RKVEEYINNLQVARIEKISEE 858
Query: 273 RQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFR 332
+ +P PF TL EA + + IAQ L+E G +Y RT+S + ++
Sbjct: 859 KILLSPLPPFTTDTLLIEANMKYKLPANLVMKIAQDLFEAGLITYHRTDSTHI-SSVGIE 917
Query: 333 LIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDLSKDEEK-- 390
+ + + + + + + E+ AH AI PT I + + EE
Sbjct: 918 IAKEYLQKQALIKEF---------VPRSWESSEEGAHEAIRPTRAIDVNELIQEIEENPY 968
Query: 391 ------------LYDMIVRRFLALFMEPAVRESVKVTILAGPHK----FMLSGARTVKQG 434
+YD+I +RF+A M AV + I G +LS A
Sbjct: 969 KYSIRFSKLHLLIYDLIFKRFIASQMSHAVGTKSRYLIKLGKDDNVDVELLSNAE----- 1023
Query: 435 WLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTK 494
G +IK V + +GE +Q + K S + VI M+ GIG
Sbjct: 1024 -----GGFIKVYPVKVYNLPVGE----IQPKVNITKGSSEQLLSYSDVISLMKSKGIGRP 1074
Query: 495 ATRAQILETLYQRGYI---EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDL 551
+T A+ +E L + GYI + K + T G+ V + L +++S T K+D
Sbjct: 1075 STYAKTIENLMKHGYIVSSKRKSYLIATNRGISVYQFLSSKFYDLVSESTTSRLMTKLDD 1134
Query: 552 IMQGKLTKEEVIEEAKVKLTKILEEFKKRE 581
I KL V+ E +++ ++ K +
Sbjct: 1135 IALSKLNASTVLLEIFSEISTLVNPLKSEQ 1164
>gb|AAK40747.1| Reverse gyrase (topR-1) [Sulfolobus solfataricus]
Length = 1242
Score = 116 bits (289), Expect = 6e-25
Identities = 164/636 (25%), Positives = 273/636 (42%), Gaps = 96/636 (15%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGL-----A 57
L I E PN A+ I+ S RP ++ + YE + LIVA++ GH+Y L +
Sbjct: 621 LFIVESPNKAKTISNFFS--RPSTRSYGKLRVYETVLGDRVLIVAASGGHIYDLITEDES 678
Query: 58 PKQD---FFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSV-------------------- 94
KQD +G + D +++P+Y K + +K LS
Sbjct: 679 EKQDDNYVYGVLVKDSKFIPIYSTIKKCEKGHQIVKDLSQNKCPICGSRIVTDKTEVVDI 738
Query: 95 ---LAKRVKEFIVACDYDTEGEVIG---YTALKYACGVDPSRAKRMKFSALTKRDLLNAW 148
LA V E ++ D DTEGE I Y A++ G KR +F +T+R +LNA
Sbjct: 739 LRKLALEVDEVLIGTDPDTEGEKIAWDIYLAIRPFNG----NIKRAEFHEVTRRAILNAI 794
Query: 149 RNLEPTINFGMANAGIARHVLDWYWGVNLSRALTH--------AIKRASGKWVV------ 194
+N N + + I R + D + G LSR L +I + + K
Sbjct: 795 KNPRE-FNDNLVKSQIVRRIEDRWIGFKLSRKLQTEFWEQHCTSISKKNSKDEECKENRN 853
Query: 195 LSTGRVQGPTLKFLVEREREIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKK 254
LS GRVQ P L ++V R ++ K L+IE + + +S KK
Sbjct: 854 LSAGRVQTPVLDWVVNRYQKYNENKKK-----YLIIESQDKSIFP-------FSVLALKK 901
Query: 255 I-VTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKG 313
+++ + + +I +K ++ P P+ TL +A + T+ +AQ L+E G
Sbjct: 902 NGLSKNTQIIIHLEDINIKEEEFGPLPPYTTDTLLSDAANLLRIPASDTMRVAQDLFELG 961
Query: 314 FTSYPRTESQKLPKNLNFR-----LIIQNISRMPQYRPYAHLLLGMPE-LKPVEGKKEDP 367
+Y RT+S ++ N+ L + + +RP + G E ++P + E
Sbjct: 962 LITYHRTDSTRV-SNVGISVAETYLKSKQVDISKIFRPRSWGEGGAHEAIRPTKPLDETM 1020
Query: 368 AHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSG 427
+I G++ L+ + ++Y++I RRF+ + P V V I A +
Sbjct: 1021 LKASI-EQGDLELSKQLTFNHFRVYNLIFRRFITSQLPPLVVTKQIVRIRAYTKDNIELE 1079
Query: 428 ARTVKQGWLSVYGKYIKFDEV--TLPEFFIGERVRVLQVRREKKKTKPPAR--------- 476
K+ ++ Y K + DE TL + I R+ Q EK K K +
Sbjct: 1080 LDENKKEFVIGY-KLKEGDEFRQTLQD-AIYTLFRLYQPLDEKMKGKELSATITGTLNKS 1137
Query: 477 ----YSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIEGKKSIK---VTPLGMKVIETL 529
Y+ +I +M+ IG +T A I+ TL +R YI K++K T LGM V E L
Sbjct: 1138 DVQLYTEGELISEMKSKQIGRPSTYAVIISTLKKRRYIIESKNLKKIIPTKLGMAVKEYL 1197
Query: 530 EKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEE 565
+ +I+S + T + KM+ + +GK+ +++E
Sbjct: 1198 MENYKQIVSEKRTVKLLEKMNEVEEGKVDYLVLLKE 1233
>gb|AAA96962.1| (U41058) reverse gyrase A subunit [Methanopyrus kandleri]
Length = 358
Score = 113 bits (279), Expect = 9e-24
Identities = 99/354 (27%), Positives = 172/354 (47%), Gaps = 30/354 (8%)
Query: 245 KIWSEEEAKKIVTEVKKSKARVSNIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLD 304
+I + A+ T ++ +KA V +E + ++ +P PF+ GT+ + A S ++ +
Sbjct: 6 RIRNRPVAESTYTSLRGAKAEVVRVEREEREIHPKPPFETGTMLQAATRRLRLSSERVMQ 65
Query: 305 IAQSLYEKGFTSYPRTESQKLP---KNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVE 361
+AQ L+E G +Y RT+S ++ K + I N Y P PE + VE
Sbjct: 66 LAQDLFEGGLITYHRTDSTRVSEEGKRVRRDYIRANFD-PEDYNPRT----WEPEAEHVE 120
Query: 362 GKKE--DPAHPA-------IYPTGEIPGPGDLSKDEEKLYDMIVRRFLALFMEPA---VR 409
G E P PA + G I L+ +LYD++ RRF+A M+PA +
Sbjct: 121 GAHECIRPTRPADAEELRTMVREGAIQTTVTLTSHHLRLYDLVFRRFVASQMKPAKVLYQ 180
Query: 410 ESV-KVTILAGP-HKFMLSGA-RTVKQGWLSVYGKY--IKFDEVTLPEFFIGERVRVLQV 464
E+V +V + P + LSG V+ G+ V +Y + PE G+R+ + V
Sbjct: 181 EAVLEVEVKGVPVAELELSGVLEIVEPGFTKVLTEYDLPAYGIRETPELEEGDRLEIGAV 240
Query: 465 RREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGY---IEGKKSIKVTPL 521
++ + P Y + +++ M + G+G +T AQI+E L++RGY + ++ I T
Sbjct: 241 EVLERHEEYP--YDQSELVEDMRERGLGRPSTYAQIVEKLFRRGYVYEVPQRRWIFPTTR 298
Query: 522 GMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEEAKVKLTKILE 575
G V E L + +S E TR+ E +MD + GK +E +E+ ++L +++E
Sbjct: 299 GEAVYEYLSTHYERFVSEETTRDLEERMDAVALGKAEYQEEMEKLYLELERVVE 352
>gi|10956211 ORF3 [Streptococcus agalactiae] >gi|2126629|pir||I39479
hypothetical protein 3 - Streptococcus agalactiae
plasmid pIP501 >gi|511076|emb|CAA50900.1| (X72021) ORF3
[Streptococcus agalactiae]
Length = 315
Score = 111 bits (275), Expect = 3e-23
Identities = 85/321 (26%), Positives = 150/321 (46%), Gaps = 38/321 (11%)
Query: 388 EEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYG---KYIK 444
+ K+Y ++V+ +A+F+ + E K+ F G ++GW ++ K K
Sbjct: 5 QRKIYALVVKTTVAMFLPDYLYEETKIQTKVADLLFQSIGKTPKQEGWKILFKQQTKEEK 64
Query: 445 FDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDL--------------- 489
D TLP IGER V V+ +K+T+PP ++ ++ M+
Sbjct: 65 EDVQTLPLVIIGERAEV-GVKSVEKETQPPKAFTEGTLLTAMKTANKTVDDEEAIKILQE 123
Query: 490 --GIGTKATRAQILETLYQRGYIEG-KKSIKVTPLGMKVIETLEKYVPEIISVELTREFE 546
GIGT+ATRA I+E L Q+ YI+ K + VT G + + +E + S E+T ++E
Sbjct: 124 VEGIGTEATRASIIEALKQKEYIQVIKNKLVVTEKGKLLCQAVESQ-HLLTSAEMTAKWE 182
Query: 547 RKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEI-KEEKP 605
+ I + + +E I K + +LE ++ ++ D +++ KE +
Sbjct: 183 TYLKKIGKREGNQENFITNIKKFIVHLLEAVPN-------DIEKLNFSDYQEQKEKEAEK 235
Query: 606 IVVGKCPKCGGDLIVKYNKKTGKRFVGCSNWPKCDVTY-PILQRGEIIPTNKTCCNGAPV 664
+VGKCPKCG ++++K K F GCSN+P+C T ++ ++ TN
Sbjct: 236 SIVGKCPKCGNNIVLK------KSFYGCSNYPECKFTLAEHFRKKKLTKTNVKELLEGKE 289
Query: 665 VIIRDKGRDIEICLDIKCKKW 685
+++ + E L +CK W
Sbjct: 290 TLVKGNQKQREKALQCRCKNW 310
>pir||T29099 reverse gyrase - Sulfolobus shibatae >gi|1679872|emb|CAA67064.1|
(X98420) reverse gyrase [Sulfolobus shibatae]
Length = 1166
Score = 110 bits (273), Expect = 4e-23
Identities = 153/638 (23%), Positives = 252/638 (38%), Gaps = 114/638 (17%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYE-VFRDGKKLIVASAV---GHLYGLAP 58
L+I E P A+ IA S RP + I VP YE + DG ++ V V GH+ L
Sbjct: 582 LLIVESPTKAKTIAKMFS--RPSVRVINKVPVYETIIVDGNQIYVLDVVASKGHIVDLTL 639
Query: 59 KQDFFGYPIFDIEWVPV--------------------------YIAEKNKDYAKDYIKAL 92
+ GY IE+ + Y N A+ I L
Sbjct: 640 ED--IGYYGIKIEYSGIIKPYYDLIKKCLDCNKTFSIASDKCPYCGSTNVQTAQTTINLL 697
Query: 93 SVLAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLE 152
LA V + +A D DTEGE I Y + + S R+ + +TK+ +L A RN
Sbjct: 698 RELALSVDKVFIASDPDTEGEKIAYDLASFLSPYN-SNIYRITYHEITKKAILEALRN-P 755
Query: 153 PTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERE 212
IN + + I R + D + G LS L + GRVQ P L ++V++
Sbjct: 756 MKINTNLVMSQIVRRIEDRWIGFTLSNLLKTKFNGHNH-----GAGRVQTPVLGWIVDKT 810
Query: 213 REIQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVK 272
+ +S + ++ +A Y +SE KK + ++N++V
Sbjct: 811 IKYKSAMGYVVYID-----------IAGYPIKMHFSER---------KKMEEYINNLQVV 850
Query: 273 RQKR--------NPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQK 324
+ ++ +P PF TL EA + + IAQ L+E G +Y RT+S
Sbjct: 851 KIEKIFEEKILLSPLPPFTTDTLLIEANMKYKLPANLVMKIAQDLFEAGLITYHRTDSTH 910
Query: 325 LPKNLNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKEDPAHPAIYPTGEIPGPGDL 384
+ ++ + + + + + + + E+ AH AI PT I +
Sbjct: 911 I-SSVGIEIAKEYLQKQGLIKDF---------VPRSWESSEEGAHEAIRPTRAIDVNELI 960
Query: 385 SKDEEK--------------LYDMIVRRFLALFMEPAV----RESVKVTILAGPHKFMLS 426
+ EE +YD+I RRF+A M AV R +K+ + +LS
Sbjct: 961 QEIEENPYKYSIRFSKLHFLIYDLIFRRFMASQMSHAVGTKSRYLIKLNKNDNINAELLS 1020
Query: 427 GARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKM 486
A G +IK V + +GE ++ + K S + VI M
Sbjct: 1021 NAE----------GGFIKVYPVKVYNLPLGE----VKPKVNTGKGSSEQLLSYSDVISLM 1066
Query: 487 EDLGIGTKATRAQILETLYQRGYI---EGKKSIKVTPLGMKVIETLEKYVPEIISVELTR 543
+ GIG +T A+ +E L + GYI + K + T G+ + L +++S T
Sbjct: 1067 KSKGIGRPSTYAKTIENLVRHGYIVSSKRKSYLIATNRGISAYQFLSSKFYDLVSEGTTA 1126
Query: 544 EFERKMDLIMQGKLTKEEVIEEAKVKLTKILEEFKKRE 581
+ K+D I KL+ V+ E +++ ++ K +
Sbjct: 1127 KLMSKLDDIALSKLSASTVLLEIFSEISTLVNPLKSEQ 1164
>pir||C71129 probable reverse gyrase - Pyrococcus horikoshii
>gi|3257210|dbj|BAA29893.1| (AP000003) 1624aa long
hypothetical reverse gyrase [Pyrococcus horikoshii]
Length = 1624
Score = 108 bits (266), Expect = 3e-22
Identities = 107/390 (27%), Positives = 169/390 (42%), Gaps = 66/390 (16%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+I E PN AR IA + P ++ I + YEV K L + ++ GH++ L + +
Sbjct: 642 LMIVESPNKARTIASFFGQ--PSKRKIGDLTAYEVSIGDKMLTILASGGHMFDLVTNEGY 699
Query: 63 FGY------------PIFD------------IEW----VPVYIAEKNKDYAKDYIKALSV 94
G P++D ++W V +N A + +KA+
Sbjct: 700 HGVLILKNNGKPYFVPVYDTIKRCRDCGHQFVDWEQKGVCPRCGSRNVHDALENVKAMRE 759
Query: 95 LAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPT 154
LA V E ++ D DTEGE I + P+ KR++F +T+ +L A R
Sbjct: 760 LALEVDEILIGTDPDTEGEKIAWDIRNVLAPYAPN-IKRIEFHEVTRPAILRAIREARD- 817
Query: 155 INFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVERERE 214
IN NA + R + D + G LS+ L + + LS GRVQ P L ++V+R +E
Sbjct: 818 INEDRVNAQLVRRIEDRWIGFELSQKLWEVFENRN-----LSAGRVQTPVLGWIVQRYKE 872
Query: 215 IQSFVPKPYWVIKLVIEKNGQKLVANYEKDKIWSEEEAKKIVTEVKKSKARVSNIEVKRQ 274
F + +++E NG + E AK V EV+ V ++ ++ +
Sbjct: 873 ---FTESETDFLGIILE-NGINVTI----------ENAKGEVREVE-----VKDVIIEEK 913
Query: 275 KRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRT-ESQKLPKNLNFRL 333
NP P+ T+ ++A GFS KT+ +AQ L+E G P T S + + R
Sbjct: 914 DVNPLPPYTTDTMLQDASRFLGFSATKTMQLAQDLFEAGLCVTPDTLVSLSDGRIIEIRE 973
Query: 334 IIQNISRMPQYRPYAHLLLGMPELKPVEGK 363
++N LLG+ LKP E K
Sbjct: 974 AVENSEES---------LLGINGLKPKEAK 994
Score = 94.0 bits (230), Expect = 5e-18
Identities = 71/222 (31%), Positives = 120/222 (53%), Gaps = 30/222 (13%)
Query: 365 EDPAHPAIYPT--------------GEIPGPGDLSKDEEKLYDMIVRRFLALFMEPAVRE 410
E+ AH AI PT G I P +L++D +LYD+I RRF+A M+PA +
Sbjct: 1402 EEGAHEAIRPTRPIDTGRLIQLIRDGIITIPKNLTRDHFRLYDLIFRRFMASQMKPA-KI 1460
Query: 411 SVKVTILAGPHKFMLSGARTVKQGWLSV-YGKYIKFDEVTL---PEFFIGERVRVLQVRR 466
+ I++ P K + +G++ V Y + K + L P+ G+R+RV +V++
Sbjct: 1461 LYEKAIISTPFKDV------EVEGYIDVLYDGWSKIKSLPLRQIPKLEKGQRLRVKEVKQ 1514
Query: 467 EKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYI---EGKKSIKVTPLGM 523
+ + Y+ VI M++ GIG +T A+I++TL QRGY+ +GKK + T G+
Sbjct: 1515 WR--APKVSLYTQGDVIALMKERGIGRPSTYAKIVQTLLQRGYVIETKGKKKLVPTEKGI 1572
Query: 524 KVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIEE 565
KV + L +++S E TR+ E+ MD++ + K ++V+ E
Sbjct: 1573 KVYQYLITKYKDLVSEERTRQLEKIMDMVEEAKADYQDVLNE 1614
>pir||G64488 reverse gyrase (intein-containing) - Methanococcus jannaschii
>gi|1500401|gb|AAB99531.1| (U67592) reverse gyrase,
intein containing (rgy) [Methanococcus jannaschii]
Length = 1613
Score = 105 bits (260), Expect = 1e-21
Identities = 103/356 (28%), Positives = 153/356 (42%), Gaps = 71/356 (19%)
Query: 2 ILVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQD 61
+L++ E PN AR IA +P + I YEV LI+ ++ GH++ L K+
Sbjct: 551 VLMVVESPNKARTIANFFG--KPSVRKINNRNVYEVCIGDLNLIITASGGHVFDLVTKEG 608
Query: 62 FFGYPIFDIEWVPVYIAEKN---------KDY------------------AKDYIKALSV 94
F+G I + ++P+Y + K KD AK+ I+ +
Sbjct: 609 FYGVKIENNLYIPIYTSIKKVNGEQFTDQKDLEELIKQLMEKGERVNAMDAKENIEIIRE 668
Query: 95 LAKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNAWRNL--- 151
+A V +A D DTEGE IGY A + + R+ F+ +TKR +L A +
Sbjct: 669 IADEVDAIFIATDIDTEGEKIGYDIAINALPFNRN-IYRVGFNEITKRAILKAVESFKKG 727
Query: 152 -EPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVE 210
E +++ + R + D + G LS+ L + LS GRVQ P L +++E
Sbjct: 728 EELSLDENKVKGQVVRRIEDRWIGFRLSQKLWEVFNKN-----YLSAGRVQTPVLGWIIE 782
Query: 211 REREIQSFVPKPYWVIKLVIEKNGQKLVANYEKD----KIWSEEEAKKIVTEVKKSKARV 266
R E + + PY +KL E D KIW +E K V
Sbjct: 783 RYNEHK--IKVPYLSLKL-------------ENDIYIGKIWEDEFDKDEV---------- 817
Query: 267 SNIEVK-RQKRNPPVP-FDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRT 320
+EVK +K PP+P F TL EA FG S + + IAQ L+E G P T
Sbjct: 818 -EVEVKVYEKEIPPLPPFTTDTLLEEATKRFGLSTDEIMSIAQELFELGLCLTPDT 872
Score = 80.8 bits (196), Expect = 5e-14
Identities = 62/194 (31%), Positives = 98/194 (49%), Gaps = 13/194 (6%)
Query: 384 LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVK-QGWLSVYGKY 442
L+K+ K+YD+I RRF+A M+ AV E ++ I K + G +K GW +Y
Sbjct: 1428 LTKNHIKVYDLIFRRFIASQMKEAVVEYEEIYIKDLDEK--VEGYVDIKFDGWSRIYNLK 1485
Query: 443 IKFDEVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILE 502
+K LP E+ + + ++ +K Y V+K M++ GIG +T AQI++
Sbjct: 1486 LK----KLPRI---EKSSLKVLDKKLRKIPKVPLYDEGEVVKLMKERGIGRPSTYAQIIK 1538
Query: 503 TLYQRGYI---EGKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTK 559
L RGY+ + K + T LG++V L P +IS E TRE E MD I G++
Sbjct: 1539 KLLDRGYVVKSKDKNKLIPTKLGIEVYNYLINNYPHLISEERTRELEEIMDKIENGEVDY 1598
Query: 560 EEVIEEAKVKLTKI 573
EV++ ++ I
Sbjct: 1599 IEVLKALHEEILSI 1612
>pdb|1CYY|B Chain B, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Hexagonal Form >gi|7245306|pdb|1CYY|A
Chain A, Crystal Structure Of The 30 Kda Fragment Of E.
Coli Dna Topoisomerase I. Hexagonal Form
>gi|7245304|pdb|1CY9|A Chain A, Crystal Structure Of The
30 Kda Fragment Of E. Coli Dna Topoisomerase I.
Monoclinic Form >gi|7245305|pdb|1CY9|B Chain B, Crystal
Structure Of The 30 Kda Fragment Of E. Coli Dna
Topoisomerase I. Monoclinic Form
Length = 264
Score = 96.7 bits (237), Expect = 7e-19
Identities = 82/275 (29%), Positives = 130/275 (46%), Gaps = 26/275 (9%)
Query: 218 FVPKPYWVIKL-VIEKNGQKLV--ANYEKDKIW---SEEEAKKIVTEVKKSKARVSNIEV 271
FVP+ +W + +G+ L ++ DK + ++E+ + V+ ++K++ V E
Sbjct: 1 FVPEEFWEVDASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKARYSVLERED 60
Query: 272 KRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPK---N 328
K P PF TLQ+ A + GF KKT+ +AQ LYE G+ +Y RT+S L + N
Sbjct: 61 KPTTSKPGAPFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRTDSTNLSQDAVN 120
Query: 329 LNFRLIIQNISRMPQYRPYAHLLLGMPELKPVEGKKED--PAHPAIYPTG---EIPGPGD 383
+ I N + +Y +PE KE+ AH AI P+ D
Sbjct: 121 MVRGYISDNFGK--KY---------LPESPNQYASKENSQEAHEAIRPSDVNVMAESLKD 169
Query: 384 LSKDEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYI 443
+ D +KLY +I R+F+A M PA +S +T+ AG + G GW V
Sbjct: 170 MEADAQKLYQLIWRQFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDGWTKVMPALR 229
Query: 444 KFDE-VTLPEFFIGERVRVLQVRREKKKTKPPARY 477
K DE LP G+ + ++++ + TKPPAR+
Sbjct: 230 KGDEDRILPAVNKGDALTLVELTPAQHFTKPPARF 264
>pir||I40191 DNA topoisomerase I - Bacillus firmus >gi|39485|emb|CAA78485.1|
(Z14112) DNA topoisomerase I [Bacillus firmus]
Length = 238
Score = 91.7 bits (224), Expect = 2e-17
Identities = 68/228 (29%), Positives = 114/228 (49%), Gaps = 22/228 (9%)
Query: 290 EAYSAFGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPKNLNFRLIIQNISRMPQYRPYAH 349
+A +AFGF P +TL AQSLY+KG+ SYPRT+ +++ ++ + R + NI + + +
Sbjct: 2 DAGNAFGFKPAETLKYAQSLYDKGYLSYPRTQDERITES-DARELENNIQFLSGH-DTSG 59
Query: 350 LLLGMPELKPVEGKK---EDPAHPAIYPTGEIPGPGDLSKDEEKLYDMIVRRFLAL-FME 405
L +P + K+ E H A+ T +IP DLS+DE+ +Y ++V+R LA + +
Sbjct: 60 ALFPLPVSTLMNNKRYIGEVTDHHALLITDKIPKDKDLSEDEKSIYHLVVKRILAAHYPD 119
Query: 406 PAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPEFFIGERVRVLQVR 465
A+ +T + F G + +G + +++ LP G V
Sbjct: 120 VAMSHKEIITKVMDRFTFRSKGKELLSKGRHHIIPP-TNENDIMLPTLLKGSEGVVTDTL 178
Query: 466 REKKKTKPPARYSPAAVI---------------KKMEDLGIGTKATRA 498
K KTKPP RY+ +++I K + +L +GT+ATRA
Sbjct: 179 TTKSKTKPPNRYTSSSLIGFMKNAAQAIEDEDRKSISNLPLGTEATRA 226
>pir||H64574 DNA topoisomerase I - Helicobacter pylori (strain 26695)
>gi|2313542|gb|AAD07502.1| (AE000559) DNA topoisomerase
I (topA) [Helicobacter pylori 26695]
Length = 677
Score = 86.2 bits (210), Expect = 1e-15
Identities = 129/537 (24%), Positives = 225/537 (41%), Gaps = 66/537 (12%)
Query: 86 KDYIKALSVL--AKRVKEFIVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRD 143
+D K ++ L A R K+ +A D D EG IGY + V S R +F +T
Sbjct: 52 EDKAKKINFLINACRDKKVYIATDPDREGYGIGYQFYEKIKNV-ASEIYRAEFHEITPSG 110
Query: 144 LLNAWRN--LEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQ 201
+ + +N L N + + + R D G L+ L ++ + LS GRVQ
Sbjct: 111 IESGLKNAVLFSRSNTNLYQSFLGRIASDQVVGFALTSYLRKSLNLSE-----LSAGRVQ 165
Query: 202 GPTLKFLVEREREIQSF-----VPKPYWVIKLVIEKNGQKLVANY----EKD-----KIW 247
P L + +R++EI+ F K + I+ I N ++ + + EK+ K
Sbjct: 166 TPALALICQRDQEIRDFDKLDAEEKVEYQIQANIVCNEKEAIIKHVRANEKNELVDFKFK 225
Query: 248 SEEEAKKIVTEVKKSKARVS---NIEVKRQKRNPPVPFDLGTLQREAYSAFGFSPKKTLD 304
+ EA + + ++K +S +++ + P PF L +A + K+
Sbjct: 226 DKNEASQFLKDLKDGLGSMSVLVSLKESLSNKEPKKPFTTSKLLSQASKSLKIPTKEIAQ 285
Query: 305 IAQSLYEKGFTSYPRTESQKL-PKNLN-----FRLIIQNISRMPQYRPYAHLLLGMPELK 358
+AQ L+E G +Y RT+S+ L P+ L F I ++ + +Y+ + E
Sbjct: 286 LAQKLFEAGLITYHRTDSEFLSPEYLKEHEVFFEPIYPSVYQYREYKAGKNSQAEAHEAI 345
Query: 359 PVEGKKEDPAHP-AIYPTGEIPGPGDLSKD-EEKLYDMIVRRFLALFMEPAVRESVKVTI 416
+ HP A+ ++ +S++ KLY +I + A+
Sbjct: 346 RI-------THPHALKDLEKVCSDAKISEELALKLYQLIYTNTICSQSRNALYNQYDCIF 398
Query: 417 LAGPHKFMLSGARTVKQGWLSVYGKYIKFDEVTLPE-------FFIGER--VRVLQVRRE 467
F LS ++G+L + +E+ E F + E V + +V +
Sbjct: 399 KIKSESFKLSFKLLKEKGFLEIEELIQGKEEINREEQESEIENFSLKENDSVPLKEVFIK 458
Query: 468 KKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQRGYIE-GKKSIKVTPL--GMK 524
K + P Y +A I +E GIG +T A L+ L +R YI K+ +TP G++
Sbjct: 459 KIEKPSPKPYKESAFIPLLESEGIGRPSTYASFLDLLLKRKYISIDTKTNAITPTSQGLE 518
Query: 525 VIETLEKYVPEIISVEL-----------TREFERKMDLIMQGKLTKEEVIEEAKVKL 570
VI +K E+ + L T++FE +DLIM+G+ + E+ + E KL
Sbjct: 519 VISFFKK-DKEVDFIALTSKDKSKLGNTTKQFEECLDLIMRGEASYEKFMLEVISKL 574
>pir||F71871 topoisomerase I - Helicobacter pylori (strain J99)
>gi|4155496|gb|AAD06496.1| (AE001521) topoisomerase I
[Helicobacter pylori J99]
Length = 425
Score = 82.3 bits (200), Expect = 2e-14
Identities = 75/273 (27%), Positives = 127/273 (46%), Gaps = 22/273 (8%)
Query: 71 EWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIV--ACDYDTEGEVIGYTALKYACGVDP 128
E+ P++ +K+ D KD ++ + + K+ +V A D D EG IGY + +
Sbjct: 45 EFNPIFEIKKSTDKKKDRSTHINHMINQCKDKVVYIATDPDREGYGIGYKFYEKIKNLAK 104
Query: 129 SRAKRMKFSALTKRDLLNAWRN--LEPTINFGMANAGIARHVLDWYWGVNLSRALTHAIK 186
+ R +F +TK + N L N + + + R V D + G L+ L IK
Sbjct: 105 T-IYRTEFHEITKSGVEKGLNNAGLFSQSNLNLYYSWLGRIVSDQFIGFTLTPYLRKNIK 163
Query: 187 RASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPY-----WVIKLVIEKNGQK----L 237
+ GRVQ P L LVE +R+IQ+F K + I+ +I+ G + L
Sbjct: 164 NFE-----VGAGRVQTPALSILVELDRKIQAFEQKNNDEKLSYSIEAIIDALGSQISITL 218
Query: 238 VANYEKDKIWSEEEAKKIVTEVKKSK---ARVSNIEVKRQKRNPPVPFDLGTLQREAYSA 294
V ++ ++E A+ + ++K + A + IE K +++ PP PF L ++
Sbjct: 219 VEENKRKAFETKELAQNFLNDLKNNLNPLAFLDAIEQKDKEKAPPKPFTTSNLLKDGARI 278
Query: 295 FGFSPKKTLDIAQSLYEKGFTSYPRTESQKLPK 327
G K+ + AQ L+E G +Y RT+S+ L K
Sbjct: 279 LGMGVKQIQEHAQKLFEAGLITYIRTDSEALSK 311
>gi|10956466 pXO2-77 [Bacillus anthracis] >gi|6470227|gb|AAF13681.1|AF188935_79
(AF188935) pXO2-77 [Bacillus anthracis]
Length = 266
Score = 79.2 bits (192), Expect = 1e-13
Identities = 63/230 (27%), Positives = 109/230 (47%), Gaps = 10/230 (4%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+IAEKP+ A+ A + + F + + +G + GHL L QD+
Sbjct: 4 LIIAEKPSQAKAYTEAFPKAEK-KDGYFSIAPCSLMPNGAN--ITWGYGHLVELKAPQDY 60
Query: 63 FG-YPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKE---FIVACDYDTEGEVIGYT 118
+ +D+ +P+ + D K +++ K +KE +A D D EGE I
Sbjct: 61 KAEWEKWDMSQLPILPERYGYKVSADKRKQFNIVKKLMKEADCITIATDIDREGEAIARL 120
Query: 119 ALKYACGVDPSRAKRMKFSALTKRDLLNAWRNLEPTINF-GMANAGIARHVLDWYWGVNL 177
++ A G + KR+ ++L ++ ++NL+ F M AR + DW G+N
Sbjct: 121 IIQEA-GCSSKKLKRLWINSLEVDEIKKGFQNLKEGSEFESMFAEAQARQISDWAIGMNA 179
Query: 178 SRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWVIK 227
SR T + R G V S GRVQ P L + +R+++I++F P P++ ++
Sbjct: 180 SRLYT-LLLRQKGVQGVYSVGRVQTPVLCLINQRQQDIKNFKPSPFFELE 228
>gb|AAD15404.1| (AC006223) putative DNA topoisomerase III beta [Arabidopsis
thaliana]
Length = 836
Score = 75.3 bits (182), Expect = 2e-12
Identities = 48/196 (24%), Positives = 95/196 (47%), Gaps = 10/196 (5%)
Query: 387 DEEKLYDMIVRRFLALFMEPAVRESVKVTILAGPHKFMLSGARTVKQGWLSVYGKYIKFD 446
D +LY + + FL KV + G F +G R ++G+ ++ + D
Sbjct: 370 DAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIM-PWSAVD 428
Query: 447 EVTLPEFFIGERVRVLQVRREKKKTKPPARYSPAAVIKKMEDLGIGTKATRAQILETLYQ 506
E LP F GER+ VL+V + T PP + + +I ME GIGT A+ A + + +
Sbjct: 429 EKKLPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGE 488
Query: 507 RGYIEGKKSIKVTP--LGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIE 564
R Y++ + K+ P LG+ +I + P++ ++ E+++ L+ +G+ V++
Sbjct: 489 RNYVQVQSGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIEQQITLVAKGQADHSHVVQ 548
Query: 565 EAKVKLTKILEEFKKR 580
++++F+++
Sbjct: 549 H-------VIQQFRRK 557
Score = 71.4 bits (172), Expect = 3e-11
Identities = 82/297 (27%), Positives = 136/297 (45%), Gaps = 46/297 (15%)
Query: 5 IAEKPNVARKIAGALSE-RRPIRKTIFGVPYYE-VFRDGKKLI-VASAVGHLYGL----- 56
+AEKP++A IA LS + R+ V ++ +FR K V S +GH++ +
Sbjct: 40 VAEKPSIALSIASVLSHGQMSTRRGSTEVHEFDGMFRGFKAHYRVTSVIGHVFSVDFPEK 99
Query: 57 ------APKQDFFGYPIFDIEWVPVYIAEKNKDYAKDYIKALSVLAKRVKEFIVACDYDT 110
QD F PI E P K++ + + LS A+ ++ D D
Sbjct: 100 YQNWATIDPQDLFDAPIIKKESNPKVNIFKSQAHI---CRHLSNEARGCSYMVLWLDCDR 156
Query: 111 EGEVIGYTALKYACGVDPSRAKRM----KFSALTKRDLLNAWRNL-EPTINFGMANAGIA 165
EGE I + ++ + G D +KR +FS++T++D+ A NL EP N A A A
Sbjct: 157 EGENICFEVIE-STGFDMKDSKRKVYRARFSSVTEKDISKAMDNLVEP--NRDEALAVDA 213
Query: 166 RHVLDWYWGVNLSRALTHAIKRASGKWVVLSTGRVQGPTLKFLVEREREIQSFVPKPYWV 225
R +D +N V G Q PTL F V+R I +F P+ +W
Sbjct: 214 RQEIDLKILLN----------------VYFRYGPCQTPTLGFCVQRYMHINTFKPEKFWA 257
Query: 226 IKLVIEKNGQKLVANYEKDKIWSEEEA---KKIVTEVKKSKARVSNIEVKRQKRNPP 279
++ I K+G +L +E+ +++ E A +K+V E + A+V ++ K++ + P
Sbjct: 258 LRPYIRKDGYELQLEWERRRLFDLEAATVFQKLVVEGR--TAKVMDVSEKQEVKGRP 312
>pir||T18550 reverse gyrase chain B homolog rgyB - Methanopyrus kandleri
>gi|1173903|gb|AAA96963.1| (U41059) reverse gyrase B
subunit [Methanopyrus kandleri]
Length = 1221
Score = 73.7 bits (178), Expect = 6e-12
Identities = 63/221 (28%), Positives = 94/221 (42%), Gaps = 31/221 (14%)
Query: 3 LVIAEKPNVARKIAGALSERRPIRKTIFGVPYYEVFRDGKKLIVASAVGHLYGLAPKQDF 62
L+I E PN AR IA S+R P R+ + G YE DG L V + GH+ L +
Sbjct: 781 LMIVESPNKARMIASLFSQR-PSRRRLNGGVAYEAAADGLHLTVVATQGHVADLVEEPGV 839
Query: 63 FGYPIFDIEWVPVY--------IAEK------------NKDYAKDYIKALSVLAKRVKEF 102
G D WVP+Y E+ + ++++ LA
Sbjct: 840 HGVLRIDERWVPMYDVLGRCSECGEQVVGSEECPNCGGEVELKTPLLESIRELASEADVI 899
Query: 103 IVACDYDTEGEVIGYTALKYACGVDPSRAKRMKFSALTKRDLLNA-----WRNLEPTINF 157
++ D DTEGE IG+ Y G ++ R +F +T+R + A W+N ++
Sbjct: 900 LIGTDPDTEGEKIGWDVFNY-LGWTTAQVYRTEFHEVTRRGISEALKEESWKN----VDA 954
Query: 158 GMANAGIARHVLDWYWGVNLSRALTHAIKRASGKWVVLSTG 198
G +A I R V D + G +LS+ L K K L +G
Sbjct: 955 GRVSAQILRRVADRWIGFSLSQDLWDVFKHLEIKLGELPSG 995
>gb|AAA03398.1| (U02242) unknown [Mycoplasma genitalium]
Length = 131
Score = 71.8 bits (173), Expect = 2e-11
Identities = 41/135 (30%), Positives = 69/135 (50%), Gaps = 17/135 (12%)
Query: 506 QRGYIE-GKKSIKVTPLGMKVIETLEKYVPEIISVELTREFERKMDLIMQGKLTKEEVIE 564
+RGY + +T LG KV L K+ +I+ E T++ E+ +D I + K+ +E ++
Sbjct: 2 ERGYANLVNRFFYITELGEKVNNELSKHFGNVINKEFTKKMEKSLDEIAENKVNYQEFLK 61
Query: 565 EAKVKLTKILEEFKKRELEIGLELARIVVGDVKDEIKEEKPIVVGKCPKCGGDLIVKYNK 624
+ T + K E I ++K+EK +V CPKC L+ +Y K
Sbjct: 62 QF---WTNFKSDVKLAENSI-------------QKVKKEKELVERDCPKCNQPLVYRYTK 105
Query: 625 KTGKRFVGCSNWPKC 639
+ ++FVGCS++PKC
Sbjct: 106 RGNEKFVGCSDFPKC 120
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: 257598282
Number of Sequences: 2977
Number of extensions: 11371726
Number of successful extensions: 37223
Number of sequences better than 1.0e-10: 112
Number of HSP's better than 0.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 98
Number of HSP's that attempted gapping in prelim test: 36525
Number of HSP's gapped (non-prelim): 197
length of query: 685
length of database: 189,106,746
effective HSP length: 57
effective length of query: 628
effective length of database: 154,992,987
effective search space: 97335595836
effective search space used: 97335595836
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: 168 (69.9 bits)