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= PAB1464 (RPOM) DE:DNA-DIRECTED RNA POLYMERASE SUBUNIT M (EC
2.7.7.6).
(110 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||H75048 DNA-directed RNA polymerase (EC 2.7.7.6) chain M PAB... 249 1e-65
pir||A71112 probable transcription-associated protein - Pyrococc... 243 5e-64
sp|Q56254|RPOM_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|4... 175 2e-43
pir||A55263 transcription-associated protein - Thermococcus celer 171 3e-42
sp|Q58548|RPOM_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|2... 127 3e-29
emb|CAB66386.1| (AJ271332) archaeal transcription factor S [Meth... 111 3e-24
sp|Q07271|RPOM_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT M 109 1e-23
pir||S33694 transcription elongation factor tfIIs - Sulfolobus a... 109 1e-23
gb|AAK40629.1| DNA-directed RNA polymerase, subunit M (rpoM-1) [... 106 7e-23
sp|O27369|RPOM_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|7... 106 7e-23
pdb|1QYP| Thermococcus Celer Rpb9, Nmr, 25 Structures 99 2e-20
pir||G72738 probable DNA-directed RNA polymerase subunit M APE04... 98 4e-20
gi|11498834 transcription-associated protein TFIIS [Archaeoglobu... 94 4e-19
emb|CAC12135.1| (AL445066) probable transcription-associated pro... 88 4e-17
gb|AAG19974.1| (AE005079) Vng1743c [Halobacterium sp. NRC-1] 82 2e-15
pir||E71618 Zn-ribbon transcription factor (TFIIS family) PFB029... 75 2e-13
gb|AAF57437.1| (AE003791) CG10438 gene product [Drosophila melan... 75 4e-13
sp|O13896|RPCZ_SCHPO DNA-DIRECTED RNA POLYMERASES III 12.5 KDA P... 74 5e-13
gi|6320250 TFIIS-like small Pol III subunit C11; Rpc11p [Sacchar... 73 1e-12
gb|AAD15481.1| (AC006266) putative DNA-directed RNA polymerase s... 67 7e-11
gb|AAG18974.1| (AE004998) DNA-directed RNA-polymerase subunit M;... 67 7e-11
gi|7706499 RNA polymerase III subunit (hRPC11) [Homo sapiens] >g... 67 9e-11
gb|AAF97332.1|AC023628_13 (AC023628) Similar to DNA-directed RNA... 67 9e-11
>pir||H75048 DNA-directed RNA polymerase (EC 2.7.7.6) chain M PAB1464 -
Pyrococcus abyssi (strain Orsay)
>gi|5458798|emb|CAB50285.1| (AJ248287) DNA-DIRECTED RNA
POLYMERASE SUBUNIT M (EC 2.7.7.6). [Pyrococcus abyssi]
Length = 110
Score = 249 bits (628), Expect = 1e-65
Identities = 110/110 (100%), Positives = 110/110 (100%)
Query: 1 MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD
Sbjct: 1 MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE
Sbjct: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
>pir||A71112 probable transcription-associated protein - Pyrococcus horikoshii
>gi|3257072|dbj|BAA29755.1| (AP000003) 110aa long
hypothetical transcription-associated protein
[Pyrococcus horikoshii]
Length = 110
Score = 243 bits (614), Expect = 5e-64
Identities = 104/110 (94%), Positives = 110/110 (99%)
Query: 1 MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
MVKFCP+CGSIMIPDKKRGVFVCR+CGYEEPINPEDAKAY+RTEE+KHKPDEGVIV+EQD
Sbjct: 1 MVKFCPRCGSIMIPDKKRGVFVCRKCGYEEPINPEDAKAYRRTEEIKHKPDEGVIVIEQD 60
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
FSTLPTAKVTCPKCGYHEAWYWE+QTRAGDEPSTIFYKCKRCGYVWRSYE
Sbjct: 61 FSTLPTAKVTCPKCGYHEAWYWEVQTRAGDEPSTIFYKCKRCGYVWRSYE 110
>sp|Q56254|RPOM_THECE DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|443693|gb|AAA72052.1|
(L27650) RNA polymerase [Thermococcus celer]
Length = 110
Score = 175 bits (439), Expect = 2e-43
Identities = 73/110 (66%), Positives = 91/110 (82%), Gaps = 1/110 (0%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPE-DAKAYKRTEEVKHKPDEGVIVVEQD 60
+KFCPKCG++M+PD+KR V+VCR CGYEEP + E D + +EVKHKPDEG++V+EQD
Sbjct: 1 MKFCPKCGNLMLPDRKRKVWVCRSCGYEEPFDEEKDREKTVIKQEVKHKPDEGIVVIEQD 60
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
TLPT K+TCPKCG A++WE+QTRAGDEPSTIFYKC +CG+ WRSYE
Sbjct: 61 LKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSYE 110
>pir||A55263 transcription-associated protein - Thermococcus celer
Length = 110
Score = 171 bits (428), Expect = 3e-42
Identities = 72/110 (65%), Positives = 90/110 (81%), Gaps = 1/110 (0%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPE-DAKAYKRTEEVKHKPDEGVIVVEQD 60
+KFCPKCG++M+PD+KR V+V R CGYEEP + E D + +EVKHKPDEG++V+EQD
Sbjct: 1 MKFCPKCGNLMLPDRKRKVWVXRSCGYEEPFDEEKDREKTVIKQEVKHKPDEGIVVIEQD 60
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
TLPT K+TCPKCG A++WE+QTRAGDEPSTIFYKC +CG+ WRSYE
Sbjct: 61 LKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSYE 110
>sp|Q58548|RPOM_METJA DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|2129313|pir||C64443
transcription-associated protein 'TFIIS' homolog -
Methanococcus jannaschii >gi|1591780|gb|AAB99148.1|
(U67557) transcription-associated protein ('TFIIS')
[Methanococcus jannaschii]
Length = 108
Score = 127 bits (317), Expect = 3e-29
Identities = 52/110 (47%), Positives = 74/110 (67%), Gaps = 2/110 (1%)
Query: 1 MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
MVKFCPKC ++M+P K G C CGYEE E +K Y+ E +++K ++ ++ +
Sbjct: 1 MVKFCPKCNNLMLP--KDGKLKCAVCGYEEETTAEGSKEYEYKEHLENKKEKITVIESEG 58
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
TLPT ++ CPKCG++EA++W QTR DEP T FYKCK+CG+ WR Y+
Sbjct: 59 LETLPTTRIECPKCGHNEAYWWLQQTRCADEPETRFYKCKKCGHTWREYD 108
>emb|CAB66386.1| (AJ271332) archaeal transcription factor S [Methanococcus
thermolithotrophicus]
Length = 105
Score = 111 bits (275), Expect = 3e-24
Identities = 51/110 (46%), Positives = 69/110 (62%), Gaps = 5/110 (4%)
Query: 1 MVKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
MV+FCPKC +IM+P K G C CG+EE + + Y+ E+++ K E + V +D
Sbjct: 1 MVEFCPKCNNIMLP--KNGRLKCTVCGFEEELGNR-TEEYELKEKIEAKKQE--VTVIED 55
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
TLPT ++ CP CG EA +W QTR DEP T FYKCK+CG+ WR Y+
Sbjct: 56 VDTLPTTRIECPSCGNMEASWWLQQTRCADEPETRFYKCKKCGHTWREYD 105
>sp|Q07271|RPOM_SULAC DNA-DIRECTED RNA POLYMERASE SUBUNIT M
Length = 202
Score = 109 bits (270), Expect = 1e-23
Identities = 52/115 (45%), Positives = 71/115 (61%), Gaps = 8/115 (6%)
Query: 1 MVKFCPKCGSIMIPDKKRG--VFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVE 58
++KFCPKCGS+M+P K+ G V+ C +C Y I+ E+ K K T +KH +V+
Sbjct: 91 VMKFCPKCGSMMMPRKENGKTVYKCSKCAY---IDTENQKEAKITTVIKHSAKAKTLVLA 147
Query: 59 QDF---STLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
D T ++CP CG EA++W LQTR+ DEP+T FYKC +CG VWR YE
Sbjct: 148 SDMPNPGVQLTRGISCPSCGNDEAYFWILQTRSADEPATRFYKCTKCGKVWREYE 202
>pir||S33694 transcription elongation factor tfIIs - Sulfolobus acidocaldarius
>gi|642273|emb|CAA50073.1| (X70805) transcription
associated protein [Sulfolobus acidocaldarius]
Length = 111
Score = 109 bits (269), Expect = 1e-23
Identities = 52/114 (45%), Positives = 70/114 (60%), Gaps = 8/114 (7%)
Query: 2 VKFCPKCGSIMIPDKKRG--VFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQ 59
+KFCPKCGS+M+P K+ G V+ C +C Y I+ E+ K K T +KH +V+
Sbjct: 1 MKFCPKCGSMMMPRKENGKTVYKCSKCAY---IDTENQKEAKITTVIKHSAKAKTLVLAS 57
Query: 60 DF---STLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
D T ++CP CG EA++W LQTR+ DEP+T FYKC +CG VWR YE
Sbjct: 58 DMPNPGVQLTRGISCPSCGNDEAYFWILQTRSADEPATRFYKCTKCGKVWREYE 111
>gb|AAK40629.1| DNA-directed RNA polymerase, subunit M (rpoM-1) [Sulfolobus
solfataricus]
Length = 114
Score = 106 bits (263), Expect = 7e-23
Identities = 54/115 (46%), Positives = 69/115 (59%), Gaps = 8/115 (6%)
Query: 1 MVKFCPKCGSIMIPDKKRG--VFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVE 58
+VKFCPKC S+M+P K G V+ C +CGYE+ + PE T +VKH E +V+E
Sbjct: 3 VVKFCPKCNSMMVPKKSNGKNVYRCTKCGYEKEV-PETTIVV--TSKVKHSIKEKTLVLE 59
Query: 59 QDFSTLPTAK---VTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
++ K V CP C EA++W LQTR DEP T FYKC +CG VWR YE
Sbjct: 60 EEEMPSGAQKIKGVLCPSCKNDEAYFWILQTRRADEPPTRFYKCTKCGKVWREYE 114
>sp|O27369|RPOM_METTH DNA-DIRECTED RNA POLYMERASE SUBUNIT M >gi|7447276|pir||F69041
transcription elongation factor TFIIS - Methanobacterium
thermoautotrophicum (strain Delta H)
>gi|2622419|gb|AAB85792.1| (AE000895) transcription
elongation factor TFIIS [Methanobacterium
thermoautotrophicum]
Length = 136
Score = 106 bits (263), Expect = 7e-23
Identities = 50/109 (45%), Positives = 70/109 (63%), Gaps = 5/109 (4%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDF 61
++FCPKCG++M P + G F C+ CGYE+ I + Y+ +EEV+ K E +I D
Sbjct: 33 MEFCPKCGAVMFPSE--GKFKCQ-CGYEKDITDKLKDKYRVSEEVEAK--ETIIFTGDDV 87
Query: 62 STLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
+TLPT +V CPKCG EA++W QTR DE T F++C RC + WR Y+
Sbjct: 88 NTLPTTRVECPKCGNMEAFWWLQQTRRADESETRFFRCTRCKHTWREYD 136
>pdb|1QYP| Thermococcus Celer Rpb9, Nmr, 25 Structures
Length = 57
Score = 98.7 bits (242), Expect = 2e-20
Identities = 39/54 (72%), Positives = 46/54 (84%)
Query: 57 VEQDFSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
+EQD TLPT K+TCPKCG A++WE+QTRAGDEPSTIFYKC +CG+ WRSYE
Sbjct: 4 MEQDLKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRSYE 57
>pir||G72738 probable DNA-directed RNA polymerase subunit M APE0442 - Aeropyrum
pernix (strain K1) >gi|5104087|dbj|BAA79403.1|
(AP000059) 104aa long hypothetical DNA-directed RNA
polymerase subunit M [Aeropyrum pernix]
Length = 104
Score = 97.9 bits (240), Expect = 4e-20
Identities = 41/98 (41%), Positives = 61/98 (61%), Gaps = 3/98 (3%)
Query: 15 DKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDF---STLPTAKVTC 71
D R + VC+ CGY E + ED +AY+ V+ P + ++V++ + + + VTC
Sbjct: 6 DGARYLLVCKSCGYSEEASREDHQAYRMRVTVEKGPRDKIVVIDDETPVGAQVLKGSVTC 65
Query: 72 PKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSY 109
PKCG+ E ++W +QTR+ DEP T FY+CKRC Y WR Y
Sbjct: 66 PKCGHDEVYFWMMQTRSADEPMTRFYRCKRCRYTWREY 103
>gi|11498834 transcription-associated protein TFIIS [Archaeoglobus fulgidus]
>gi|3287902|sp|O29033|RPOM_ARCFU DNA-DIRECTED RNA
POLYMERASE SUBUNIT M >gi|7447277|pir||B69404
transcription-associated protein TFIIS homolog -
Archaeoglobus fulgidus >gi|2649347|gb|AAB90009.1|
(AE001019) transcription-associated protein TFIIS
[Archaeoglobus fulgidus]
Length = 103
Score = 94.4 bits (231), Expect = 4e-19
Identities = 41/109 (37%), Positives = 64/109 (58%), Gaps = 6/109 (5%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDF 61
++FCPKC S+MI + VCR+CGYE+ + + K V+ ++ ++ ++
Sbjct: 1 MEFCPKCKSLMIYQGDK--LVCRKCGYEKEADDSEELVIK----VERNKEDVPVIEGENL 54
Query: 62 STLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSYE 110
TLPT K CP CG++EA++W Q RA DE F++C +CG WR Y+
Sbjct: 55 KTLPTTKAICPACGHNEAFWWLRQLRAADESEVRFFRCTKCGKTWREYD 103
>emb|CAC12135.1| (AL445066) probable transcription-associated protein TFIIS
[Thermoplasma acidophilum]
Length = 100
Score = 87.8 bits (214), Expect = 4e-17
Identities = 45/107 (42%), Positives = 58/107 (54%), Gaps = 9/107 (8%)
Query: 4 FCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDFST 63
FCPKCGS+M P G +VC CGYE N E K V D+ I+++++ S
Sbjct: 2 FCPKCGSLMTP--VNGKYVCPSCGYEISKNKETIKI------VSKSADKETIMIKEEVSA 53
Query: 64 LPT-AKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSY 109
P + CP+C + A Y QTR+ DEP T FY C+ CGY WR Y
Sbjct: 54 EPLDSDAVCPRCHHKGARYVLKQTRSADEPETKFYTCEECGYRWREY 100
>gb|AAG19974.1| (AE005079) Vng1743c [Halobacterium sp. NRC-1]
Length = 219
Score = 81.9 bits (199), Expect = 2e-15
Identities = 43/110 (39%), Positives = 61/110 (55%), Gaps = 9/110 (8%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDF 61
++FC +CGS+M K+ G VC CG D++ + E + VI +D
Sbjct: 116 MQFCDECGSMM--HKQDGEMVCASCGASA-----DSEGSEGFVETASQDTSDVIETSEDA 168
Query: 62 ST--LPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWRSY 109
++ PTA+ TCP+CG+ EAWY QT + DEP T F+KC+ CG WR Y
Sbjct: 169 ASEGKPTAEETCPECGHGEAWYTIKQTGSADEPPTRFFKCQDCGNRWRDY 218
>pir||E71618 Zn-ribbon transcription factor (TFIIS family) PFB0290c - malaria
parasite (Plasmodium falciparum)
>gi|3845145|gb|AAC71847.1| (AE001385) Zn-ribbon
transcription factor (TFIIS family) [Plasmodium
falciparum]
Length = 106
Score = 75.3 bits (182), Expect = 2e-13
Identities = 38/108 (35%), Positives = 59/108 (54%), Gaps = 4/108 (3%)
Query: 1 MVKFCPKCGSIMIPDKKRGV-FVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQ 59
M FCP C +I++ ++GV F C+ C Y+ I + + + K P + V + +
Sbjct: 1 MAFFCPNCHNIVLVHIEKGVYFYCKSCNYKYKIKNKIYNKFDCQQFNKTIPLDAVDINNK 60
Query: 60 DFSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
+ S + CPKC EA+++ LQ R+ DEPSTIFY C +C Y W+
Sbjct: 61 NMSK---TQAVCPKCTNDEAYFYTLQIRSADEPSTIFYICVKCNYHWK 105
>gb|AAF57437.1| (AE003791) CG10438 gene product [Drosophila melanogaster]
Length = 108
Score = 74.5 bits (180), Expect = 4e-13
Identities = 38/112 (33%), Positives = 58/112 (50%), Gaps = 10/112 (8%)
Query: 1 MVKFCPKCGSIMIPDKKRGV--FVCRRCGYEEPINPE-DAKAYKRTEEVKHKPDEGVIVV 57
M+ FCP CG+I+I ++ F C C Y I + K + R +EV H V+
Sbjct: 1 MLFFCPSCGNILIIEEDTNCHRFTCNTCPYISKIRRKISTKTFPRLKEVDH-----VLGG 55
Query: 58 EQDFSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKC--KRCGYVWR 107
+ + + + CP CG+ A++ ++QTR+ DEP T FYKC C + WR
Sbjct: 56 KAAWENVDSTDAECPTCGHKRAYFMQIQTRSADEPMTTFYKCCNHECNHTWR 107
>sp|O13896|RPCZ_SCHPO DNA-DIRECTED RNA POLYMERASES III 12.5 KDA POLYPEPTIDE
>gi|7493488|pir||T38145 DNA-directed RNA polymerase (EC
2.7.7.6) III chain C11 [validated] - fission yeast
(Schizosaccharomyces pombe) >gi|2414598|emb|CAB16575.1|
(Z99295) dna-directed rna polymerase iii 12.5 kd
polypeptide [Schizosaccharomyces pombe]
>gi|2921268|gb|AAD03488.1| (AF027823) RNA polymerase
subunit [Schizosaccharomyces pombe]
>gi|4877777|gb|AAD31425.1|AF126532_1 (AF126532) putative
DNA-directed RNA polymerase III C11 subunit
[Schizosaccharomyces pombe]
Length = 109
Score = 74.1 bits (179), Expect = 5e-13
Identities = 38/111 (34%), Positives = 63/111 (56%), Gaps = 9/111 (8%)
Query: 2 VKFCPKCGS---IMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVE 58
++FCP CG+ + + ++ R F CR C Y PI+ Y R E + + D+ V+ E
Sbjct: 1 MQFCPTCGNHLIVAVDEEGRNAFDCRTCPYHFPIS---TFLYSRHEFAQKEVDD-VLGGE 56
Query: 59 QDFSTLPTAKVTCP--KCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
+ F + +VTC KC + A++++LQ R+ DEP + FY+C +C + WR
Sbjct: 57 EAFESNQQTEVTCENTKCDNNRAYFFQLQIRSADEPMSTFYRCTKCKFQWR 107
>gi|6320250 TFIIS-like small Pol III subunit C11; Rpc11p [Saccharomyces
cerevisiae] >gi|3334319|sp|Q04307|RPCZ_YEAST
DNA-DIRECTED RNA POLYMERASES III 12.5 KDA POLYPEPTIDE
>gi|1077550|pir||S54031 hypothetical protein YDR045c -
yeast (Saccharomyces cerevisiae)
>gi|798898|emb|CAA89076.1| (Z49209) unknown
[Saccharomyces cerevisiae] >gi|4210977|gb|AAD12060.1|
(AF108188) RNA polymerase III C11 subunit [Saccharomyces
cerevisiae]
Length = 110
Score = 73.0 bits (176), Expect = 1e-12
Identities = 40/113 (35%), Positives = 60/113 (52%), Gaps = 11/113 (9%)
Query: 1 MVKFCPKCGS-IMIPDKKRGVFV--CRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVV 57
M+ FCP C + ++I GV+ CR C YE PI E + Y R + + + D+ V+
Sbjct: 1 MLSFCPSCNNMLLITSGDSGVYTLACRSCPYEFPI--EGIEIYDRKKLPRKEVDD---VL 55
Query: 58 EQDFSTLPTAKVTCPK---CGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
+ + K CP CG A++++LQ R+ DEP T FYKC CG+ W+
Sbjct: 56 GGGWDNVDQTKTQCPNYDTCGGESAYFFQLQIRSADEPMTTFYKCVNCGHRWK 108
>gb|AAD15481.1| (AC006266) putative DNA-directed RNA polymerase subunit
[Arabidopsis thaliana] >gi|7267434|emb|CAB77946.1|
(AL161508) putative DNA-directed RNA polymerase subunit
[Arabidopsis thaliana]
Length = 106
Score = 67.1 bits (161), Expect = 7e-11
Identities = 34/107 (31%), Positives = 55/107 (50%), Gaps = 4/107 (3%)
Query: 2 VKFCPKCGSIM-IPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
++FCP CG+++ F C C Y N E K+ + + K E V V + D
Sbjct: 1 MEFCPTCGNLLRYEGGGSSRFFCSTCPYVA--NIERRVEIKKKQLLVKKSIEPV-VTKDD 57
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
T + CP+CG+ +A++ +Q R+ DEP + FY+C +C + WR
Sbjct: 58 IPTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWR 104
>gb|AAG18974.1| (AE004998) DNA-directed RNA-polymerase subunit M; RpoM
[Halobacterium sp. NRC-1]
Length = 104
Score = 67.1 bits (161), Expect = 7e-11
Identities = 36/106 (33%), Positives = 54/106 (49%), Gaps = 6/106 (5%)
Query: 2 VKFCPKCGSIMIPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQDF 61
++FC CGS+M D + ++VC CG+++P +P + +E E V V +
Sbjct: 1 MEFCDDCGSMMKADDE--LWVCSSCGHKQPKDPSASFVVTEGQE----ETEVVDVSDAQD 54
Query: 62 STLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
LPT V CP C EA ++ Q R+ DE T F+ C C + WR
Sbjct: 55 RGLPTTSVVCPDCDNDEAHWYMQQIRSADESETRFFICTECEHRWR 100
>gi|7706499 RNA polymerase III subunit (hRPC11) [Homo sapiens]
>gi|11431174|ref|XP_007933.1| RNA polymerase III subunit
(hRPC11) [Homo sapiens]
>gi|4877775|gb|AAD31424.1|AF126531_1 (AF126531) putative
DNA-directed RNA polymerase III C11 subunit [Homo
sapiens] >gi|6580760|gb|AAF18268.1|AF051316_1 (AF051316)
RNA polymerase III subunit [Homo sapiens]
Length = 108
Score = 66.7 bits (160), Expect = 9e-11
Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 10/112 (8%)
Query: 1 MVKFCPKCGSIMIPDKKRGV--FVCRRCGYEEPINPEDA-KAYKRTEEVKHKPDEGVIVV 57
M+ FCP CG+ +I ++ + F C C Y I + + Y + +EV + V+
Sbjct: 1 MLLFCPGCGNGLIVEEGQRCHRFACNTCPYVHNITRKVTNRKYPKLKEV-----DDVLGG 55
Query: 58 EQDFSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKC--KRCGYVWR 107
+ + + +CPKC + A++ +LQTR+ DEP T FYKC +CG+ WR
Sbjct: 56 AAAWENVDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWR 107
>gb|AAF97332.1|AC023628_13 (AC023628) Similar to DNA-directed RNA polymerase subunit M
[Arabidopsis thaliana]
Length = 106
Score = 66.7 bits (160), Expect = 9e-11
Identities = 33/107 (30%), Positives = 55/107 (50%), Gaps = 4/107 (3%)
Query: 2 VKFCPKCGSIM-IPDKKRGVFVCRRCGYEEPINPEDAKAYKRTEEVKHKPDEGVIVVEQD 60
++FCP CG+++ F C C Y I + K+ + + K E V V + D
Sbjct: 1 MEFCPTCGNLLRYEGGGNSRFFCSTCPYVAYIQRQ--VEIKKKQLLVKKSIEAV-VTKDD 57
Query: 61 FSTLPTAKVTCPKCGYHEAWYWELQTRAGDEPSTIFYKCKRCGYVWR 107
T + CP+CG+ +A++ +Q R+ DEP + FY+C +C + WR
Sbjct: 58 IPTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWR 104
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
0.321 0.139 0.474
Gapped
Lambda K H
0.270 0.0470 0.230
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 47747001
Number of Sequences: 2977
Number of extensions: 1862263
Number of successful extensions: 5356
Number of sequences better than 1.0e-10: 23
Number of HSP's better than 0.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 5311
Number of HSP's gapped (non-prelim): 23
length of query: 110
length of database: 189,106,746
effective HSP length: 44
effective length of query: 66
effective length of database: 162,773,318
effective search space: 10743038988
effective search space used: 10743038988
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.8 bits)
X3: 64 (24.9 bits)
S1: 41 (21.9 bits)
S2: 160 (66.7 bits)