BLASTP 2.2.22 [Sep-27-2009] 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. Reference for composition-based statistics: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= gi|254780237|ref|YP_003064650.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter asiaticus str. psy62] (340 letters) Database: nr 13,984,884 sequences; 4,792,584,752 total letters Searching..................................................done >gi|329889151|ref|ZP_08267494.1| DNA-directed RNA polymerase, alpha subunit [Brevundimonas diminuta ATCC 11568] gi|328844452|gb|EGF94016.1| DNA-directed RNA polymerase, alpha subunit [Brevundimonas diminuta ATCC 11568] Length = 339 Score = 431 bits (1109), Expect = e-119, Method: Composition-based stats. Identities = 206/339 (60%), Positives = 266/339 (78%), Gaps = 1/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQELI+P + G + +++ +IAEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQELIRPEKPQV-EGGSDPQHKARLIAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + L+M + KR+T+ GPG VTA I Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLALRMHAEGPKRMTLRATGPGPVTAAQID 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIEVLNPDHVIC LD A VRMELTV G GYV A+ +R E+ PIGLI +DALYSP+ Sbjct: 120 LPADIEVLNPDHVICTLDDGASVRMELTVQNGKGYVAAELNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G+++ D+VA A+RILQDQL +FI F+EP K Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLILEVETNGAVSPVDAVAYAARILQDQLQIFITFDEPTKA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V++ LPFNP+LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE +MLR NFGR Sbjct: 240 VEQSDGKPELPFNPSLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++P+WPPE+IE+LAKK++D+ Sbjct: 300 KSLNEIKEVLASMGLSLGMDVPNWPPENIEDLAKKFDDQ 338 >gi|254418751|ref|ZP_05032475.1| DNA-directed RNA polymerase, alpha subunit [Brevundimonas sp. BAL3] gi|196184928|gb|EDX79904.1| DNA-directed RNA polymerase, alpha subunit [Brevundimonas sp. BAL3] Length = 339 Score = 431 bits (1109), Expect = e-119, Method: Composition-based stats. Identities = 212/339 (62%), Positives = 269/339 (79%), Gaps = 1/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQELI+P + I +G + + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQELIRPEKPQ-IEIGSDAQRKARLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + L+M + KR+T+ GPG VTAG I Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLALRMHAEGPKRMTLRATGPGAVTAGQID 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIEVLNPDHVIC LD A VRMELTV G GYV A+ +R E+ PIGLI +DALYSP+ Sbjct: 120 VSADIEVLNPDHVICTLDDGASVRMELTVQNGKGYVAAELNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G++T D+VA A+RILQDQL +FI FEEPKK Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLLLEVETNGAVTPVDAVAYAARILQDQLQIFITFEEPKKA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE +MLR NFGR Sbjct: 240 VEQSDGKPDLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM++P+WPPE+IE+LAKK++D+ Sbjct: 300 KSLNEIKEVLATMGLSLGMDVPNWPPENIEDLAKKFDDQ 338 >gi|302382643|ref|YP_003818466.1| DNA-directed RNA polymerase subunit alpha [Brevundimonas subvibrioides ATCC 15264] gi|302193271|gb|ADL00843.1| DNA-directed RNA polymerase, alpha subunit [Brevundimonas subvibrioides ATCC 15264] Length = 339 Score = 430 bits (1107), Expect = e-118, Method: Composition-based stats. Identities = 208/339 (61%), Positives = 271/339 (79%), Gaps = 1/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQELI+P + I LG + + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQELIRPEKPQ-IELGSDAQRKARLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + L+M + KR+T+ GPG VTAG I+ Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLALRMHAEGPKRMTLRATGPGPVTAGQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIEVLNP+HVIC LD A +RMELTV G GYV ++ +R E+ PIGLI +DALYSP+ Sbjct: 120 VPSDIEVLNPNHVICTLDDGASIRMELTVQNGKGYVASEFNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G+++ D+VA ASRILQDQL +FI F+EPKK Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLVLEVETNGAVSPVDAVAYASRILQDQLQIFITFDEPKKA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE +MLR NFGR Sbjct: 240 VEQVDGKPDLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++P+WPPE+IE+LAKK++D+ Sbjct: 300 KSLNEIKEVLTSMGLSLGMDVPNWPPENIEDLAKKFDDQ 338 >gi|153009310|ref|YP_001370525.1| DNA-directed RNA polymerase subunit alpha [Ochrobactrum anthropi ATCC 49188] gi|239832098|ref|ZP_04680427.1| DNA-directed RNA polymerase, alpha subunit [Ochrobactrum intermedium LMG 3301] gi|166229274|sp|A6X0E2|RPOA_OCHA4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|151561198|gb|ABS14696.1| DNA-directed RNA polymerase, alpha subunit [Ochrobactrum anthropi ATCC 49188] gi|239824365|gb|EEQ95933.1| DNA-directed RNA polymerase, alpha subunit [Ochrobactrum intermedium LMG 3301] Length = 337 Score = 429 bits (1102), Expect = e-118, Method: Composition-based stats. Identities = 225/339 (66%), Positives = 278/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFIT--NGSRTHATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SSI GV ED+TDI+LN+K I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAIQIDGVLHEFSSIPGVREDVTDIVLNVKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPDHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS++GED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVSGEDAVAYAARILQDQLAIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPSWPPENIEDLAKRYEDQ 336 >gi|62290120|ref|YP_221913.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 1 str. 9-941] gi|82700043|ref|YP_414617.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis biovar Abortus 2308] gi|189024358|ref|YP_001935126.1| RNA polymerase, alpha chain, bacterial and organelle [Brucella abortus S19] gi|225627680|ref|ZP_03785717.1| DNA-directed RNA polymerase, alpha subunit [Brucella ceti str. Cudo] gi|237815628|ref|ZP_04594625.1| DNA-directed RNA polymerase, alpha subunit [Brucella abortus str. 2308 A] gi|254689429|ref|ZP_05152683.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 6 str. 870] gi|254693914|ref|ZP_05155742.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 3 str. Tulya] gi|254697564|ref|ZP_05159392.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 2 str. 86/8/59] gi|254710280|ref|ZP_05172091.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis B2/94] gi|254714277|ref|ZP_05176088.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M644/93/1] gi|254717714|ref|ZP_05179525.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M13/05/1] gi|254730458|ref|ZP_05189036.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 4 str. 292] gi|256031774|ref|ZP_05445388.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M292/94/1] gi|256159944|ref|ZP_05457662.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M490/95/1] gi|256255175|ref|ZP_05460711.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti B1/94] gi|256257675|ref|ZP_05463211.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 9 str. C68] gi|256369633|ref|YP_003107143.1| DNA-directed RNA polymerase alpha subunit [Brucella microti CCM 4915] gi|260168908|ref|ZP_05755719.1| DNA-directed RNA polymerase subunit alpha [Brucella sp. F5/99] gi|260546668|ref|ZP_05822407.1| RNA polymerase [Brucella abortus NCTC 8038] gi|260754952|ref|ZP_05867300.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 6 str. 870] gi|260758168|ref|ZP_05870516.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 4 str. 292] gi|260761994|ref|ZP_05874337.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 2 str. 86/8/59] gi|260883961|ref|ZP_05895575.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 9 str. C68] gi|261214205|ref|ZP_05928486.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 3 str. Tulya] gi|261219556|ref|ZP_05933837.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M13/05/1] gi|261222371|ref|ZP_05936652.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti B1/94] gi|261317842|ref|ZP_05957039.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis B2/94] gi|261322051|ref|ZP_05961248.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M644/93/1] gi|261758400|ref|ZP_06002109.1| RNA polymerase [Brucella sp. F5/99] gi|265988872|ref|ZP_06101429.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M292/94/1] gi|265998336|ref|ZP_06110893.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M490/95/1] gi|297248515|ref|ZP_06932233.1| DNA-directed RNA polymerase, alpha subunit [Brucella abortus bv. 5 str. B3196] gi|306840325|ref|ZP_07473097.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. BO2] gi|306844112|ref|ZP_07476706.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. BO1] gi|75496695|sp|Q57CT2|RPOA_BRUAB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366668|sp|Q2YRU0|RPOA_BRUA2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238689381|sp|B2S655|RPOA_BRUA1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62196252|gb|AAX74552.1| RpoA, DNA-directed RNA polymerase, alpha subunit [Brucella abortus bv. 1 str. 9-941] gi|82616144|emb|CAJ11187.1| RNA polymerase, alpha chain, bacterial and organelle [Brucella melitensis biovar Abortus 2308] gi|189019930|gb|ACD72652.1| RNA polymerase, alpha chain, bacterial and organelle [Brucella abortus S19] gi|225617685|gb|EEH14730.1| DNA-directed RNA polymerase, alpha subunit [Brucella ceti str. Cudo] gi|237788926|gb|EEP63137.1| DNA-directed RNA polymerase, alpha subunit [Brucella abortus str. 2308 A] gi|255999795|gb|ACU48194.1| DNA-directed RNA polymerase alpha subunit [Brucella microti CCM 4915] gi|260095718|gb|EEW79595.1| RNA polymerase [Brucella abortus NCTC 8038] gi|260668486|gb|EEX55426.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 4 str. 292] gi|260672426|gb|EEX59247.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 2 str. 86/8/59] gi|260675060|gb|EEX61881.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 6 str. 870] gi|260873489|gb|EEX80558.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 9 str. C68] gi|260915812|gb|EEX82673.1| DNA-directed RNA polymerase subunit alpha [Brucella abortus bv. 3 str. Tulya] gi|260920955|gb|EEX87608.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti B1/94] gi|260924645|gb|EEX91213.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M13/05/1] gi|261294741|gb|EEX98237.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M644/93/1] gi|261297065|gb|EEY00562.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis B2/94] gi|261738384|gb|EEY26380.1| RNA polymerase [Brucella sp. F5/99] gi|262552804|gb|EEZ08794.1| DNA-directed RNA polymerase subunit alpha [Brucella ceti M490/95/1] gi|264661069|gb|EEZ31330.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M292/94/1] gi|297175684|gb|EFH35031.1| DNA-directed RNA polymerase, alpha subunit [Brucella abortus bv. 5 str. B3196] gi|306275555|gb|EFM57287.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. BO1] gi|306289724|gb|EFM60913.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. BO2] Length = 337 Score = 429 bits (1102), Expect = e-118, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|17987064|ref|NP_539698.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. 16M] gi|225852705|ref|YP_002732938.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis ATCC 23457] gi|256044859|ref|ZP_05447763.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. Rev.1] gi|256113763|ref|ZP_05454567.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 3 str. Ether] gi|256263804|ref|ZP_05466336.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 2 str. 63/9] gi|260565539|ref|ZP_05836023.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. 16M] gi|265991286|ref|ZP_06103843.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. Rev.1] gi|265995123|ref|ZP_06107680.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 3 str. Ether] gi|20139479|sp|Q8YHL6|RPOA_BRUME RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765245|sp|C0RJH6|RPOA_BRUMB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|17982721|gb|AAL51962.1| DNA-directed RNA polymerase alpha chain [Brucella melitensis bv. 1 str. 16M] gi|225641070|gb|ACO00984.1| DNA-directed RNA polymerase, alpha subunit [Brucella melitensis ATCC 23457] gi|260151607|gb|EEW86701.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. 16M] gi|262766236|gb|EEZ12025.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 3 str. Ether] gi|263002070|gb|EEZ14645.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 1 str. Rev.1] gi|263093932|gb|EEZ17866.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis bv. 2 str. 63/9] gi|326409230|gb|ADZ66295.1| DNA-directed RNA polymerase subunit alpha [Brucella melitensis M28] gi|326538938|gb|ADZ87153.1| DNA-directed RNA polymerase, alpha subunit [Brucella melitensis M5-90] Length = 337 Score = 428 bits (1101), Expect = e-118, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVHKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADCNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|295688930|ref|YP_003592623.1| DNA-directed RNA polymerase subunit alpha [Caulobacter segnis ATCC 21756] gi|295430833|gb|ADG10005.1| DNA-directed RNA polymerase, alpha subunit [Caulobacter segnis ATCC 21756] Length = 338 Score = 428 bits (1101), Expect = e-118, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + I G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQ-IETGADASRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + ++M + KR+T+ GPG VTAG I+ Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLAVRMHAEGPKRMTLRATGPGPVTAGQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DIE+LNPDHV+C LD A VRME TV+ G GYVPA +R E+ PIGLI +DALYSP+ Sbjct: 120 TPADIEILNPDHVLCTLDDGASVRMEFTVNTGKGYVPADRNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G++T D+VA A+RILQDQL +FI FEEPK + Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLILEVETNGAVTPVDAVAYAARILQDQLQIFITFEEPKAK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 D + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 -SADESKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >gi|294852544|ref|ZP_06793217.1| DNA-directed RNA polymerase [Brucella sp. NVSL 07-0026] gi|294821133|gb|EFG38132.1| DNA-directed RNA polymerase [Brucella sp. NVSL 07-0026] Length = 337 Score = 428 bits (1100), Expect = e-118, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 278/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|256061289|ref|ZP_05451439.1| DNA-directed RNA polymerase subunit alpha [Brucella neotomae 5K33] gi|261325296|ref|ZP_05964493.1| DNA-directed RNA polymerase subunit alpha [Brucella neotomae 5K33] gi|261301276|gb|EEY04773.1| DNA-directed RNA polymerase subunit alpha [Brucella neotomae 5K33] Length = 337 Score = 428 bits (1100), Expect = e-118, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIVIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|167645602|ref|YP_001683265.1| DNA-directed RNA polymerase subunit alpha [Caulobacter sp. K31] gi|189043833|sp|B0T2E6|RPOA_CAUSK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|167348032|gb|ABZ70767.1| DNA-directed RNA polymerase, alpha subunit [Caulobacter sp. K31] Length = 338 Score = 428 bits (1100), Expect = e-118, Method: Composition-based stats. Identities = 210/339 (61%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + I G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQ-IETGADATRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + ++M + KR+T+ GPGVVTAG I+ Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLAVRMHAEGPKRMTLRATGPGVVTAGQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE+LNPDHV+C LD A VRME TV+ G GYVPA +R E+ PIGLI +DALYSP+ Sbjct: 120 TPSDIEILNPDHVLCTLDDGASVRMEFTVNTGKGYVPADKNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G++T D+VA A+RILQDQL +FI FEEPK + Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLILEVETNGAVTPVDAVAYAARILQDQLQIFITFEEPKAK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 D LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TA-DEAKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >gi|16125521|ref|NP_420085.1| DNA-directed RNA polymerase subunit alpha [Caulobacter crescentus CB15] gi|221234267|ref|YP_002516703.1| DNA-directed RNA polymerase subunit alpha [Caulobacter crescentus NA1000] gi|20139678|sp|Q9A8S9|RPOA_CAUCR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765246|sp|B8H4F8|RPOA_CAUCN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|13422605|gb|AAK23253.1| DNA-directed RNA polymerase, alpha subunit [Caulobacter crescentus CB15] gi|220963439|gb|ACL94795.1| DNA-directed RNA polymerase alpha chain [Caulobacter crescentus NA1000] Length = 338 Score = 427 bits (1099), Expect = e-118, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + I G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQ-IETGADATRKARIVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SS++GV ED+ DI+LNIK + ++M + KR+T+ GPG VTAG I+ Sbjct: 60 TAIQIDGVVHEFSSLEGVREDVVDIVLNIKQLAVRMHAEGPKRMTLRATGPGPVTAGQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DIE+LNPDHV+C LD A VRME TV+ G GYVPA +R E+ PIGLI +DALYSP+ Sbjct: 120 TPADIEILNPDHVLCTLDDGASVRMEFTVNNGKGYVPADRNRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL + ++T+G++T D+VA A+RILQDQL +FI FEEPK + Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLILEVETNGAVTPVDAVAYAARILQDQLQIFITFEEPKAK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 D + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 -SADESKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEDLAKKFEDQ 337 >gi|148560545|ref|YP_001259129.1| DNA-directed RNA polymerase subunit alpha [Brucella ovis ATCC 25840] gi|166229260|sp|A5VQY2|RPOA_BRUO2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148371802|gb|ABQ61781.1| DNA-directed RNA polymerase, alpha subunit [Brucella ovis ATCC 25840] Length = 337 Score = 427 bits (1098), Expect = e-117, Method: Composition-based stats. Identities = 226/339 (66%), Positives = 277/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRA--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+H IC LD A + ME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHAICTLDEGAEICMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|23502086|ref|NP_698213.1| DNA-directed RNA polymerase subunit alpha [Brucella suis 1330] gi|163843474|ref|YP_001627878.1| DNA-directed RNA polymerase subunit alpha [Brucella suis ATCC 23445] gi|254704494|ref|ZP_05166322.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 3 str. 686] gi|260566262|ref|ZP_05836732.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 4 str. 40] gi|261755176|ref|ZP_05998885.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 3 str. 686] gi|38258599|sp|Q8G094|RPOA_BRUSU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189043832|sp|B0CH07|RPOA_BRUSI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|23348045|gb|AAN30128.1| DNA-directed RNA polymerase, alpha subunit [Brucella suis 1330] gi|163674197|gb|ABY38308.1| DNA-directed RNA polymerase, alpha subunit [Brucella suis ATCC 23445] gi|260155780|gb|EEW90860.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 4 str. 40] gi|261744929|gb|EEY32855.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 3 str. 686] Length = 337 Score = 427 bits (1097), Expect = e-117, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKTDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|161619164|ref|YP_001593051.1| DNA-directed RNA polymerase subunit alpha [Brucella canis ATCC 23365] gi|189043831|sp|A9M5M5|RPOA_BRUC2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|161335975|gb|ABX62280.1| DNA-directed RNA polymerase, alpha subunit [Brucella canis ATCC 23365] Length = 337 Score = 426 bits (1096), Expect = e-117, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 278/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPVLLKKVDELELSVRSANCLKTDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|254706610|ref|ZP_05168438.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M163/99/10] gi|261314070|ref|ZP_05953267.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M163/99/10] gi|261303096|gb|EEY06593.1| DNA-directed RNA polymerase subunit alpha [Brucella pinnipedialis M163/99/10] Length = 337 Score = 426 bits (1096), Expect = e-117, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 278/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEE +KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEELQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|254719267|ref|ZP_05181078.1| DNA-directed RNA polymerase subunit alpha [Brucella sp. 83/13] gi|265984266|ref|ZP_06097001.1| DNA-directed RNA polymerase subunit alpha [Brucella sp. 83/13] gi|306838018|ref|ZP_07470876.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. NF 2653] gi|264662858|gb|EEZ33119.1| DNA-directed RNA polymerase subunit alpha [Brucella sp. 83/13] gi|306406942|gb|EFM63163.1| DNA-directed RNA polymerase, alpha subunit [Brucella sp. NF 2653] Length = 337 Score = 425 bits (1093), Expect = e-117, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 278/339 (82%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVT GDIQ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTTGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 119 TVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKIENTREGQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 APQEQ-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 298 KSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKRYEDQ 336 >gi|222148390|ref|YP_002549347.1| DNA-directed RNA polymerase subunit alpha [Agrobacterium vitis S4] gi|254765240|sp|B9JVR1|RPOA_AGRVS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|221735378|gb|ACM36341.1| DNA-directed RNA polymerase alpha subunit [Agrobacterium vitis S4] Length = 336 Score = 424 bits (1091), Expect = e-117, Method: Composition-based stats. Identities = 233/339 (68%), Positives = 280/339 (82%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEF---SSSGRTKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPHHVICTLDEGAEIRMEFTVNNGKGYVPADRNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+MTI+TDGS++GED+VA A+RILQDQL +F+NF+EP++E Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMTIETDGSVSGEDAVAFAARILQDQLSVFVNFDEPQRE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E+ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 AEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >gi|163851599|ref|YP_001639642.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium extorquens PA1] gi|163663204|gb|ABY30571.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium extorquens PA1] Length = 365 Score = 424 bits (1090), Expect = e-116, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 28 VIQKNWQELIKPNKLQV-TAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 86 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D KR+T+ K GPG+VTAGDI Sbjct: 87 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDQPKRMTLRKTGPGLVTAGDIG 146 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V DI++LNPD VIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +DALYSP+ Sbjct: 147 AVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDALYSPV 206 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 207 TKVSYRVETTREGQDLDKDKLTMTLETNGAVSPEDALAYAARIIQDQLQVFVNFEEPRKE 266 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 267 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 325 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 326 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 363 >gi|86357329|ref|YP_469221.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli CFN 42] gi|116251564|ref|YP_767402.1| DNA-directed RNA polymerase subunit alpha [Rhizobium leguminosarum bv. viciae 3841] gi|190891379|ref|YP_001977921.1| DNA-directed RNA polymerase protein, alpha subunit [Rhizobium etli CIAT 652] gi|209548959|ref|YP_002280876.1| DNA-directed RNA polymerase subunit alpha [Rhizobium leguminosarum bv. trifolii WSM2304] gi|218516292|ref|ZP_03513132.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli 8C-3] gi|241204189|ref|YP_002975285.1| DNA-directed RNA polymerase subunit alpha [Rhizobium leguminosarum bv. trifolii WSM1325] gi|119366712|sp|Q2K9J2|RPOA_RHIEC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366713|sp|Q1MIB7|RPOA_RHIL3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238057757|sp|B5ZZ57|RPOA_RHILW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238692528|sp|B3PWU5|RPOA_RHIE6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|86281431|gb|ABC90494.1| DNA-directed RNA polymerase alpha chain protein [Rhizobium etli CFN 42] gi|115256212|emb|CAK07293.1| putative DNA-directed RNA polymerase alpha chain [Rhizobium leguminosarum bv. viciae 3841] gi|190696658|gb|ACE90743.1| DNA-directed RNA polymerase protein, alpha subunit [Rhizobium etli CIAT 652] gi|209534715|gb|ACI54650.1| DNA-directed RNA polymerase, alpha subunit [Rhizobium leguminosarum bv. trifolii WSM2304] gi|240858079|gb|ACS55746.1| DNA-directed RNA polymerase, alpha subunit [Rhizobium leguminosarum bv. trifolii WSM1325] gi|327189694|gb|EGE56841.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli CNPAF512] Length = 336 Score = 424 bits (1090), Expect = e-116, Method: Composition-based stats. Identities = 238/339 (70%), Positives = 282/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ R ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEF---SSSSRTRATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+MTI+TDGSITGED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLNMTIETDGSITGEDAVAFAARILQDQLGVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 TEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >gi|15965133|ref|NP_385486.1| DNA-directed RNA polymerase subunit alpha [Sinorhizobium meliloti 1021] gi|150396231|ref|YP_001326698.1| DNA-directed RNA polymerase subunit alpha [Sinorhizobium medicae WSM419] gi|307314383|ref|ZP_07593989.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium meliloti BL225C] gi|307322095|ref|ZP_07601471.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium meliloti AK83] gi|20139518|sp|Q925Z2|RPOA_RHIME RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229280|sp|A6U883|RPOA_SINMW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|15074313|emb|CAC45959.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium meliloti 1021] gi|16588802|gb|AAL26901.1| RNA polymerase alpha-subunit [Sinorhizobium meliloti] gi|150027746|gb|ABR59863.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium medicae WSM419] gi|306892277|gb|EFN23087.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium meliloti AK83] gi|306899081|gb|EFN29723.1| DNA-directed RNA polymerase, alpha subunit [Sinorhizobium meliloti BL225C] Length = 336 Score = 424 bits (1090), Expect = e-116, Method: Composition-based stats. Identities = 233/339 (68%), Positives = 282/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEF---ASSGRTKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+HVIC LD A +RME TV+ G GYVPA +R+E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPNHVICTLDEGAEIRMEFTVNNGKGYVPADRNRSEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+M+I+TDGS+TGED++A A+RILQDQL +F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMSIETDGSVTGEDAIAFAARILQDQLSVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E+ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 TEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >gi|227821779|ref|YP_002825749.1| DNA-directed RNA polymerase subunit alpha [Sinorhizobium fredii NGR234] gi|254765259|sp|C3MB03|RPOA_RHISN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|227340778|gb|ACP24996.1| DNA-directed RNA polymerase alpha chain [Sinorhizobium fredii NGR234] Length = 336 Score = 424 bits (1089), Expect = e-116, Method: Composition-based stats. Identities = 232/339 (68%), Positives = 282/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFT---SSGRTKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDSKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ +R+E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPNHVICTLDEGAEIRMEFTVNNGKGYVPAERNRSEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+M+I+TDGS+TGED++A A+RILQDQL +F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMSIETDGSVTGEDAIAFAARILQDQLSVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 AEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >gi|110634006|ref|YP_674214.1| DNA-directed RNA polymerase subunit alpha [Mesorhizobium sp. BNC1] gi|119366696|sp|Q11HS6|RPOA_MESSB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110284990|gb|ABG63049.1| DNA-directed RNA polymerase subunit alpha [Chelativorans sp. BNC1] Length = 336 Score = 424 bits (1089), Expect = e-116, Method: Composition-based stats. Identities = 236/339 (69%), Positives = 283/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ IE+ + +T ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKIEFT---SKGRTQTNLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M GD KR+ + K+GPG VTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIAGVREDVTDIVLNIKEIAIRMEGDGPKRMVLRKQGPGAVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDVEILNPEHVICTLDQGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+MTI+TDGS+TGED+VA A+RILQDQLG+F+NFEEP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMTIETDGSVTGEDAVAFAARILQDQLGLFVNFEEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 VPAEQ-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +PDWPP++IEELAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPDWPPDNIEELAKRYEDQ 335 >gi|222085699|ref|YP_002544229.1| DNA-directed RNA polymerase, alpha subunit [Agrobacterium radiobacter K84] gi|254765239|sp|B9JDV2|RPOA_AGRRK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|221723147|gb|ACM26303.1| DNA-directed RNA polymerase, alpha subunit [Agrobacterium radiobacter K84] Length = 336 Score = 423 bits (1088), Expect = e-116, Method: Composition-based stats. Identities = 237/339 (69%), Positives = 283/339 (83%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFT---SSGRTKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKLSM+I+TDGSITGED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLSMSIETDGSITGEDAVAFAARILQDQLGVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E+ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 AEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >gi|15889218|ref|NP_354899.1| DNA-directed RNA polymerase subunit alpha [Agrobacterium tumefaciens str. C58] gi|325293312|ref|YP_004279176.1| DNA-directed RNA polymerase subunit alpha [Agrobacterium sp. H13-3] gi|61234197|sp|P0A4E3|RPOA_AGRT5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61234204|sp|P0A4E4|RPOA_RHIRD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|5712306|gb|AAD47422.1|AF111855_1 RNA polymerase alpha subunit [Agrobacterium tumefaciens] gi|15157043|gb|AAK87684.1| DNA-directed RNA polymerase alpha subunit [Agrobacterium tumefaciens str. C58] gi|325061165|gb|ADY64856.1| DNA-directed RNA polymerase subunit alpha [Agrobacterium sp. H13-3] Length = 336 Score = 423 bits (1087), Expect = e-116, Method: Composition-based stats. Identities = 234/339 (69%), Positives = 281/339 (82%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFT---SSSRTKATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPG VTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDSKRMVVRKQGPGSVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNPDHVIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPDHVICTLDEGAEIRMEFTVNNGKGYVPAERNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL MTI+T+GS++GED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLIMTIETNGSVSGEDAVAFAARILQDQLGVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E +V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 AEE-ESVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 335 >gi|288958717|ref|YP_003449058.1| DNA-directed RNA polymerase subunit alpha [Azospirillum sp. B510] gi|288911025|dbj|BAI72514.1| DNA-directed RNA polymerase subunit alpha [Azospirillum sp. B510] Length = 338 Score = 423 bits (1087), Expect = e-116, Method: Composition-based stats. Identities = 208/338 (61%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+QKNWQELIKP+ +E I G + + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MLQKNWQELIKPSKLE-IQPGDDADRFATVVAEPLERGFGLTLGNALRRILLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T++ IDGVLHE SSI GV ED+TDI+LNIK + L+M GD KR+ + GPG V AG I+ Sbjct: 60 TSIHIDGVLHEFSSIPGVREDVTDIVLNIKTMGLRMGGDGPKRMRLRAEGPGEVKAGMIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DI+V++P+ VIC LD A + MELTV G GYVPA +R E+ PIGLI IDAL+SP+ Sbjct: 120 TGPDIQVMDPELVICTLDNGARLNMELTVETGKGYVPASQNRPEDAPIGLIPIDALFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY V++AR GQV DYD+LSMT++T+GS+ +D+VALA+RI+QDQL +FINFEEP Sbjct: 180 RKVSYKVDNARVGQVTDYDRLSMTVETNGSVKPDDAVALAARIMQDQLQLFINFEEPTHA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V E+ + +PFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TEA+MLR NFGR Sbjct: 240 VSEEKHE-EVPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLSQMGLHLGMEIPNWPPENIEELAKRLEE 336 >gi|188581391|ref|YP_001924836.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium populi BJ001] gi|226699354|sp|B1Z768|RPOA_METPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|179344889|gb|ACB80301.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium populi BJ001] Length = 339 Score = 422 bits (1086), Expect = e-116, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQV-SAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D KR+T+ K GPG+VTAGDI Sbjct: 61 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDQPKRMTLRKTGPGLVTAGDIG 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V DI++LNPD VIC LD A +RME TV+ G GYVPA +R E+ PIGLI +DAL+SP+ Sbjct: 121 AVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPADRNRPEDAPIGLIPVDALFSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRVETTREGQDLDKDKLTMTVETNGAVSPEDALAYAARIIQDQLQVFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|23010819|ref|ZP_00051380.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 339 Score = 422 bits (1085), Expect = e-116, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQV-TAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D KR+T+ K GPG+VTAGDI Sbjct: 61 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDQPKRLTLRKTGPGLVTAGDIG 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V DI++LNPD VIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +DALYSP+ Sbjct: 121 AVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDALYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRVETTREGQDLDKDKLTMTVETNGAVSPEDALAYAARIIQDQLQVFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|197104720|ref|YP_002130097.1| DNA-directed RNA polymerase alpha subunit [Phenylobacterium zucineum HLK1] gi|238690127|sp|B4R8P1|RPOA_PHEZH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|196478140|gb|ACG77668.1| DNA-directed RNA polymerase alpha subunit [Phenylobacterium zucineum HLK1] Length = 338 Score = 422 bits (1084), Expect = e-116, Method: Composition-based stats. Identities = 207/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NW ELI+P + I G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 1 MIERNWNELIRPEKPQ-IETGADASRKARLVAEPLERGFGVTLGNSLRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGV+HE SS++GV ED+ DI+LNIK + L+M + KR+T+ GPG VTA I+ Sbjct: 60 TAVQIDGVVHEFSSLEGVREDVVDIVLNIKQLALRMHAEGPKRMTLRATGPGAVTASQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIE+LN DHV+C LD A VRME TV G GYVPA+ +R E+ PIGLI +D+L+SP+ Sbjct: 120 APADIEILNGDHVLCTLDDGASVRMEFTVQTGKGYVPAEMNRPEDAPIGLIAVDSLFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE R+GQ LDYDKL M ++T+G+++ D+VA A+RILQDQL +FI FEEPKK+ Sbjct: 180 KRVAYRVEPTRQGQSLDYDKLIMEVETNGAVSPVDAVAYAARILQDQLQIFITFEEPKKK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 VE-GEAKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++P+WPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLAGMGLHLGMDVPNWPPENIEELAKKFEDQ 337 >gi|170738679|ref|YP_001767334.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium sp. 4-46] gi|226699356|sp|B0UHU5|RPOA_METS4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|168192953|gb|ACA14900.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium sp. 4-46] Length = 339 Score = 421 bits (1083), Expect = e-116, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 273/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN +E + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLEVVP-GHDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDI+LNIK I ++ + D+ KR+T+ K GPG+VTAGDI Sbjct: 61 TSVHIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSNSDAPKRMTLRKTGPGLVTAGDIS 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T+ DI++LNPD V+C LD A +RME TV+ G GYVPA +R E+ PIGLI +DAL+SP+ Sbjct: 121 TIGDIQILNPDLVLCTLDEGAEIRMEFTVATGKGYVPADRNRPEDAPIGLIPVDALFSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY +E+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRIENTREGQDLDKDKLTMTVETNGAVSPEDALAYAARIIQDQLQIFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAAMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|170748609|ref|YP_001754869.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium radiotolerans JCM 2831] gi|226699355|sp|B1LWP9|RPOA_METRJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|170655131|gb|ACB24186.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium radiotolerans JCM 2831] Length = 339 Score = 421 bits (1083), Expect = e-116, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 272/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQV-TTGDDPKRVATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D+ KR+T+ K GPG+VTAGDI Sbjct: 61 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDAPKRMTLRKTGPGLVTAGDIG 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DI++LNPD VIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+L+SP+ Sbjct: 121 TVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDSLFSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFE+P+KE Sbjct: 181 TKVSYRVETTREGQDLDKDKLTMTVETNGAVSPEDALAYAARIIQDQLQVFVNFEDPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDIPGWPPENIEDLAKRFEE 337 >gi|328543382|ref|YP_004303491.1| DNA-directed RNA polymerase subunit alpha [Polymorphum gilvum SL003B-26A1] gi|326413127|gb|ADZ70190.1| DNA-directed RNA polymerase subunit alpha [Polymorphum gilvum SL003B-26A1] Length = 353 Score = 421 bits (1082), Expect = e-116, Method: Composition-based stats. Identities = 221/337 (65%), Positives = 277/337 (82%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP ++ G++ ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 16 IQKNWQELIKPTKLDV-KPGEDPRFVATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 74 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K+GPG+VTAGDIQT Sbjct: 75 AVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKQGPGLVTAGDIQT 134 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+EVLNP+ V+C LD A +RME TV+ G GYVP+ +R E+ PIGLI +D+LYSP+K Sbjct: 135 VGDVEVLNPELVLCTLDEGAEIRMEFTVNTGKGYVPSDRNRPEDAPIGLIPVDSLYSPVK 194 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++T++TDGS+ +D+VA A+RILQDQL +F+NFEEPK+EV Sbjct: 195 KVSYKVEATREGQVLDYDKLTLTVETDGSVKPDDAVAYAARILQDQLSIFVNFEEPKREV 254 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED +V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRK Sbjct: 255 AED-HVPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 313 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM++ +WPPE+IE+LAK+YED Sbjct: 314 SLNEIKEVLAQMGLHLGMDVANWPPENIEDLAKRYED 350 >gi|319783344|ref|YP_004142820.1| DNA-directed RNA polymerase subunit alpha [Mesorhizobium ciceri biovar biserrulae WSM1271] gi|317169232|gb|ADV12770.1| DNA-directed RNA polymerase, alpha subunit [Mesorhizobium ciceri biovar biserrulae WSM1271] Length = 336 Score = 421 bits (1082), Expect = e-115, Method: Composition-based stats. Identities = 237/339 (69%), Positives = 280/339 (82%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN IE+ +++ T ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKIEF---SSKKKTLTTLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M GD KR+ + K+GPG V AGDIQ Sbjct: 58 TAVQIDGVLHEFSSIAGVREDVTDIVLNIKEIAIRMEGDGPKRMVVRKQGPGAVLAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD A +RME TV G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDVEILNPDHVICTLDEGAEIRMEFTVDTGKGYVPADRNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+MTI+TDGSITGED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMTIETDGSITGEDAVAFAARILQDQLGLFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 VA-AEAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 335 >gi|163760824|ref|ZP_02167903.1| putative DNA-directed RNA polymerase alpha chain [Hoeflea phototrophica DFL-43] gi|162281868|gb|EDQ32160.1| putative DNA-directed RNA polymerase alpha chain [Hoeflea phototrophica DFL-43] Length = 336 Score = 420 bits (1081), Expect = e-115, Method: Composition-based stats. Identities = 226/339 (66%), Positives = 279/339 (82%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + + ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEF---STQSRTKASVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I ++M GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIAIRMEGDEAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+H +C LD A +RME TV+ G GYV A +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPEHALCTLDEGAEIRMEFTVNNGKGYVAADRNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK SY VE+ REGQVLDYDKL+++++TDGS++GED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKCSYKVENTREGQVLDYDKLTLSLETDGSVSGEDAVAYAARILQDQLGVFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + V L FNP+LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 V-HEETVAELAFNPSLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLASMGLHLGMEVPSWPPENIEDLAKRYEDQ 335 >gi|171769752|sp|A7HWT5|RPOA_PARL1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 338 Score = 420 bits (1080), Expect = e-115, Method: Composition-based stats. Identities = 217/339 (64%), Positives = 272/339 (80%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNW+ELIKPN +E I G + + ++AEPL RGF TLGNALRRVLMSSL+GAA+ Sbjct: 1 MIQKNWEELIKPNKLE-INPGHDAQRFATVVAEPLERGFGLTLGNALRRVLMSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK + L++ + KR+++ K+GPGVVTAGDI Sbjct: 60 TAVQIDGVLHEFSSIAGVREDVTDIILNIKQLALRLHAEGPKRMSLSKKGPGVVTAGDIT 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIEVLNPD V+C LD A +RME TV+ G GYV + +R E+ PIGL+ +D+LYSP+ Sbjct: 120 AGADIEVLNPDLVLCTLDEGAEIRMEFTVALGKGYVASDRNRPEDAPIGLMPVDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY VE+ REGQVLDYDKL++ I+T+G+IT +D+VA A+RILQDQL F+NFEEP+++ Sbjct: 180 KRVSYKVENTREGQVLDYDKLTLQIETNGAITPDDAVAYAARILQDQLQTFVNFEEPEQK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 -HVEESRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 337 >gi|304321464|ref|YP_003855107.1| DNA-directed RNA polymerase subunit alpha [Parvularcula bermudensis HTCC2503] gi|303300366|gb|ADM09965.1| DNA-directed RNA polymerase alpha subunit [Parvularcula bermudensis HTCC2503] Length = 338 Score = 420 bits (1080), Expect = e-115, Method: Composition-based stats. Identities = 206/339 (60%), Positives = 275/339 (81%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M++KNWQELIKP +E + + + + ++A+PL RGF TLGN+LRR+LMSSL+GAA+ Sbjct: 1 MLEKNWQELIKPQKLEVVS-SYDPQRKATIVAQPLERGFGLTLGNSLRRILMSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SSI GV ED+T I+LNIK + L+M D +R+T+ K+GPG+VTAGDIQ Sbjct: 60 TAIQIDGVVHEFSSIPGVREDVTIIVLNIKQLALRMHVDGPRRLTLKKQGPGIVTAGDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIE+L+ DHVIC LD A +RME+TV G GYVPA +R E+ PIGLI +D+LYSP+ Sbjct: 120 ETADIEILDKDHVICTLDEGADLRMEITVQTGKGYVPADRNRPEDAPIGLIPVDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY+VE+ REGQVLDYDKL + ++T+G++T ED+ A A+RILQDQL +F+NF+EPK++ Sbjct: 180 RRVSYSVENTREGQVLDYDKLILEVETNGAVTPEDAAAFAARILQDQLQIFVNFDEPKRD 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + L FN ALL+KV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 DQGGADEELL-FNAALLRKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL T+GL LGM++PDWPP++IEELA+K+ED+ Sbjct: 299 KSLNEIKEVLATLGLHLGMDVPDWPPDNIEELARKFEDQ 337 >gi|240138767|ref|YP_002963239.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Methylobacterium extorquens AM1] gi|254561367|ref|YP_003068462.1| DNA-directed RNA polymerase alpha chain [Methylobacterium extorquens DM4] gi|240008736|gb|ACS39962.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Methylobacterium extorquens AM1] gi|254268645|emb|CAX24604.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Methylobacterium extorquens DM4] Length = 339 Score = 420 bits (1080), Expect = e-115, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQV-TAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D KR+T+ K GPG+VTAGDI Sbjct: 61 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDQPKRMTLRKTGPGLVTAGDIG 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V DI++LNPD VIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +DALYSP+ Sbjct: 121 AVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDALYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRVETTREGQDLDKDKLTMTLETNGAVSPEDALAYAARIIQDQLQVFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|296445047|ref|ZP_06887008.1| DNA-directed RNA polymerase, alpha subunit [Methylosinus trichosporium OB3b] gi|296257468|gb|EFH04534.1| DNA-directed RNA polymerase, alpha subunit [Methylosinus trichosporium OB3b] Length = 339 Score = 420 bits (1080), Expect = e-115, Method: Composition-based stats. Identities = 212/337 (62%), Positives = 269/337 (79%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP+ +E G + + +AEPL RGF TLGNALRR+L+SSL+G+AIT Sbjct: 3 IQKNWQELIKPSKLEV-TAGDDPRRVAVAVAEPLERGFGVTLGNALRRILLSSLQGSAIT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++ IDGVLHE SSI GV ED+TDI+LNIK I +K + KR+T+ K GPG VTAGDIQT Sbjct: 62 SIHIDGVLHEFSSIPGVREDVTDIVLNIKDIAIKNHAEGVKRMTLKKTGPGPVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D+++LNPD VIC LD A +R+E TV+ G GYVPA +R E+ PIGLI ID+LYSP+K Sbjct: 122 PGDVQILNPDLVICTLDEGAEIRVEFTVATGKGYVPADRNRAEDAPIGLIPIDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ R GQVLDYDKL++TI+T+G+I+ EDS+A A+RILQDQL +F+NFEEP++E Sbjct: 182 KVSYRVENTRAGQVLDYDKLTLTIETNGAISPEDSLAYAARILQDQLSVFVNFEEPRRE- 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++EA+MLR NFGRK Sbjct: 241 ETAPSIPQLAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I++LAK++E+ Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDDLAKRFEE 337 >gi|119383536|ref|YP_914592.1| DNA-directed RNA polymerase subunit alpha [Paracoccus denitrificans PD1222] gi|158512588|sp|A1B052|RPOA_PARDP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119373303|gb|ABL68896.1| DNA-directed RNA polymerase subunit alpha [Paracoccus denitrificans PD1222] Length = 338 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 262/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E I G + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-IKPGADSSRVATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG+ LKM D+ KR+T+ +GPG V AGDIQ Sbjct: 60 TSVQIDNVLHEFSSVPGVREDVTDIVLNLKGVTLKMDVDAPKRLTLSAKGPGEVKAGDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 I +LN DHVIC+LD A + MEL V+ G GYV A +R E+ PIGLI IDA++SP+ Sbjct: 120 ESAGITILNRDHVICHLDEGAELHMELAVANGKGYVAADKNRPEDAPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY V REGQVLDYDKL+M ++TDGS+T ED+VA A+RI+QDQL +F+NF+EP+ Sbjct: 180 KRVSYEVTPTREGQVLDYDKLTMKVETDGSLTPEDAVAYAARIIQDQLSVFVNFDEPETA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D L F+P LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TRSDAE-DGLEFDPRLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAK+++D+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVVDWPPENIEDLAKRFDDQ 337 >gi|315497997|ref|YP_004086801.1| DNA-directed RNA polymerase, alpha subunit [Asticcacaulis excentricus CB 48] gi|315416009|gb|ADU12650.1| DNA-directed RNA polymerase, alpha subunit [Asticcacaulis excentricus CB 48] Length = 338 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 208/339 (61%), Positives = 262/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + GQ+ + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQIES-GQDSQRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGV+HE SSI+GV ED+ DIILNIK + L+M + KR+ + G VTAG I Sbjct: 60 TAVQIDGVVHEFSSIEGVREDVVDIILNIKQLALRMHAEGPKRMVLRASSAGPVTAGMID 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIEVLNPDHVIC LD A VRME TV G GYVPA R E+ PIGLI +DALYSP+ Sbjct: 120 VPSDIEVLNPDHVICTLDEGASVRMEFTVQTGKGYVPADRLRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE R+GQ LDYDKL + ++T+ ++T D+VA A+RILQDQL +FI FEEPK Sbjct: 180 KKVAYRVEPTRQGQSLDYDKLVLDVETNAAVTPVDAVAYAARILQDQLQIFITFEEPKPA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 240 I-VEEGKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLQSMGLSLGMDVPNWPPENVEDLAKKFEDQ 337 >gi|298291462|ref|YP_003693401.1| DNA-directed RNA polymerase, subunit alpha [Starkeya novella DSM 506] gi|296927973|gb|ADH88782.1| DNA-directed RNA polymerase, alpha subunit [Starkeya novella DSM 506] Length = 338 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 219/338 (64%), Positives = 277/338 (81%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP +E +G + + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLEV-AVGSDPKRLATVVAEPLERGFGQTLGNALRRILLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDI+LNIK I +KM+GD KR+ + K+GPG+VTAGDIQ Sbjct: 60 TSVHIDGVLHEFSSIPGVREDVTDIVLNIKDIAIKMAGDGPKRMVVKKQGPGIVTAGDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D++VLNP+ V+C LD A +RME TV G GYV + +R E+ PIGLI +D+LYSP+ Sbjct: 120 TVGDVQVLNPELVLCTLDDGAEIRMEFTVDTGKGYVAGERNRPEDAPIGLIPVDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ+LDYDKL+MTI+T+GS++ ED++A A+RILQDQL +F+NFEEPK+E Sbjct: 180 KKVSYKVENTREGQILDYDKLTMTIETNGSVSPEDALAFAARILQDQLEIFVNFEEPKRE 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TE-SPAMQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAK++ED Sbjct: 299 KSLNEIKEVLASMGLHLGMEVPGWPPENIEDLAKRFED 336 >gi|304391480|ref|ZP_07373422.1| DNA-directed RNA polymerase, alpha subunit [Ahrensia sp. R2A130] gi|303295709|gb|EFL90067.1| DNA-directed RNA polymerase, alpha subunit [Ahrensia sp. R2A130] Length = 335 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 271/339 (79%), Gaps = 5/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NWQELIKP ++ + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIHRNWQELIKPTKLDV----SSNGTKGTLVAEPLERGFGLTLGNALRRVLLSSLQGAAV 56 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK + ++M G+ KR+ + K G GVVTAGDIQ Sbjct: 57 TAVQIDGVLHEFSSIPGVREDVTDIILNIKELAIRMEGEGPKRMVVRKEGAGVVTAGDIQ 116 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HV+C LD DA +RME TV G GYV A +R E+ PIGLI +DAL+SP+ Sbjct: 117 TVGDLEILNPEHVLCTLDEDAEIRMEFTVDTGKGYVAADRNRPEDAPIGLIPVDALFSPV 176 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY E+ REGQVLDYDKL+MTI+TDGS+T ED+VA +RILQDQL +F+NFEEP+KE Sbjct: 177 RKVSYKTENTREGQVLDYDKLTMTIETDGSVTPEDAVAYGARILQDQLSIFVNFEEPQKE 236 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V ++ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE +MLR NFGR Sbjct: 237 VVQEQ-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEGEMLRTPNFGR 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM +P WPPE+I++LAK+YED+ Sbjct: 296 KSLNEIKEVLATMGLHLGMEIPAWPPENIDDLAKRYEDQ 334 >gi|13470575|ref|NP_102144.1| DNA-directed RNA polymerase subunit alpha [Mesorhizobium loti MAFF303099] gi|260468530|ref|ZP_05813697.1| DNA-directed RNA polymerase, alpha subunit [Mesorhizobium opportunistum WSM2075] gi|20139638|sp|Q98N33|RPOA_RHILO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|14021317|dbj|BAB47930.1| DNA-directed RNA polymerase alpha subunit [Mesorhizobium loti MAFF303099] gi|259028686|gb|EEW29995.1| DNA-directed RNA polymerase, alpha subunit [Mesorhizobium opportunistum WSM2075] Length = 336 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 236/339 (69%), Positives = 281/339 (82%), Gaps = 4/339 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN IE+ +++ T ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKIEF---SSKKKTLTTLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I ++M GD KR+ + K+GPG V AGDIQ Sbjct: 58 TAVQIDGVLHEFSSIAGVREDVTDIVLNIKEIAIRMEGDGPKRMVVRKQGPGAVLAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD A +RME TV G GYVPA+ +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDVEILNPDHVICTLDEGAEIRMEFTVDTGKGYVPAERNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQVLDYDKL+MTI+TDGSI+GED+VA A+RILQDQLG+F+NF+EP+KE Sbjct: 178 KKVSYKVENTREGQVLDYDKLTMTIETDGSISGEDAVAFAARILQDQLGLFVNFDEPQKE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 238 VA-AEAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 296 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +PDWPPE+IE+LAK+YED+ Sbjct: 297 KSLNEIKEVLAAMGLHLGMEVPDWPPENIEDLAKRYEDQ 335 >gi|209964064|ref|YP_002296979.1| DNA-directed RNA polymerase subunit alpha [Rhodospirillum centenum SW] gi|259494170|sp|B6IRT0|RPOA_RHOCS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|209957530|gb|ACI98166.1| DNA-directed RNA polymerase, alpha subunit [Rhodospirillum centenum SW] Length = 338 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 200/338 (59%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQ L KP+ ++ I G + + ++A PL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 1 MIQKNWQTLEKPSKLD-ITPGSDPKREATIVAGPLERGFGLTLGNAIRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T++ IDGVLHE SSI GV ED+TDI+LNIK + LKM + +R+ + GP VTAG I+ Sbjct: 60 TSIHIDGVLHEFSSIPGVREDVTDIVLNIKAMALKMGAEGPRRMRLRAEGPCEVTAGMIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DIEVL+P HVIC LD A + MELTV+ G GYVPA +R E+ PIGLI +DA++SP+ Sbjct: 120 TGADIEVLDPGHVICTLDSGARLNMELTVAMGKGYVPASQNRPEDAPIGLIPVDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y VE+ R GQ DYDKL + ++T+G+++ ED+VA+A+RILQDQL MFINFEEP+ Sbjct: 180 RKVAYKVENTRVGQTTDYDKLLLNVETNGAVSPEDAVAIAARILQDQLQMFINFEEPQAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V E +PFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TEA+MLR NFGR Sbjct: 240 VAE-TKADEIPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IE+LAK+ E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEIPNWPPENIEDLAKRLEE 336 >gi|218530408|ref|YP_002421224.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium chloromethanicum CM4] gi|254765256|sp|B7L0S5|RPOA_METC4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|218522711|gb|ACK83296.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium chloromethanicum CM4] Length = 339 Score = 420 bits (1079), Expect = e-115, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 270/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLQV-TAGDDPKRVATVVAEPLERGFGTTLGNSLRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SSI GV ED+TDI+LNIK I ++ D KR+T+ K GPG+VTAGDI Sbjct: 61 TSVQIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSQTDQPKRMTLRKTGPGLVTAGDIG 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V DI++LNPD VIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +DALYSP+ Sbjct: 121 AVGDIQILNPDLVICTLDDGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDALYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQ LD DKL++T++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRVETTREGQDLDKDKLTITLETNGAVSPEDALAYAARIIQDQLQVFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAGMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|83312207|ref|YP_422471.1| DNA-directed RNA polymerase subunit alpha [Magnetospirillum magneticum AMB-1] gi|119366694|sp|Q2W2L3|RPOA_MAGSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|82947048|dbj|BAE51912.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magneticum AMB-1] Length = 338 Score = 419 bits (1078), Expect = e-115, Method: Composition-based stats. Identities = 207/338 (61%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN + ++ G + + +++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPNKL-HVEPGADPQRTAIVVAEPLERGFGMTLGNSLRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SSI GV ED+TDIILNIK + L+M G+ KR+ + GPG VTAG I+ Sbjct: 60 TAIQIDGVLHEFSSIPGVREDVTDIILNIKTLGLRMHGEGPKRMHLRAVGPGEVTAGLIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIE+++P+ V+C LD A + +E TV G GYVPA +R E+ PIGLI IDA++SP+ Sbjct: 120 VGHDIEIMDPELVLCTLDEGAKLNIEFTVETGKGYVPASQNRPEDSPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y VE+ R GQV DYDKLSMT++T+G++T +D+VALA+RILQDQL +FINFEEP Sbjct: 180 RKVAYKVENTRVGQVTDYDKLSMTVETNGAVTPDDAVALAARILQDQLQLFINFEEPTAV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+E LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR NFGR Sbjct: 240 VEE-EKKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + +WPPE+IEELAKK E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEIANWPPENIEELAKKLEE 336 >gi|220921923|ref|YP_002497224.1| DNA-directed RNA polymerase subunit alpha [Methylobacterium nodulans ORS 2060] gi|254765257|sp|B8IT35|RPOA_METNO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|219946529|gb|ACL56921.1| DNA-directed RNA polymerase, alpha subunit [Methylobacterium nodulans ORS 2060] Length = 339 Score = 419 bits (1078), Expect = e-115, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 272/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN +E G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VIQKNWQELIKPNKLEV-APGHDPKRIATVVAEPLERGFGTTLGNALRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDI+LNIK I ++ S D+ KR+T+ K GPG+VTAGDI Sbjct: 61 TSVHIDGVLHEFSSIPGVREDVTDIVLNIKTIAIRSSSDTPKRMTLRKTGPGLVTAGDIS 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T+ DI++LNPD V+C LD A +RME TV+ G GYVPA +R E+ PIGLI +DAL+SP+ Sbjct: 121 TIGDIQILNPDLVLCTLDEGAEIRMEFTVATGKGYVPADRNRPEDAPIGLIPVDALFSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY +E+ REGQ LD DKL+MT++T+G+++ ED++A A+RI+QDQL +F+NFEEP+KE Sbjct: 181 TKVSYRIENTREGQDLDKDKLTMTVETNGAVSPEDALAYAARIIQDQLQIFVNFEEPRKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 241 -EAAPLAPQLPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK++E+ Sbjct: 300 KSLNEIKEVLAAMGLHLGMDVPGWPPENIEDLAKRFEE 337 >gi|58038831|ref|YP_190795.1| DNA-directed RNA polymerase subunit alpha [Gluconobacter oxydans 621H] gi|81557187|sp|Q5FU07|RPOA_GLUOX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|58001245|gb|AAW60139.1| DNA-directed RNA polymerase alpha chain [Gluconobacter oxydans 621H] Length = 339 Score = 419 bits (1077), Expect = e-115, Method: Composition-based stats. Identities = 197/338 (58%), Positives = 258/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEV-EPGPVASRIATVVAEPLERGFGMTLGNALRRILLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE S++ GV ED+TDI+LN+K + L+M G+ KR+ + GPG VTAG IQ Sbjct: 61 TAIQIDGVLHEFSAVPGVREDVTDIVLNVKQLALRMHGEGPKRMILTATGPGEVTAGQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIE++NPD VIC LD + ME TV+ G GYV A +R E+ PIGLI IDA+YSP+ Sbjct: 121 AGHDIEIMNPDLVICTLDDGVKLGMEFTVNMGKGYVAAAANRPEDAPIGLIPIDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY +E R GQV DYDKL +T++T+G++T EDS+ALA+RILQDQL +FINF+EP+ Sbjct: 181 RRVSYKIEQTRVGQVTDYDKLLLTVETNGAVTPEDSLALAARILQDQLQLFINFDEPRP- 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGR Sbjct: 240 VQHEEPQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTGMGLSLGMSVPAWPPENIEDLAKRLDE 337 >gi|154253201|ref|YP_001414025.1| DNA-directed RNA polymerase subunit alpha [Parvibaculum lavamentivorans DS-1] gi|154157151|gb|ABS64368.1| DNA-directed RNA polymerase, alpha subunit [Parvibaculum lavamentivorans DS-1] Length = 357 Score = 418 bits (1076), Expect = e-115, Method: Composition-based stats. Identities = 216/339 (63%), Positives = 272/339 (80%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNW+ELIKPN +E I G + + ++AEPL RGF TLGNALRRVLMSSL+GAA+ Sbjct: 20 LIQKNWEELIKPNKLE-INPGHDAQRFATVVAEPLERGFGLTLGNALRRVLMSSLQGAAV 78 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK + L++ + KR+++ K+GPGVVTAGDI Sbjct: 79 TAVQIDGVLHEFSSIAGVREDVTDIILNIKQLALRLHAEGPKRMSLSKKGPGVVTAGDIT 138 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIEVLNPD V+C LD A +RME TV+ G GYV + +R E+ PIGL+ +D+LYSP+ Sbjct: 139 AGADIEVLNPDLVLCTLDEGAEIRMEFTVALGKGYVASDRNRPEDAPIGLMPVDSLYSPV 198 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY VE+ REGQVLDYDKL++ I+T+G+IT +D+VA A+RILQDQL F+NFEEP+++ Sbjct: 199 KRVSYKVENTREGQVLDYDKLTLQIETNGAITPDDAVAYAARILQDQLQTFVNFEEPEQK 258 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 259 -HVEESRPELEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 317 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P+WPPE+IEELAK+YED+ Sbjct: 318 KSLNEIKEVLAQMGLHLGMEVPNWPPENIEELAKRYEDQ 356 >gi|296534011|ref|ZP_06896527.1| DNA-directed RNA polymerase subunit alpha [Roseomonas cervicalis ATCC 49957] gi|296265677|gb|EFH11786.1| DNA-directed RNA polymerase subunit alpha [Roseomonas cervicalis ATCC 49957] Length = 338 Score = 418 bits (1076), Expect = e-115, Method: Composition-based stats. Identities = 196/338 (57%), Positives = 258/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+++NW+ LI+P ++ G + +++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MLERNWRSLIRPEKLDV-EPGADPSRVAVVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA++IDG LHE SS++GV ED+TDI+LNIK + ++M + KR+ + GPG VTAG IQ Sbjct: 60 TAIRIDGALHEFSSLQGVREDVTDIVLNIKRLAIRMQSEGPKRLQLTATGPGEVTAGQIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DIE+ NP+ VIC LD A + MELTV G GYVPA +R E+ PIGLI +DA+YSP+ Sbjct: 120 TTGDIEIANPELVICTLDDGAKLSMELTVDVGKGYVPASENRPEDAPIGLIPVDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y V+ R GQ DYDKL +T++TDG++ ED+VALA+RILQDQL +FINF+EP+ E Sbjct: 180 RRVAYQVQPTRVGQRTDYDKLVLTVETDGTVAPEDAVALAARILQDQLQLFINFDEPR-E 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 239 RKVEEVQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMTVPGWPPENIEDLAKKIEE 336 >gi|254501022|ref|ZP_05113173.1| DNA-directed RNA polymerase, alpha subunit [Labrenzia alexandrii DFL-11] gi|222437093|gb|EEE43772.1| DNA-directed RNA polymerase, alpha subunit [Labrenzia alexandrii DFL-11] Length = 340 Score = 418 bits (1076), Expect = e-115, Method: Composition-based stats. Identities = 221/337 (65%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP +E I G + ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 3 IQKNWQELIKPTKLE-IKPGDDPRFLATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K+GPGVVTAGDIQT Sbjct: 62 AVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+EVLNPD V+C LD A +RME TV+ G GY + +R E+ PIGLI +D+LYSP+K Sbjct: 122 VGDVEVLNPDLVLCTLDEGAEIRMEFTVNTGKGYHSSDRNRPEDAPIGLIPVDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++T++TDGS+ +D+VA A+RILQDQL +F+NFEEP++EV Sbjct: 182 KVSYKVENTREGQVLDYDKLTLTVETDGSVKPDDAVAFAARILQDQLSIFVNFEEPQREV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRK Sbjct: 242 AEDT-VPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I++LAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDDLAKRYED 337 >gi|307946311|ref|ZP_07661646.1| DNA-directed RNA polymerase, alpha subunit [Roseibium sp. TrichSKD4] gi|307769975|gb|EFO29201.1| DNA-directed RNA polymerase, alpha subunit [Roseibium sp. TrichSKD4] Length = 340 Score = 418 bits (1075), Expect = e-115, Method: Composition-based stats. Identities = 220/337 (65%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP +E G + ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 3 IQKNWQELIKPTKLEV-KPGDDPRFLATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K+GPGVVTAGDIQT Sbjct: 62 AVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+EVLNP+ V+C LD A +RME TV+ G GYV + +R E+ PIGLI +D+LYSP+K Sbjct: 122 VGDVEVLNPELVLCTLDEGAEIRMEFTVNTGKGYVASDRNRPEDAPIGLIPVDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++T++TDGS+ +D+VA A+RILQDQL +F+NFEEP++EV Sbjct: 182 KVSYKVENTREGQVLDYDKLTLTVETDGSVKPDDAVAFAARILQDQLSIFVNFEEPQREV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRK Sbjct: 242 AEDT-VPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I++LAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDDLAKRYED 337 >gi|323136111|ref|ZP_08071194.1| DNA-directed RNA polymerase, alpha subunit [Methylocystis sp. ATCC 49242] gi|322399202|gb|EFY01721.1| DNA-directed RNA polymerase, alpha subunit [Methylocystis sp. ATCC 49242] Length = 339 Score = 418 bits (1074), Expect = e-115, Method: Composition-based stats. Identities = 215/337 (63%), Positives = 269/337 (79%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKPN +E G + +AEPL RGF TLGNALRR+L+SSL+GAAIT Sbjct: 3 IQKNWQELIKPNKLEV-TAGDDPRRVATAVAEPLERGFGVTLGNALRRILLSSLQGAAIT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++ IDGVLHE SSI GV ED+TDI+LNIK I +K G+ KR+T+ K GPG VTAGDIQ Sbjct: 62 SIHIDGVLHEFSSIPGVREDVTDIVLNIKDIAIKYQGEGVKRLTLKKTGPGAVTAGDIQA 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D++VLNPD VIC LD A +R+E TVS G GYVPA +R E+ PIGLI +D+LYSP+K Sbjct: 122 TGDVQVLNPDLVICTLDEGAEIRIEFTVSTGKGYVPADRNRAEDAPIGLIPVDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++TI+T+G+IT ED++A ++RILQDQL +F+NFEEP++E Sbjct: 182 KVSYRVENTREGQVLDYDKLTLTIETNGAITPEDALAFSARILQDQLNVFVNFEEPRRE- 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++EA+MLR NFGRK Sbjct: 241 EAAPSIPQLAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I++LAK++E+ Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDDLAKRFEE 337 >gi|118591156|ref|ZP_01548555.1| DNA-directed RNA polymerase subunit alpha [Stappia aggregata IAM 12614] gi|118436232|gb|EAV42874.1| DNA-directed RNA polymerase subunit alpha [Stappia aggregata IAM 12614] Length = 340 Score = 417 bits (1073), Expect = e-115, Method: Composition-based stats. Identities = 221/337 (65%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP +E I G++ ++AEPL RG+ TLGNALRR+L+SSL+GAA+T Sbjct: 3 IQKNWQELIKPTKLE-IKPGEDPRFLATVVAEPLERGYGLTLGNALRRILLSSLQGAAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AVQIDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K+GPGVVTAGDIQT Sbjct: 62 AVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+EVLNP+ V+C LD A +RME TV+ G GY + +R E+ PIGLI +D+LYSP+K Sbjct: 122 VGDVEVLNPELVLCTLDEGAEIRMEFTVNTGKGYHSSDRNRPEDAPIGLIPVDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++T++TDGS+ ED+VA A+RILQDQL +F+NFEEP++EV Sbjct: 182 KVSYKVENTREGQVLDYDKLTLTVETDGSVKPEDAVAFAARILQDQLSIFVNFEEPQREV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED +V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRK Sbjct: 242 AED-SVPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I++LAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDDLAKRYED 337 >gi|296116709|ref|ZP_06835319.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter hansenii ATCC 23769] gi|295976921|gb|EFG83689.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter hansenii ATCC 23769] Length = 339 Score = 417 bits (1073), Expect = e-114, Method: Composition-based stats. Identities = 205/338 (60%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEV-EPGAEPSRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SS+ GV ED+TDI+LNIK + L+M G+ KR+ + GPG V AG IQ Sbjct: 61 TAIQIDGVLHEFSSVAGVREDVTDIVLNIKQLALRMHGEGPKRMVLTATGPGEVRAGQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIEV+NPD VIC LD ME TV+ G GYVPA +R E+ PIGLI IDA+YSP+ Sbjct: 121 TGHDIEVMNPDLVICTLDEGVKFGMEFTVNMGKGYVPAAANRPEDAPIGLIPIDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE R GQV DYD+L +T++T+G++T EDSVALA+RILQDQL +FINF+EP+ Sbjct: 181 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDSVALAARILQDQLQLFINFDEPR-A 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 VRTEEPQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGMN+P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTAMGLSLGMNVPAWPPENIEDLAKRLDE 337 >gi|162149150|ref|YP_001603611.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter diazotrophicus PAl 5] gi|209545106|ref|YP_002277335.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter diazotrophicus PAl 5] gi|189043839|sp|A9H3I9|RPOA_GLUDA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|161787727|emb|CAP57323.1| DNA-directed RNA polymerase alpha chain [Gluconacetobacter diazotrophicus PAl 5] gi|209532783|gb|ACI52720.1| DNA-directed RNA polymerase, alpha subunit [Gluconacetobacter diazotrophicus PAl 5] Length = 339 Score = 417 bits (1073), Expect = e-114, Method: Composition-based stats. Identities = 202/338 (59%), Positives = 260/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEV-EPGGEPLRTATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SS+ GV ED+TDI+LN+K + L+M G+ KR+ + GPG V AG IQ Sbjct: 61 TAIQIDGVLHEFSSVAGVREDVTDIVLNVKQLALRMHGEGPKRMVLTATGPGEVRAGQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIEV+NPD VIC LD ME TV+ G GYVPA +R E+ PIGLI +DA+YSP+ Sbjct: 121 TGHDIEVMNPDLVICTLDEGVKFGMEFTVNLGKGYVPAAANRPEDAPIGLIPVDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE R GQV DYD+L +T++T+G++T ED+VALA+RILQDQL +FINF+EP+ Sbjct: 181 RRVSYKVEPTRVGQVTDYDRLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRP- 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 VRTEEPQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEDLAKRLDE 337 >gi|114327242|ref|YP_744399.1| DNA-directed RNA polymerase subunit alpha [Granulibacter bethesdensis CGDNIH1] gi|119366685|sp|Q0BUM6|RPOA_GRABC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114315416|gb|ABI61476.1| DNA-directed RNA polymerase alpha chain [Granulibacter bethesdensis CGDNIH1] Length = 339 Score = 417 bits (1073), Expect = e-114, Method: Composition-based stats. Identities = 203/338 (60%), Positives = 260/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQ+NWQ LIKP ++ G E ++AEPL RGF TLGNA+RR+L+SSL+GAA+ Sbjct: 2 VIQRNWQSLIKPEKLDV-EPGNEPSRIATIVAEPLERGFGMTLGNAIRRILLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SS+ GV ED+TDI+LNIK + L+M G+ KR+ + GPG VTAG IQ Sbjct: 61 TAVQIDGVLHEFSSVAGVREDVTDIVLNIKQLALRMHGEGPKRMMLTATGPGEVTAGQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIE++NPD V+C LD + ME TV+ G GYVPA +R E+ PIGLI IDA+YSP+ Sbjct: 121 AGHDIEIMNPDLVLCTLDDGVKLGMEFTVNLGKGYVPASQNRQEDSPIGLIPIDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE R GQV DYDKL +T++T+G++T EDSVALA+RILQDQL +FINFEEP ++ Sbjct: 181 RRVSYKVEPTRVGQVTDYDKLLLTVETNGAVTPEDSVALAARILQDQLQLFINFEEP-QQ 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ D LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGR Sbjct: 240 VRHDEPQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ WPPE+IE+LAK+ E+ Sbjct: 300 KSLNEIKEVLANMGLSLGMSVSGWPPENIEDLAKRLEE 337 >gi|144900908|emb|CAM77772.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) [Magnetospirillum gryphiswaldense MSR-1] Length = 338 Score = 417 bits (1072), Expect = e-114, Method: Composition-based stats. Identities = 204/338 (60%), Positives = 263/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ G + +IAEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPSKLQV-EPGADAARVATVIAEPLERGFGMTLGNSLRRILLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QI+GVLHE SS+ GV ED+TDIILNIK + L+M G+ KR+ + GPG V AG I+ Sbjct: 60 TAIQIEGVLHEFSSVPGVREDVTDIILNIKNLGLRMHGEGPKRMQLRASGPGEVKAGMIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIE+++PD V+C LD A + +E TV G GYVPA +RTE+ PIGLI IDA++SP+ Sbjct: 120 AGHDIEIMDPDLVLCTLDQGAKLNIEFTVETGKGYVPASQNRTEDSPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE+ R GQV DYDKLSM ++T+G++T +D+VALA+RILQDQL +FINF+EP Sbjct: 180 KKVAYKVENTRVGQVTDYDKLSMVLETNGAVTPDDAVALAARILQDQLQLFINFDEPTHV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+E LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR NFGR Sbjct: 240 VEE-EKKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IE+LAKK E+ Sbjct: 299 KSLNEIKEVLSHMGLHLGMEIPNWPPENIEDLAKKLEE 336 >gi|115525561|ref|YP_782472.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris BisA53] gi|122295431|sp|Q07KP2|RPOA_RHOP5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|115519508|gb|ABJ07492.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris BisA53] Length = 339 Score = 417 bits (1072), Expect = e-114, Method: Composition-based stats. Identities = 216/337 (64%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TPGSDSGRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ + K+GPG VTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVVKKQGPGTVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+L+SP++ Sbjct: 122 VGDIVVLNPDLQICTLDDGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLFSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G+IT +D+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTIETNGAITPDDAVAYAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|83949763|ref|ZP_00958496.1| DNA-directed RNA polymerase alpha subunit [Roseovarius nubinhibens ISM] gi|83837662|gb|EAP76958.1| DNA-directed RNA polymerase alpha subunit [Roseovarius nubinhibens ISM] Length = 338 Score = 417 bits (1072), Expect = e-114, Method: Composition-based stats. Identities = 208/338 (61%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPLRQATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG+ L+M + KR++I +GPGVVTA DI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVALRMDVEGPKRLSISAKGPGVVTAADIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + +ELTV+ G GYV A ++ E+ PIG+I +DA+YSP+ Sbjct: 120 ETAGIEVLNRDHVICHLDEGADLYVELTVNTGKGYVAADKNKPEDAPIGMIPVDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY V+ REGQVLDYDKL+M I+TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 RRVSYDVQPTREGQVLDYDKLTMKIETDGSITPDDAVAFAARILQDQLSIFVNFDEPEAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|329850231|ref|ZP_08265076.1| DNA-directed RNA polymerase, alpha subunit [Asticcacaulis biprosthecum C19] gi|328840546|gb|EGF90117.1| DNA-directed RNA polymerase, alpha subunit [Asticcacaulis biprosthecum C19] Length = 338 Score = 417 bits (1072), Expect = e-114, Method: Composition-based stats. Identities = 205/339 (60%), Positives = 257/339 (75%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++NWQ+LI+P + G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIERNWQQLIRPEKPQV-EAGTDASRKMRLVAEPLERGFGVTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGV+HE SSI+GV ED+ DIILNIK + L+M + KR+ + G G VTAG I Sbjct: 60 TSVQIDGVVHEFSSIEGVREDVVDIILNIKQLALRMHAEGPKRMVLRASGAGPVTAGQID 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIEVLNPDHVIC LD A VRME TV G GYV A R E+ PIGLI +DALYSP+ Sbjct: 120 VPADIEVLNPDHVICTLDEGASVRMEFTVQNGKGYVAADRLRPEDAPIGLIAVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE R+GQ LDYDKL + ++T+ ++T D+VA A+RILQDQL +FI FEEPK Sbjct: 180 KKVAYRVEPTRQGQSLDYDKLILDVETNAAVTPVDAVAFAARILQDQLQIFITFEEPKAP 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLI +TE++MLR NFGR Sbjct: 240 V-VEEGKPELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLILKTESEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +M L LGM++P+WPPE++E+LAKK+ED+ Sbjct: 299 KSLNEIKEVLASMNLSLGMDIPNWPPENVEDLAKKFEDQ 337 >gi|154248691|ref|YP_001419649.1| DNA-directed RNA polymerase subunit alpha [Xanthobacter autotrophicus Py2] gi|254765264|sp|A7IPP6|RPOA_XANP2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|154162776|gb|ABS69992.1| DNA-directed RNA polymerase, alpha subunit [Xanthobacter autotrophicus Py2] Length = 338 Score = 417 bits (1071), Expect = e-114, Method: Composition-based stats. Identities = 210/338 (62%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP ++ G + + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPEKLQV-NPGHDPKRFATVIAEPLERGFGMTLGNALRRILLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T++ IDGVLHE SSI GV ED+TDIILN+K + ++M GD KR+ K GPGV+ AGDIQ Sbjct: 60 TSIHIDGVLHEFSSIPGVREDVTDIILNVKDVAIRMQGDGPKRMVAKKTGPGVLLAGDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+ +LNP+ IC LD A +R+E TV G GYV A +R E+ PIGLI ID+LYSP+ Sbjct: 120 TVGDVAILNPNLPICTLDEGAELRIEFTVDTGKGYVAADRNRPEDAPIGLIPIDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQ+LDYDKL++ I+T+GSIT ED++A A+RILQDQL +F+NFEEPK+E Sbjct: 180 RKVSYKVENTREGQILDYDKLTLQIETNGSITAEDALAYAARILQDQLEIFVNFEEPKRE 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + +++LPF+PALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 240 SET-TAIQTLPFSPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL ++GL LGM +P WPPE+IEELAK++E+ Sbjct: 299 KSLNEIKEVLASLGLHLGMEVPGWPPENIEELAKRFEE 336 >gi|330993873|ref|ZP_08317805.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter sp. SXCC-1] gi|329759141|gb|EGG75653.1| DNA-directed RNA polymerase subunit alpha [Gluconacetobacter sp. SXCC-1] Length = 339 Score = 417 bits (1071), Expect = e-114, Method: Composition-based stats. Identities = 203/338 (60%), Positives = 259/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNA+RRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEV-EPGAEPSRIATVVAEPLERGFGMTLGNAIRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SS+ GV ED+TDI+LNIK + L+M G+ KR+ + GPG V AG IQ Sbjct: 61 TAIQIDGVLHEFSSVAGVREDVTDIVLNIKQLALRMHGEGPKRMVLTATGPGEVRAGQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIEV+NPD VIC LD ME TV+ G GYVPA +R E+ PIGLI +DA+YSP+ Sbjct: 121 TGHDIEVMNPDLVICTLDEGVKFGMEFTVNMGKGYVPAAANRPEDAPIGLIPVDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE R GQV DYD+L +T++T+G++T ED+VALA+RILQDQL +FINF+EP+ Sbjct: 181 RRVSYKVEQTRVGQVTDYDRLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPR-T 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 VRTEEPQDDLPFNRNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGMN+P WPPE+IE+LAK+ ++ Sbjct: 300 KSLNEIKEVLTAMGLSLGMNVPAWPPENIEDLAKRLDE 337 >gi|114767226|ref|ZP_01446091.1| DNA-directed RNA polymerase alpha subunit [Pelagibaca bermudensis HTCC2601] gi|114540636|gb|EAU43707.1| DNA-directed RNA polymerase alpha subunit [Roseovarius sp. HTCC2601] Length = 338 Score = 416 bits (1070), Expect = e-114, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-RPGADPSRVATVVAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++L+M + KR++I GPG VTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLRMEVEGPKRLSINATGPGAVTAGDIA 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + +ELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ETAGIEVLNKDHVICHLDDGADLYVELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y V+ REGQVLDYDKL+M ++TDGS+T ED++A A+RILQDQL +F+NF+EP+ Sbjct: 180 KRVAYEVQPTREGQVLDYDKLTMKVETDGSVTPEDAIAFAARILQDQLSIFVNFDEPEAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++ DWPP++IE+LAKK ED+ Sbjct: 299 KSLNEIKEVLSSMGLHLGMDVEDWPPDNIEDLAKKLEDQ 337 >gi|27380487|ref|NP_772016.1| DNA-directed RNA polymerase subunit alpha [Bradyrhizobium japonicum USDA 110] gi|41688696|sp|Q89JA7|RPOA_BRAJA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|27353651|dbj|BAC50641.1| DNA-directed RNA polymerase alpha subunit [Bradyrhizobium japonicum USDA 110] Length = 343 Score = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 217/337 (64%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQV-TPGSDPARFATIVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ + K+GPGVVTAGDIQT Sbjct: 66 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVVKKQGPGVVTAGDIQT 125 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+ VLNPD IC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP++ Sbjct: 126 VGDVVVLNPDLQICTLDEGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPVDSLYSPVR 185 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G+I+ +DSVA A+RILQDQL +F+NFEEP+KEV Sbjct: 186 KVSYKVENTREGQILDYDKLTMTIETNGAISPDDSVAYAARILQDQLNVFVNFEEPRKEV 245 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 246 AQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 304 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 305 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 341 >gi|316933551|ref|YP_004108533.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris DX-1] gi|315601265|gb|ADU43800.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris DX-1] Length = 339 Score = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 219/337 (64%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I+LKM G+ KR+ I K GPGVVTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISLKMQGEGPKRMVIKKSGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD +C LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDIVVLNPDLQLCTLDDGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MT++T+G+IT ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTVETNGAITPEDAVAYAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|163796895|ref|ZP_02190852.1| lipoyltransferase [alpha proteobacterium BAL199] gi|159177884|gb|EDP62433.1| lipoyltransferase [alpha proteobacterium BAL199] Length = 338 Score = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 206/338 (60%), Positives = 263/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQ LIKP+ ++ I G + + ++AEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIQKNWQALIKPSKLD-IQAGYDPKRTATVVAEPLERGFGLTLGNALRRILLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +A+QIDGVLHE SS+ GV ED+TDI+LNIK + ++M G+ K++ + GPG VTAG I+ Sbjct: 60 SAIQIDGVLHEFSSVPGVREDVTDIVLNIKSVAIRMHGEGPKKMRLKAEGPGEVTAGMIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE++NP HVIC LD DA + MELTV G GYV A +R E+ PIGLI +D++YSP+ Sbjct: 120 TVGDIEIMNPKHVICTLDRDATLSMELTVETGKGYVAASANRPEDAPIGLIPVDSIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE+ R GQV DYDKLSMT++TDGS+T ED+VA A+RILQDQL +F+NFEEP Sbjct: 180 RQVSYKVENTRVGQVTDYDKLSMTLETDGSMTPEDAVAYAARILQDQLQLFVNFEEPTHR 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + LPFN LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q+TE +MLR NFGR Sbjct: 240 AE-AEEAHDLPFNKNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKTEPEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM + +WPPE+IEELAK+ E+ Sbjct: 299 KSLNEIKEVLASMGLSLGMEITNWPPENIEELAKRLEE 336 >gi|91977628|ref|YP_570287.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris BisB5] gi|119366717|sp|Q134V3|RPOA_RHOPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91684084|gb|ABE40386.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris BisB5] Length = 339 Score = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 218/337 (64%), Positives = 274/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-SPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +VQIDGVLHE SSI GV ED+TDI+LNIK I+LKM G+ KR+ + K+GPGVVTAGDIQT Sbjct: 62 SVQIDGVLHEFSSIAGVREDVTDIVLNIKDISLKMQGEGPKRMVVKKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDIVVLNPDLQICTLDEGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MT++T+G++T +D+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTVETNGALTPDDAVAFAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|260432472|ref|ZP_05786443.1| DNA-directed RNA polymerase, alpha subunit [Silicibacter lacuscaerulensis ITI-1157] gi|260416300|gb|EEX09559.1| DNA-directed RNA polymerase, alpha subunit [Silicibacter lacuscaerulensis ITI-1157] Length = 372 Score = 415 bits (1068), Expect = e-114, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 35 MIHKNWAELIKPTQLD-GKPGNDPARQATIVAEPLERGFGLTLGNALRRVLMSSLQGAAI 93 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+K + L+M + KR++I +GP VVTAGDI Sbjct: 94 TSVQIDNVLHEFSSVAGVREDVTDIILNLKQVALRMEVEGPKRLSINAKGPAVVTAGDIS 153 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 154 ESAGIEVLNRDHVICHLDDGAELFMELTVNTGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 213 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y V+ REGQVLDYDKL+M I+TDGSIT ED++A A+RILQDQL +F+NF+EP+ Sbjct: 214 KKVAYDVQPTREGQVLDYDKLTMKIETDGSITPEDALAFAARILQDQLSIFVNFDEPESA 273 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 274 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 332 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 333 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 370 >gi|90424913|ref|YP_533283.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris BisB18] gi|119366716|sp|Q211H2|RPOA_RHOPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90106927|gb|ABD88964.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris BisB18] Length = 339 Score = 415 bits (1067), Expect = e-114, Method: Composition-based stats. Identities = 214/337 (63%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN + + G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKL-VVTPGSDPTRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ + K+GPG VTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVVKKQGPGTVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+ VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+L+SP++ Sbjct: 122 VGDVVVLNPDLQICTLDEGAEIRMEFTVAGGKGYVAAERNRPEDAPIGLIPVDSLFSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G+I+ +D+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTIETNGAISPDDAVAYAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|209884837|ref|YP_002288694.1| DNA-directed RNA polymerase, alpha subunit [Oligotropha carboxidovorans OM5] gi|229564255|sp|B6JEY9|RPOA_OLICO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|209873033|gb|ACI92829.1| DNA-directed RNA polymerase, alpha subunit [Oligotropha carboxidovorans OM5] Length = 339 Score = 415 bits (1067), Expect = e-114, Method: Composition-based stats. Identities = 213/337 (63%), Positives = 271/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TPGSDPSRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ I K+GPGVVTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVIKKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+ VLNP+ +C LD A +RME TV G GYV A +R E+ PIGLI +D+L+SP++ Sbjct: 122 VGDVVVLNPELQLCTLDDGAEIRMEFTVDTGKGYVAADRNRPEDAPIGLIPVDSLFSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL++TI+T+G+IT ED++A ++RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTLTIETNGAITPEDALAYSARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 VQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|86749439|ref|YP_485935.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris HaA2] gi|119366715|sp|Q2IXN6|RPOA_RHOP2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|86572467|gb|ABD07024.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris HaA2] Length = 339 Score = 415 bits (1066), Expect = e-114, Method: Composition-based stats. Identities = 217/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TAGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I+LKM G+ KR+ + K+GPGVVTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISLKMQGEGPKRMVVKKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDIVVLNPDLQICTLDEGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MT++T+G++T +D+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTVETNGALTPDDAVAFAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|182679004|ref|YP_001833150.1| DNA-directed RNA polymerase subunit alpha [Beijerinckia indica subsp. indica ATCC 9039] gi|226699352|sp|B2IF96|RPOA_BEII9 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|182634887|gb|ACB95661.1| DNA-directed RNA polymerase, alpha subunit [Beijerinckia indica subsp. indica ATCC 9039] Length = 338 Score = 414 bits (1065), Expect = e-114, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ ++ G + + +IAEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIQKNWQELIKPSKLDV-TPGDDSKRFATIIAEPLERGFGLTLGNALRRILLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDIILNIK I +KM G+ KR+ + K+GPG V AGDI Sbjct: 60 TSVHIDGVLHEFSSIPGVREDVTDIILNIKDIAIKMQGEGPKRMVLKKQGPGKVLAGDIG 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V D+++LNP+ VIC LD A +RME TV+ G GYV A +R E+ PIGLI +D+LYSP+ Sbjct: 120 AVGDVQILNPNLVICTLDEGAEIRMEFTVNTGKGYVAADRNRAEDAPIGLIPVDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ+LDYDKL++ I+T+GS+T ED+VA ++RILQDQL +F+NFEEP++E Sbjct: 180 KKVSYKVENTREGQILDYDKLTLQIETNGSLTPEDAVAFSARILQDQLNVFVNFEEPRRE 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 -EATPSIPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + WPP++I+ELAK++E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEVTGWPPDNIDELAKRFEE 336 >gi|299135233|ref|ZP_07028424.1| DNA-directed RNA polymerase, alpha subunit [Afipia sp. 1NLS2] gi|298590210|gb|EFI50414.1| DNA-directed RNA polymerase, alpha subunit [Afipia sp. 1NLS2] Length = 339 Score = 414 bits (1064), Expect = e-113, Method: Composition-based stats. Identities = 211/337 (62%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TPGADATRFATVVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ I K+GPGVVTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISVKMQGEGPKRMVIKKQGPGVVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+ VLNP+ +C LD A +RME T++ G GYV A +R E+ PIGLI +D+L+SP++ Sbjct: 122 VGDVVVLNPELQLCTLDDGAEIRMEFTINTGKGYVAADRNRPEDAPIGLIPVDSLFSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL++TI+T+G+I+ ED++A ++RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTLTIETNGAISPEDALAYSARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 VQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|146340081|ref|YP_001205129.1| DNA-directed RNA polymerase subunit alpha [Bradyrhizobium sp. ORS278] gi|148256368|ref|YP_001240953.1| DNA-directed RNA polymerase subunit alpha [Bradyrhizobium sp. BTAi1] gi|158513287|sp|A5ELK3|RPOA_BRASB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158514218|sp|A4YSL6|RPOA_BRASO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146192887|emb|CAL76892.1| DNA-directed RNA polymerase alpha chain [Bradyrhizobium sp. ORS278] gi|146408541|gb|ABQ37047.1| DNA-directed RNA polymerase subunit alpha [Bradyrhizobium sp. BTAi1] Length = 343 Score = 414 bits (1064), Expect = e-113, Method: Composition-based stats. Identities = 216/337 (64%), Positives = 273/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQV-TPGSDATRFATVVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ + K+GPG VTAGDIQT Sbjct: 66 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVVKKQGPGAVTAGDIQT 125 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD +C LD A +RME TV+ G GYVPA+ +R E+ PIGLI ID+L+SP++ Sbjct: 126 VGDIVVLNPDLQLCTLDEGAEIRMEFTVATGKGYVPAERNRPEDAPIGLIPIDSLFSPVR 185 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G+I+ ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 186 KVSYKVENTREGQILDYDKLTMTIETNGAISPEDAVAYAARILQDQLNVFVNFEEPRKEV 245 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 246 AQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 304 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 305 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 341 >gi|256636186|dbj|BAI02155.1| DNA-directed RNA polymerase alpha subunit (variant) [Acetobacter pasteurianus IFO 3283-03] gi|256645350|dbj|BAI11298.1| DNA-directed RNA polymerase alpha subunit (variant) [Acetobacter pasteurianus IFO 3283-26] Length = 339 Score = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 202/338 (59%), Positives = 257/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEVES-GVEPARIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SS+ GV ED+TDI+LNIK + L+M G+ KR+ + GPG V A IQ Sbjct: 61 TAVQIDGVLHEFSSVAGVREDVTDIVLNIKQLALRMHGEGPKRMMLTATGPGEVRARQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPD VIC LD + ME V+ G GYVPA +R E+ PIGLI +DA+YSP+ Sbjct: 121 TGHDIEIMNPDLVICTLDDGVKLGMEFIVNMGKGYVPAAANRPEDAPIGLIPVDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY VE R GQV DYDKL +T++T+G++T ED+VALA+RILQDQL +FINF+EP+ Sbjct: 181 KRVSYKVEPTRVGQVTDYDKLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRPV 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ PFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGR Sbjct: 241 QAEEPE-DDQPFNRNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IEELAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEELAKRLDE 337 >gi|260427855|ref|ZP_05781834.1| DNA-directed RNA polymerase, alpha subunit [Citreicella sp. SE45] gi|260422347|gb|EEX15598.1| DNA-directed RNA polymerase, alpha subunit [Citreicella sp. SE45] Length = 338 Score = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + ++AEPL RGF T+GNALRR+L+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-RPGADPSRVATVVAEPLERGFGLTMGNALRRILLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++L+M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLRMEVEGPKRLSINAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + +ELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ETAGIEVLNKDHVICHLDDGADLYVELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY V+ REGQVLDYDKL+M ++TDGS+T +D++A A+RILQDQL +F+NFEEP+ Sbjct: 180 KRVSYEVQPTREGQVLDYDKLTMKVETDGSVTPDDAIAFAARILQDQLSIFVNFEEPEAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM++ DWPP++IE+LAKK ED+ Sbjct: 299 KSLNEIKEVLSSMGLHLGMDVEDWPPDNIEDLAKKLEDQ 337 >gi|258542051|ref|YP_003187484.1| DNA-directed RNA polymerase subunit alpha [Acetobacter pasteurianus IFO 3283-01] gi|329114194|ref|ZP_08242956.1| DNA-directed RNA polymerase subunit alpha [Acetobacter pomorum DM001] gi|256633129|dbj|BAH99104.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-01] gi|256639241|dbj|BAI05203.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-07] gi|256642295|dbj|BAI08250.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-22] gi|256648405|dbj|BAI14346.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-32] gi|256651458|dbj|BAI17392.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-01-42C] gi|256654449|dbj|BAI20376.1| DNA-directed RNA polymerase alpha subunit [Acetobacter pasteurianus IFO 3283-12] gi|326696270|gb|EGE47949.1| DNA-directed RNA polymerase subunit alpha [Acetobacter pomorum DM001] Length = 339 Score = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 203/338 (60%), Positives = 258/338 (76%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ LIKP +E G E ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 2 VLQKNWQSLIKPEKLEVES-GVEPARIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAV 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SS+ GV ED+TDI+LNIK + L+M G+ KR+ + GPG V A IQ Sbjct: 61 TAVQIDGVLHEFSSVAGVREDVTDIVLNIKQLALRMHGEGPKRMMLTATGPGEVRARQIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPD VIC LD + ME V+ G GYVPA +R E+ PIGLI +DA+YSP+ Sbjct: 121 TGHDIEIMNPDLVICTLDDGVKLGMEFIVNMGKGYVPAAANRPEDAPIGLIPVDAIYSPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY VE R GQV DYDKL +T++T+G++T ED+VALA+RILQDQL +FINF+EP+ Sbjct: 181 KRVSYKVEPTRVGQVTDYDKLLLTVETNGAVTPEDAVALAARILQDQLQLFINFDEPRPV 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGR Sbjct: 241 QAEEPE-DDLPFNRNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKSEQEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGMN+P WPPE+IEELAK+ ++ Sbjct: 300 KSLNEIKEVLTSMGLSLGMNVPAWPPENIEELAKRLDE 337 >gi|39936289|ref|NP_948565.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris CGA009] gi|192292012|ref|YP_001992617.1| DNA-directed RNA polymerase subunit alpha [Rhodopseudomonas palustris TIE-1] gi|61215951|sp|Q6N4V7|RPOA_RHOPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|229564256|sp|B3QBV5|RPOA_RHOPT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|39650144|emb|CAE28667.1| DNA-directed RNA polymerase alpha subunit [Rhodopseudomonas palustris CGA009] gi|192285761|gb|ACF02142.1| DNA-directed RNA polymerase, alpha subunit [Rhodopseudomonas palustris TIE-1] Length = 339 Score = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 216/337 (64%), Positives = 272/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQV-TPGSDATRFATLVAEPLERGFGQTLGNALRRVLLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I+LKM G+ KR+ + K+GPG VTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISLKMQGEGPKRMVVKKQGPGAVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD +C LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDIVVLNPDLQLCTLDDGAEIRMEFTVNTGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MT++T+G+I+ ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTVETNGAISPEDAVAFAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TQEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|114798821|ref|YP_761505.1| DNA-directed RNA polymerase subunit alpha [Hyphomonas neptunium ATCC 15444] gi|119366689|sp|Q0BYD8|RPOA_HYPNA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114738995|gb|ABI77120.1| DNA-directed RNA polymerase, alpha subunit [Hyphomonas neptunium ATCC 15444] Length = 342 Score = 413 bits (1063), Expect = e-113, Method: Composition-based stats. Identities = 200/335 (59%), Positives = 252/335 (75%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW+ LI+PN + G + + + ++ EPL RG+ TLGNALRRVL+SSL+GAAI V Sbjct: 7 RNWKVLIRPNRP-VVQAGYDAKRKAKLVVEPLERGYGTTLGNALRRVLLSSLQGAAIIGV 65 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGV+HE S+I GV ED+T I+LN+K + + M D+ KR+ + +GPG V AG I+T Sbjct: 66 QIDGVVHEFSAIPGVREDVTTIVLNLKQVAIFMESDTPKRMVLRAKGPGEVKAGQIETPG 125 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+++LNPD VIC LD + VRME TV+ G GYV A+ HR E+ PIG I IDA+YSP+++V Sbjct: 126 DVKILNPDLVICTLDGGSEVRMEFTVATGKGYVAAEAHRPEDAPIGYIPIDAIYSPVRRV 185 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 Y VE REG VLDYDKL++ I+TDGS++ EDSVA A+RILQDQL +FINFEEP E Sbjct: 186 GYQVEDTREGTVLDYDKLTLDIETDGSLSPEDSVAYAARILQDQLQLFINFEEPTLETGG 245 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++EA+MLR NFGRKSL Sbjct: 246 AADETDLGFNPVLLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEAEMLRTPNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL MGL LGM +PDWPPE IE LAKKY+D Sbjct: 306 NEIKEVLAGMGLHLGMEVPDWPPEDIEGLAKKYDD 340 >gi|158424154|ref|YP_001525446.1| DNA-directed RNA polymerase subunit alpha [Azorhizobium caulinodans ORS 571] gi|172047974|sp|A8IAN5|RPOA_AZOC5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158331043|dbj|BAF88528.1| DNA-directed RNA polymerase alpha subunit [Azorhizobium caulinodans ORS 571] Length = 341 Score = 413 bits (1062), Expect = e-113, Method: Composition-based stats. Identities = 217/338 (64%), Positives = 271/338 (80%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKP ++ G + + ++AEPL RGF TLGN+LRR+L+SSL+GAA+ Sbjct: 4 VIQKNWQELIKPEKLQV-TAGADPKRLATVVAEPLERGFGMTLGNSLRRILLSSLQGAAV 62 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDIILNIK I +KM GD KR+ K GPGV+ AGDIQ Sbjct: 63 TSVHIDGVLHEFSSIPGVREDVTDIILNIKDIAIKMQGDGPKRLVAKKNGPGVLVAGDIQ 122 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DI++LNP V+C LD A +RME TV G GYVPA+ +R E+ PIGLI ID+LYSP+ Sbjct: 123 TVGDIQILNPHLVLCTLDEGAELRMEFTVDTGKGYVPAERNRPEDAPIGLIPIDSLYSPV 182 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQ+LDYDKL+M I+TDGS++ ED++A A+RILQDQL +F+NFEEPK+E Sbjct: 183 RKVSYKVENTREGQILDYDKLTMQIETDGSVSAEDALAYAARILQDQLEIFVNFEEPKRE 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ LPFNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 243 SET-AAIQELPFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSETEMLRTPNFGR 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL +MGL LGM +P WPPE+IEELAK++ED Sbjct: 302 KSLNEIKEVLASMGLHLGMEVPGWPPENIEELAKRFED 339 >gi|75675580|ref|YP_318001.1| DNA-directed RNA polymerase subunit alpha [Nitrobacter winogradskyi Nb-255] gi|90110853|sp|Q3SSU2|RPOA_NITWN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|74420450|gb|ABA04649.1| DNA-directed RNA polymerase subunit alpha [Nitrobacter winogradskyi Nb-255] Length = 339 Score = 413 bits (1062), Expect = e-113, Method: Composition-based stats. Identities = 215/337 (63%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLQVVP-GSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I ++M G+ KR+ + K+GPG VTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDIAIRMQGEGPKRMVVKKQGPGTVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V D+ VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDVVVLNPDLQICTLDDGAEIRMEFTVASGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G +T ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMTIETNGGVTPEDAVAFAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 TTEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|149915869|ref|ZP_01904393.1| DNA-directed RNA polymerase subunit alpha [Roseobacter sp. AzwK-3b] gi|149810192|gb|EDM70038.1| DNA-directed RNA polymerase subunit alpha [Roseobacter sp. AzwK-3b] Length = 338 Score = 413 bits (1061), Expect = e-113, Method: Composition-based stats. Identities = 212/339 (62%), Positives = 266/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++L+M + KR++I +GP +VTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLRMEVEGPKRLSISAKGPAIVTAGDIT 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 DSAGIEVLNKDHVICHLDDGADLFMELTVNTGKGYVAADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ ++TDGSIT +D+VA A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKLETDGSITPDDAVAYAARILQDQLSIFVNFEEPEAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRESEDE-GLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >gi|89070528|ref|ZP_01157817.1| DNA-directed RNA polymerase alpha subunit [Oceanicola granulosus HTCC2516] gi|89043835|gb|EAR50033.1| DNA-directed RNA polymerase alpha subunit [Oceanicola granulosus HTCC2516] Length = 338 Score = 413 bits (1061), Expect = e-113, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 264/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPMRQATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ GV ED+TDI+LN+KG+ ++M + KR+T+ +GPGVVTAGDI Sbjct: 60 TAVQIDNVLHEFSSVSGVREDVTDIVLNLKGVAIRMEVEGPKRLTVNAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIG++ IDA+YSP+ Sbjct: 120 ESAGIEILNKDHVICHLDEGADLYMELTVNTGKGYVSADKNKPEDAPIGMMAIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS++ +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLSPDDAVAYAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TSTSDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >gi|83593996|ref|YP_427748.1| DNA-directed RNA polymerase subunit alpha [Rhodospirillum rubrum ATCC 11170] gi|119366718|sp|Q2RQY4|RPOA_RHORT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|83576910|gb|ABC23461.1| DNA-directed RNA polymerase, alpha subunit [Rhodospirillum rubrum ATCC 11170] Length = 340 Score = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 206/338 (60%), Positives = 262/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +IQKNWQELIKPN + ++G + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 3 VIQKNWQELIKPNKLMIELVGG-SKKVATVVAEPLERGFGLTLGNALRRVLLSSLQGAAV 61 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QI+GVLHE SSI GV ED+TD+ILNIKG+ L M + +R+T+ GPG VTA I+ Sbjct: 62 TAIQIEGVLHEFSSIPGVREDVTDVILNIKGLALLMHSEGPRRMTLKASGPGEVTAAQIE 121 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +DIE++NPD VIC+LD A + ME TV G GYVP+ +R E+ PIG I ID+++SP+ Sbjct: 122 MGSDIEIMNPDLVICHLDEGATLSMEFTVGMGKGYVPSTQNRPEDAPIGYIPIDSIFSPV 181 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE++R GQV DYDKLSM ++TDGS+ ED+VALA+RILQDQL +FINFEEP + Sbjct: 182 TKVSYRVENSRVGQVTDYDKLSMVVETDGSVGPEDAVALAARILQDQLQLFINFEEP-QA 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V E+ LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR NFGR Sbjct: 241 VSEEKKDDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + +WPPE+IE+LAKK E+ Sbjct: 301 KSLNEIKEVLAQMGLHLGMEISNWPPENIEDLAKKLEE 338 >gi|149202868|ref|ZP_01879839.1| DNA-directed RNA polymerase subunit alpha [Roseovarius sp. TM1035] gi|149143414|gb|EDM31450.1| DNA-directed RNA polymerase subunit alpha [Roseovarius sp. TM1035] Length = 338 Score = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + ++IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ GV ED+TDI+LN+KG+ ++M + KR+++ +GPGVVTAGDI Sbjct: 60 TAVQIDNVLHEFSSVAGVREDVTDIVLNLKGVAIRMEVEGPKRLSVNAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A + MELTV++G GYV A ++ E+ PIGLI IDA+YSPI Sbjct: 120 DSAGIEILNKDHVICHLDEGADLFMELTVNQGKGYVSADKNKPEDAPIGLIPIDAIYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +VSY V+ REGQVLDYDKL+M I+TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 SRVSYEVQPTREGQVLDYDKLTMKIETDGSITPDDAVAYAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|89053108|ref|YP_508559.1| DNA-directed RNA polymerase subunit alpha [Jannaschia sp. CCS1] gi|119366690|sp|Q28US8|RPOA_JANSC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|88862657|gb|ABD53534.1| DNA-directed RNA polymerase subunit alpha [Jannaschia sp. CCS1] Length = 338 Score = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKP + + G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWQELIKPTQL-VVQPGTDPARKATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQIDGVLHE SS+ GV ED+TDI+LN+KG+ ++M + KRV+I +GP VVTAGDI Sbjct: 60 TSVQIDGVLHEFSSVAGVREDVTDIVLNLKGVAIRMDAEGPKRVSISAKGPRVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 I+VLN DHVIC+LD A + +ELTV+ G GYV A +R E+ PIGL+ IDA+YSP+ Sbjct: 120 ESAGIDVLNKDHVICHLDDGADLYIELTVNTGKGYVAADKNRPEDAPIGLMPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ ++TDGS++ +D+VA A+RI+QDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKLETDGSLSPDDAVAYAARIIQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TRQD-DEDDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IEELAKKYED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDIVDWPPDNIEELAKKYED 336 >gi|254294416|ref|YP_003060439.1| DNA-directed RNA polymerase subunit alpha [Hirschia baltica ATCC 49814] gi|254042947|gb|ACT59742.1| DNA-directed RNA polymerase, alpha subunit [Hirschia baltica ATCC 49814] Length = 341 Score = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 200/335 (59%), Positives = 260/335 (77%), Gaps = 2/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW+ELI+P+ + + + +I EPL RGF TLG++LRR+L+SSL+GAAIT V Sbjct: 9 KNWKELIRPSRP-VVEHDFDAGRKASLIVEPLERGFGTTLGSSLRRILLSSLQGAAITGV 67 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGV+HE SSI GV ED+TDI+LN+K + + M ++ KR+T+ GPGVVTAG I+ Sbjct: 68 QIDGVVHEFSSIPGVREDVTDIVLNLKRVAISMVSETSKRMTLSASGPGVVTAGQIELPG 127 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E+LNPDHVIC LD A +RME TV+ G GYVPA +R ++ P+G I +DA++SP+++V Sbjct: 128 DMEILNPDHVICTLDDGANIRMEFTVASGKGYVPADRNRPDDAPLGFIPVDAIFSPVERV 187 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V+ REGQVLDYDKL++T++TDGS+T ED+VA A+RILQDQL + INF+EP E + Sbjct: 188 GFKVDDTREGQVLDYDKLTLTVETDGSVTPEDAVAYAARILQDQLQLLINFDEPVVEQEA 247 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L FNP LLKKV+ELELSVRS NCLR +NIVY+GDLIQ++EA+MLR NFGRKSL Sbjct: 248 EQEP-DLGFNPVLLKKVDELELSVRSANCLRNDNIVYIGDLIQKSEAEMLRTPNFGRKSL 306 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL TMGL LGM++P WPPE+IE+LAKKYED Sbjct: 307 NEIKEVLATMGLHLGMDVPSWPPENIEDLAKKYED 341 >gi|217979117|ref|YP_002363264.1| DNA-directed RNA polymerase subunit alpha [Methylocella silvestris BL2] gi|254765258|sp|B8EIT5|RPOA_METSB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|217504493|gb|ACK51902.1| DNA-directed RNA polymerase, alpha subunit [Methylocella silvestris BL2] Length = 338 Score = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 209/338 (61%), Positives = 263/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQEL KPN +E I G + + ++A PL GF TLGN+LRR+L+SSL+GAAI Sbjct: 1 MIQKNWQELTKPNKLEVIS-GDDPKRFATIVAGPLELGFGLTLGNSLRRILLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V IDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPG VTAGDIQ Sbjct: 60 TSVHIDGVLHEFSSIPGVREDVTDIVLNIKDIAIKMPGDGPKRLVLKKQGPGKVTAGDIQ 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T DI +LNP VIC LD A +RME TV G GYV A +R E+ PIGLI ID+LYSP+ Sbjct: 120 TSGDISILNPGLVICTLDEGAEIRMEFTVHTGKGYVAADRNRAEDAPIGLIPIDSLYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ LD DKL++ ++T+G++T ED+VA A+RILQDQL +F+NFEEP++ Sbjct: 180 KKVSYRVENTREGQNLDLDKLTLQVETNGALTPEDAVAFAARILQDQLNVFVNFEEPRR- 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+ ++ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ++E +MLR NFGR Sbjct: 239 VEATPSIPELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKSEGEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM + WPP++I++LAK++E+ Sbjct: 299 KSLNEIKEVLAQMGLHLGMEVNGWPPDNIDDLAKRFEE 336 >gi|254470353|ref|ZP_05083757.1| DNA-directed RNA polymerase, alpha subunit [Pseudovibrio sp. JE062] gi|211960664|gb|EEA95860.1| DNA-directed RNA polymerase, alpha subunit [Pseudovibrio sp. JE062] Length = 340 Score = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 225/337 (66%), Positives = 275/337 (81%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELIKP ++ I G + + +IAEPL RG+ TLGNALRRVL+SSL+GAA+T Sbjct: 3 IQKNWQELIKPTKLD-IRAGDDARFKASVIAEPLERGYGLTLGNALRRVLLSSLQGAAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AVQIDGVLHE SSI GV ED+TDIILNIK + L+M G+ KR+ + K+GPG V AGDI+T Sbjct: 62 AVQIDGVLHEFSSIPGVREDVTDIILNIKEVALRMEGEGPKRMVLRKQGPGAVYAGDIET 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DIEVLNP ++CNLD A VR+E TV+ G GYVPA +R E+ PIGLI +D+LYSP+K Sbjct: 122 VGDIEVLNPGLLLCNLDEGAEVRIEFTVNTGKGYVPAAANRPEDAPIGLIPVDSLYSPVK 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQVLDYDKL++T++TDGS+ ED+VA A+RILQDQL +F+NFEEP++EV Sbjct: 182 KVSYKVENTREGQVLDYDKLTLTVETDGSVIPEDAVAFAARILQDQLSIFVNFEEPQREV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +ED V L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRK Sbjct: 242 QEDT-VAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + +WPPE+I+ELAK+YED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVANWPPENIDELAKRYED 337 >gi|315122794|ref|YP_004063283.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter solanacearum CLso-ZC1] gi|313496196|gb|ADR52795.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 340 Score = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 299/340 (87%), Positives = 321/340 (94%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPNNIE+ VLG EEENRT+++AEP PRGFAHTLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNNIEFTVLGHEEENRTMVVAEPFPRGFAHTLGNALRRVLLSSLRGAAI 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHEISSIKGV ED+TDIILNIKGINLKMS DS KRVTI+KRGPGVVTAGDIQ Sbjct: 61 TAVQIDGVLHEISSIKGVREDITDIILNIKGINLKMSSDSSKRVTIYKRGPGVVTAGDIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TVNDIE+LNPDHVICNLDVDAVVRMELTVSKG GYVPAKHHRTENDPIGLITIDALYSPI Sbjct: 121 TVNDIEILNPDHVICNLDVDAVVRMELTVSKGQGYVPAKHHRTENDPIGLITIDALYSPI 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VESAREGQ+LDYDKL+M IDTDGSI GED+VA ASRILQDQL +FINF+EP KE Sbjct: 181 KKVSYKVESAREGQILDYDKLNMIIDTDGSIGGEDAVAFASRILQDQLNVFINFDEPTKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 KED++V LPFNPALLKKVEELELSVRS NCLRG+NI+Y+GDLIQ+TEA+MLR ANFGR Sbjct: 241 EKEDMDVDRLPFNPALLKKVEELELSVRSANCLRGDNIIYIGDLIQKTEAEMLRTANFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 KSL+EIKGVL TMGLFLGMNLPDWPPESIE+LAKKYEDKC Sbjct: 301 KSLLEIKGVLATMGLFLGMNLPDWPPESIEDLAKKYEDKC 340 >gi|85706695|ref|ZP_01037787.1| DNA-directed RNA polymerase alpha subunit [Roseovarius sp. 217] gi|85668753|gb|EAQ23622.1| DNA-directed RNA polymerase alpha subunit [Roseovarius sp. 217] Length = 338 Score = 412 bits (1058), Expect = e-113, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPLRQAVLIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ GV ED+TDI+LN+KG+ ++M + KR+++ +GPGVVTAGDI Sbjct: 60 TAVQIDNVLHEFSSVAGVREDVTDIVLNLKGVAIRMEVEGPKRLSVNAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A + MELTV++G GYV A ++ E+ PIGLI IDA+YSPI Sbjct: 120 DSAGIEILNKDHVICHLDEGADLFMELTVNQGKGYVSADKNKPEDAPIGLIPIDAIYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY V+ REGQVLDYDKL+M I+TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 SKVSYEVQPTREGQVLDYDKLTMKIETDGSITPDDAVAYAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|300022565|ref|YP_003755176.1| DNA-directed RNA polymerase, subunit alpha [Hyphomicrobium denitrificans ATCC 51888] gi|299524386|gb|ADJ22855.1| DNA-directed RNA polymerase, alpha subunit [Hyphomicrobium denitrificans ATCC 51888] Length = 340 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 214/339 (63%), Positives = 269/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++QKNWQ+LIKP+ +E I G++ ++AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 3 VLQKNWQDLIKPSKLE-IQTGRDRSRIATVVAEPLERGFGMTLGNALRRVLLSSLQGAAI 61 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 VQIDGVLHE SS+ GV ED+T+IILNIK I L++ + KR+ + K G G VTAGDI+ Sbjct: 62 KTVQIDGVLHEFSSVPGVREDVTNIILNIKEIALRIHSEGVKRMVLKKEGAGPVTAGDIE 121 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +++EVLNPDHVIC+LD A +RME T G GYV + +R E+ PIGLI +D+LYSP+ Sbjct: 122 ASSEVEVLNPDHVICHLDQGASIRMEFTADMGKGYVASDRNRPEDAPIGLIPVDSLYSPV 181 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ+LDYDKL+M ++TDGS+ ED+VALA+RILQDQL +FINFEEPKK Sbjct: 182 KKVSYKVENTREGQILDYDKLTMVVETDGSVRPEDAVALAARILQDQLAVFINFEEPKKA 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 242 QEE-QRHPELAFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL TMGL LGM +P+WPP++I+ELAK++ED+ Sbjct: 301 KSLNEIKEVLATMGLHLGMEVPNWPPDNIDELAKRFEDQ 339 >gi|126728199|ref|ZP_01744015.1| DNA-directed RNA polymerase subunit alpha [Sagittula stellata E-37] gi|126711164|gb|EBA10214.1| DNA-directed RNA polymerase subunit alpha [Sagittula stellata E-37] Length = 338 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 211/338 (62%), Positives = 262/338 (77%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E I G + + +AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-IKPGADPSKQATCVAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+K + LKM + KR+++ +GPGVV AGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKQVALKMEVEGPKRLSVSAKGPGVVKAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC++D A V ME TV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEILNRDHVICHVDEGAEVYMEFTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y V+ REGQVLDYDKL+M ++TDGS+T ED++A A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVAYDVQPTREGQVLDYDKLTMKVETDGSVTPEDAIAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKLED 336 >gi|85715106|ref|ZP_01046090.1| DNA-directed RNA polymerase alpha subunit [Nitrobacter sp. Nb-311A] gi|85698021|gb|EAQ35894.1| DNA-directed RNA polymerase alpha subunit [Nitrobacter sp. Nb-311A] Length = 343 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 215/337 (63%), Positives = 270/337 (80%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN ++ + G + ++AEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 7 IQKNWQELIRPNKLQVVP-GSDPSRFATLVAEPLERGFGQTLGNALRRILLSSLQGAAVQ 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I +KM G+ KR+ + K+GPG VTAGDIQT Sbjct: 66 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDIAIKMQGEGPKRMVVKKQGPGSVTAGDIQT 125 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD IC LD A +RME TV+ G GY+ A+ +R E+ PIGLI +D+LYSP++ Sbjct: 126 VGDIVVLNPDLQICTLDDGAEIRMEFTVAAGKGYIAAERNRPEDAPIGLIPVDSLYSPVR 185 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+MTI+T+G +T ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 186 KVSYKVENTREGQILDYDKLTMTIETNGGVTPEDAVAFAARILQDQLNVFVNFEEPRKEV 245 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +I + L FNPA LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 246 ATEI-IPDLAFNPAFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 304 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 305 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 341 >gi|254780237|ref|YP_003064650.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter asiaticus str. psy62] gi|254039914|gb|ACT56710.1| DNA-directed RNA polymerase subunit alpha [Candidatus Liberibacter asiaticus str. psy62] Length = 340 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 340/340 (100%), Positives = 340/340 (100%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI Sbjct: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ Sbjct: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI Sbjct: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE Sbjct: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR Sbjct: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC Sbjct: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 >gi|84685391|ref|ZP_01013289.1| DNA-directed RNA polymerase alpha subunit [Maritimibacter alkaliphilus HTCC2654] gi|84666548|gb|EAQ13020.1| DNA-directed RNA polymerase alpha subunit [Rhodobacterales bacterium HTCC2654] Length = 338 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 209/339 (61%), Positives = 267/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPSRQATVIAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++++M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSIRMEVEGPKRLSISAKGPMVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI +DA+YSP+ Sbjct: 120 ESAGIEILNKDHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPVDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ ++TDGSIT +D+VA A+RI+QDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKVETDGSITPDDAVAFAARIIQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ +WPPE+IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEEWPPENIEDLAKKFEDQ 337 >gi|146278544|ref|YP_001168703.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter sphaeroides ATCC 17025] gi|166229275|sp|A4WVI4|RPOA_RHOS5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145556785|gb|ABP71398.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacter sphaeroides ATCC 17025] Length = 338 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 216/339 (63%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP + + G + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQL-VVKPGADPARVATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG+++KM + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSIKMDVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 N IE+LN DHVIC+LD A V MELTV+ G GYV A +R E+ PIGLI IDA+YSP+ Sbjct: 120 ESNGIEILNKDHVICHLDEGADVFMELTVNTGKGYVAADKNRPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V REGQVLDYDKL+M ++TDG +T ED+VA A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVSYEVTPTREGQVLDYDKLTMRVETDGGLTPEDAVAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D+ L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TRHDVE-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAK++ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPENIEDLAKRFEDQ 337 >gi|159042865|ref|YP_001531659.1| DNA-directed RNA polymerase subunit alpha [Dinoroseobacter shibae DFL 12] gi|157910625|gb|ABV92058.1| DNA-directed RNA polymerase, alpha subunit [Dinoroseobacter shibae DFL 12] Length = 343 Score = 411 bits (1056), Expect = e-113, Method: Composition-based stats. Identities = 212/339 (62%), Positives = 262/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKP +E G E + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 6 MIHKNWQELIKPTQLEV-KPGNEPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 64 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+K + ++M + KRV+I +GP VVTAGDI Sbjct: 65 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKQVAIRMEVEGPKRVSISAKGPRVVTAGDIS 124 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MEL V+ G GYV A +R E+ PIGLI IDA++SP+ Sbjct: 125 ESAGIEVLNRDHVICHLDEGADLFMELIVNTGKGYVSADKNRPEDAPIGLIPIDAIFSPV 184 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ ++TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 185 KKVSYDVQPTREGQVLDYDKLTLKLETDGSVTPDDAVAYAARILQDQLSVFVNFDEPEAA 244 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 245 RSQSEE-DDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAKK+ED+ Sbjct: 304 KSLNEIKEVLSGMGLHLGMDILDWPPENIEDLAKKFEDQ 342 >gi|310816986|ref|YP_003964950.1| DNA-directed RNA polymerase alpha subunit [Ketogulonicigenium vulgare Y25] gi|308755721|gb|ADO43650.1| DNA-directed RNA polymerase alpha subunit [Ketogulonicigenium vulgare Y25] Length = 338 Score = 410 bits (1055), Expect = e-112, Method: Composition-based stats. Identities = 210/339 (61%), Positives = 264/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NW ELIKP ++ G + + ++AEPL RGF TLGNALRR+L+SSL+GAAI Sbjct: 1 MIHRNWSELIKPTQLDV-RPGADAARQATIVAEPLERGFGLTLGNALRRILLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SSI GV ED+TDI+LN+KG+ ++M + +RV+I +GP VVTAGDI Sbjct: 60 TAVQIDNVLHEFSSITGVREDVTDIVLNLKGVAIRMDVEGPRRVSIQVKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 N IE+LN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDALYSP+ Sbjct: 120 ESNGIEILNKDHVICHLDDGASLYMELTVNTGKGYVAADRNKPEDAPIGLIAIDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYD+L+M I+T+G ++ ED+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDRLTMKIETNGGLSPEDAVAYAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 LGGAAD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ +WPPE+IEELAKKYED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEEWPPENIEELAKKYEDQ 337 >gi|254463868|ref|ZP_05077279.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacterales bacterium Y4I] gi|206684776|gb|EDZ45258.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacterales bacterium Y4I] Length = 338 Score = 410 bits (1055), Expect = e-112, Method: Composition-based stats. Identities = 215/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPAQLEV-KPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+K ++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKQVSLRMEVEGPKRLSINAKGPAVVTAGDIA 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ETAGIEVLNRDHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT +D+VA A+RILQDQLG+F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLGIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|114570321|ref|YP_757001.1| DNA-directed RNA polymerase subunit alpha [Maricaulis maris MCS10] gi|119366695|sp|Q0ANS4|RPOA_MARMM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114340783|gb|ABI66063.1| DNA-directed RNA polymerase subunit alpha [Maricaulis maris MCS10] Length = 339 Score = 410 bits (1055), Expect = e-112, Method: Composition-based stats. Identities = 208/338 (61%), Positives = 264/338 (78%), Gaps = 1/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI+KNWQELI+P E I G + + ++AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIEKNWQELIRPMKPE-IEPGHDPARQAKIVAEPLERGFGMTLGNALRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T V IDGV+HE SSI GV ED+TDI+LNIK I L+M G+ KRV + K GPG+VTAGDI+ Sbjct: 60 TNVHIDGVVHEFSSIDGVREDVTDIVLNIKQIALRMHGEGPKRVVLKKSGPGIVTAGDIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D+E++N D +C LD A +RME T++ G GYVP++ +R E+ PIGLI +DALYSP+ Sbjct: 120 ETADVEIVNKDLALCTLDEGAEIRMEFTINTGKGYVPSERNRPEDAPIGLIGVDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY VE+ REGQVLDYDKL++ ++TDG++T EDSVA A+RILQDQ +FINFEE + Sbjct: 180 KRVSYKVENTREGQVLDYDKLTLEVETDGTVTPEDSVAFAARILQDQFQIFINFEEAVEA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FNPALL+KV+ELELSVRS NCL+ +NIVY+GDLIQ++EA+MLR NFGR Sbjct: 240 RPAEDDKPELDFNPALLRKVDELELSVRSANCLKNDNIVYIGDLIQKSEAEMLRTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM P+WPPE+IE+LAK++ED Sbjct: 300 KSLNEIKEVLAQMGLHLGMEAPNWPPENIEDLAKRFED 337 >gi|126736630|ref|ZP_01752370.1| DNA-directed RNA polymerase alpha subunit [Roseobacter sp. CCS2] gi|126713943|gb|EBA10814.1| DNA-directed RNA polymerase alpha subunit [Roseobacter sp. CCS2] Length = 338 Score = 410 bits (1055), Expect = e-112, Method: Composition-based stats. Identities = 208/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ GV ED+TDI+LN+KG+ ++M + KR+++ +GPGVVTA DI Sbjct: 60 TAVQIDNVLHEFSSVSGVREDVTDIVLNLKGVAIRMEVEGPKRLSVQAKGPGVVTAADIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIG++++DA+YSP+ Sbjct: 120 ETAGIEVLNKDHVICHLDDGADLYMELTVNTGKGYVSADKNKPEDAPIGMMSVDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAYAARILQDQLSIFVNFDEPES- 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 AQAGQDDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >gi|163739473|ref|ZP_02146883.1| DNA-directed RNA polymerase subunit alpha [Phaeobacter gallaeciensis BS107] gi|163740266|ref|ZP_02147660.1| DNA-directed RNA polymerase subunit alpha [Phaeobacter gallaeciensis 2.10] gi|161386124|gb|EDQ10499.1| DNA-directed RNA polymerase subunit alpha [Phaeobacter gallaeciensis 2.10] gi|161387226|gb|EDQ11585.1| DNA-directed RNA polymerase subunit alpha [Phaeobacter gallaeciensis BS107] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSINAKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEVLNREHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M I+TDGSIT +D+VA A+RI+QDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKIETDGSITPDDAVAYAARIVQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 NRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|254488277|ref|ZP_05101482.1| DNA-directed RNA polymerase, alpha subunit [Roseobacter sp. GAI101] gi|214045146|gb|EEB85784.1| DNA-directed RNA polymerase, alpha subunit [Roseobacter sp. GAI101] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 215/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLDV-KPGNDPARQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A V MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEILNRDHVICHLDDGADVYMELTVNTGKGYVAADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT +D+VA A+RILQDQLG+F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLGIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|84499816|ref|ZP_00998104.1| DNA-directed RNA polymerase alpha subunit [Oceanicola batsensis HTCC2597] gi|84392960|gb|EAQ05171.1| DNA-directed RNA polymerase alpha subunit [Oceanicola batsensis HTCC2597] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 212/339 (62%), Positives = 268/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGFDPSRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SSI GV ED+TD++LN+KG++L+M + KR++I +GPGVVTA +I Sbjct: 60 TSVQIDNVLHEFSSIAGVREDVTDVVLNLKGVSLRMDVEGPKRLSINAKGPGVVTAAEIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYVPA ++ E+ PIGLI IDA+YSPI Sbjct: 120 ESAGIEVLNKNHVICHLDEGASLFMELTVNTGKGYVPADRNKPEDAPIGLIPIDAIYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSVTPDDAVAYAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >gi|77462283|ref|YP_351787.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter sphaeroides 2.4.1] gi|126461159|ref|YP_001042273.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter sphaeroides ATCC 17029] gi|221638137|ref|YP_002524399.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter sphaeroides KD131] gi|90110864|sp|Q3J5P8|RPOA_RHOS4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513430|sp|A3PGN5|RPOA_RHOS1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765260|sp|B9KLB5|RPOA_RHOSK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|77386701|gb|ABA77886.1| RNA polymerase, alpha chain [Rhodobacter sphaeroides 2.4.1] gi|126102823|gb|ABN75501.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacter sphaeroides ATCC 17029] gi|221158918|gb|ACL99897.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter sphaeroides KD131] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 216/339 (63%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP + + G + +IAEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIHKNWAELIKPTQL-VVKPGADPARVATVIAEPLERGFGLTLGNALRRVLLSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG+++KM + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSIKMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 N IE+LN DHVIC+LD A V MELTV+ G GYV A +R E+ PIGLI IDA+YSP+ Sbjct: 120 ESNGIEILNKDHVICHLDEGADVFMELTVNTGKGYVAADKNRPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V REGQVLDYDKL+M I+TDG +T +D+VA A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVSYEVTPTREGQVLDYDKLTMRIETDGGLTPDDAVAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D+ L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 TRHDVE-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAK++ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPENIEDLAKRFEDQ 337 >gi|92117122|ref|YP_576851.1| DNA-directed RNA polymerase subunit alpha [Nitrobacter hamburgensis X14] gi|119366703|sp|Q1QN06|RPOA_NITHX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91800016|gb|ABE62391.1| DNA-directed RNA polymerase subunit alpha [Nitrobacter hamburgensis X14] Length = 339 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 215/337 (63%), Positives = 268/337 (79%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 IQKNWQELI+PN + + G + +IAEPL RGF TLGNALRR+L+SSL+GAA+ Sbjct: 3 IQKNWQELIRPNKLHVVP-GSDPSRFATLIAEPLERGFGQTLGNALRRILLSSLQGAAVQ 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V IDGVLHE SSI GV ED+TDI+LNIK I++KM G+ KR+ + K+GPG VTAGDIQT Sbjct: 62 SVHIDGVLHEFSSIAGVREDVTDIVLNIKDISIKMQGEGPKRMVVKKQGPGTVTAGDIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 V DI VLNPD IC LD A +RME TV+ G GYV A+ +R E+ PIGLI +D+LYSP++ Sbjct: 122 VGDIVVLNPDLPICTLDDGAEIRMEFTVASGKGYVAAERNRPEDAPIGLIPVDSLYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY VE+ REGQ+LDYDKL+M I+T+G +T ED+VA A+RILQDQL +F+NFEEP+KEV Sbjct: 182 KVSYKVENTREGQILDYDKLTMMIETNGGVTPEDAVAFAARILQDQLNVFVNFEEPRKEV 241 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +I + L FNP LKKV+ELELSVRS NCL+ +NIVY+GDL+Q++EA+MLR NFGRK Sbjct: 242 ATEI-IPDLAFNPGFLKKVDELELSVRSANCLKNDNIVYIGDLVQKSEAEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM +P WPPE+I+ELAK++ED Sbjct: 301 SLNEIKEVLAQMGLHLGMEVPGWPPENIDELAKRFED 337 >gi|254477240|ref|ZP_05090626.1| DNA-directed RNA polymerase, alpha subunit [Ruegeria sp. R11] gi|214031483|gb|EEB72318.1| DNA-directed RNA polymerase, alpha subunit [Ruegeria sp. R11] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 214/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLDV-KPGNDPARQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSINAKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEVLNREHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT ED+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPEDAVAFAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|84515660|ref|ZP_01003021.1| DNA-directed RNA polymerase alpha subunit [Loktanella vestfoldensis SKA53] gi|84510102|gb|EAQ06558.1| DNA-directed RNA polymerase alpha subunit [Loktanella vestfoldensis SKA53] Length = 338 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 206/339 (60%), Positives = 263/339 (77%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + M+AEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPMQLDV-KPGNDPMRQATMVAEPLERGFGLTLGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ GV ED+TDI+LN+KG+ ++M + KR+++ +GPGVVTA DI Sbjct: 60 TAVQIDNVLHEFSSVPGVREDVTDIVLNLKGVAIRMEVEGPKRLSVQAKGPGVVTAADIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIG+I IDA++SP+ Sbjct: 120 ETAGIEILNKDHVICHLDDGADLYMELTVNTGKGYVAADKNKPEDAPIGMIVIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS++ +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLSPDDAVAYAARILQDQLSIFVNFDEPES- 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 ASAGSDDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 337 >gi|254510629|ref|ZP_05122696.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacteraceae bacterium KLH11] gi|221534340|gb|EEE37328.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacteraceae bacterium KLH11] Length = 348 Score = 410 bits (1054), Expect = e-112, Method: Composition-based stats. Identities = 214/338 (63%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 11 MIHKNWAELIKPTQLD-GKPGNDPARQATLVAEPLERGFGLTLGNALRRVLMSSLQGAAI 69 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GP VVTAGDI Sbjct: 70 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSINAKGPAVVTAGDIS 129 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 130 ESAGIEVLNRDHVICHLDDGADLFMELTVNTGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 189 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y V+ REGQVLDYDKL++ IDTDGSIT ED++A A+RILQDQL +F+NF+EP+ Sbjct: 190 KKVAYDVQPTREGQVLDYDKLTLKIDTDGSITPEDALAFAARILQDQLSIFVNFDEPESA 249 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 250 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 309 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 346 >gi|148260915|ref|YP_001235042.1| DNA-directed RNA polymerase subunit alpha [Acidiphilium cryptum JF-5] gi|172047769|sp|A5FZU1|RPOA_ACICJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146402596|gb|ABQ31123.1| DNA-directed RNA polymerase subunit alpha [Acidiphilium cryptum JF-5] Length = 345 Score = 410 bits (1053), Expect = e-112, Method: Composition-based stats. Identities = 204/337 (60%), Positives = 260/337 (77%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+NWQ L KP ++ I G ++ +IAEPL RGF TLGNALRRVL+SSL GAA+T Sbjct: 9 LQRNWQSLRKPEKLD-IEPGADDTRVATIIAEPLERGFGLTLGNALRRVLLSSLHGAAVT 67 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+IDGVLHE SSI GV ED+TDI+LNIK I ++M GD KR+T+ GP VTAG IQT Sbjct: 68 SVRIDGVLHEFSSIAGVREDVTDIVLNIKQIAVRMHGDGPKRMTVSATGPCEVTAGMIQT 127 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +DIEV+NP+ VIC LD A + ME TV G GYVPA +R E+ PIGLI +D++YSP++ Sbjct: 128 GHDIEVMNPELVICTLDDGATLGMEFTVESGRGYVPAAANRPEDAPIGLIPVDSIYSPVR 187 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +VSY VE R GQV DYD+L + I+T+G++T ED+VALA+RILQDQLGMFINFEEP++ + Sbjct: 188 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQR-L 246 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 247 RAEEPRPELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 306 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 307 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 343 >gi|126737032|ref|ZP_01752767.1| DNA-directed RNA polymerase subunit alpha [Roseobacter sp. SK209-2-6] gi|126721617|gb|EBA18320.1| DNA-directed RNA polymerase subunit alpha [Roseobacter sp. SK209-2-6] Length = 338 Score = 410 bits (1053), Expect = e-112, Method: Composition-based stats. Identities = 215/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEA-KPGNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSINAKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEVLNRDHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ I+TDGS+T +D++A A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKIETDGSVTPDDALAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 NRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|260577155|ref|ZP_05845132.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacter sp. SW2] gi|259020629|gb|EEW23948.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacter sp. SW2] Length = 338 Score = 409 bits (1052), Expect = e-112, Method: Composition-based stats. Identities = 218/339 (64%), Positives = 269/339 (79%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP + + G + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQL-VVKPGPDASRTATVIAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++LKM + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLKMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 N IEVLN DHVIC+LD A V MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESNGIEVLNKDHVICHLDDGADVFMELTVNTGKGYVAADKNKPEDAPIGLIAIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M I+TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYEVQPTREGQVLDYDKLTMKIETDGSLTPDDAVAYAARILQDQLSVFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ D++ L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 LRHDVD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IE+LAK++ED+ Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPENIEDLAKRFEDQ 337 >gi|240850811|ref|YP_002972211.1| DNA-directed RNA polymerase subunit alpha [Bartonella grahamii as4aup] gi|240267934|gb|ACS51522.1| DNA-directed RNA polymerase subunit alpha [Bartonella grahamii as4aup] Length = 337 Score = 409 bits (1052), Expect = e-112, Method: Composition-based stats. Identities = 228/339 (67%), Positives = 272/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E N +IAEPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVESCAHDN--PNVISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I L+M + KRV ++K GPGVV AGDI Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIALRMEEEGPKRVVVYKEGPGVVKAGDIS 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD DA +RME V+ G GYVP+ + ++ IGLI ID+LYSPI Sbjct: 119 TVGDMEILNPDHVICTLDEDAEIRMEFIVNTGKGYVPSDRNCVDDARIGLIPIDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++TI+T+G++ GED+VA A+RILQDQL +FINFEEP+KE Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTIETNGAVNGEDAVAFAARILQDQLSLFINFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 PVEEADS-ELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|254460512|ref|ZP_05073928.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacterales bacterium HTCC2083] gi|206677101|gb|EDZ41588.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacteraceae bacterium HTCC2083] Length = 342 Score = 409 bits (1052), Expect = e-112, Method: Composition-based stats. Identities = 212/338 (62%), Positives = 267/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLDV-KPGNDAGRQATVVAEPLERGFGLTLGNALRRVLMSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++L+M + KR++I +GPG+VTAGDI Sbjct: 64 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLRMEVEGPKRLSINAKGPGIVTAGDIS 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A V MELTV+ G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 124 DSAGIEVLNREHVICHLDDGADVYMELTVNTGKGYVAAEKNKPEDAPIGLIPIDAIYSPV 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 184 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAYAARILQDQLSIFVNFDEPESA 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 244 SAKDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 302 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 303 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 340 >gi|56695425|ref|YP_165773.1| DNA-directed RNA polymerase subunit alpha [Ruegeria pomeroyi DSS-3] gi|62287367|sp|Q5LW32|RPOA_SILPO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56677162|gb|AAV93828.1| DNA-directed RNA polymerase, alpha subunit [Ruegeria pomeroyi DSS-3] Length = 338 Score = 409 bits (1051), Expect = e-112, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPARQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 ++VQID VLHE SS+ GV ED+TDIILN+K ++L+M + KR+++ +GP VVTAGDI Sbjct: 60 SSVQIDNVLHEFSSVAGVREDVTDIILNLKQVSLRMDVEGPKRLSVNAKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A + MELTV+ G GYV A +R E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEVLNRDHVICHLDDGADLFMELTVNTGKGYVSADKNRPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y V+ REGQVLDYDKL+M I+TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVAYDVQPTREGQVLDYDKLTMKIETDGSITPDDAVAFAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|319408741|emb|CBI82398.1| DNA-directed RNA polymerase alpha subunit [Bartonella schoenbuchensis R1] Length = 337 Score = 409 bits (1051), Expect = e-112, Method: Composition-based stats. Identities = 222/339 (65%), Positives = 271/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ G N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFHADGN--SNVVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I ++M + K V I K GPGVV AGDI+ Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIAIRMEEEGPKHVIICKEGPGVVRAGDIR 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME V+ G GYVP+ + ++ IGLI ID+LYSP+ Sbjct: 119 TVGDMEILNPEHVICTLDEGAEIRMEFIVNTGKGYVPSDRNCVDDAVIGLIPIDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++TI+T+G++ GED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTIETNGAVNGEDAVAFAARILQDQLSVFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + E+ L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LVEEPAS-ELSFNLALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|259416700|ref|ZP_05740620.1| DNA-directed RNA polymerase, alpha subunit [Silicibacter sp. TrichCH4B] gi|259348139|gb|EEW59916.1| DNA-directed RNA polymerase, alpha subunit [Silicibacter sp. TrichCH4B] Length = 338 Score = 408 bits (1050), Expect = e-112, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + ++AEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+K ++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKQVSLRMEVEGPKRLSINAKGPAVVTAGDIA 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ETAGIEVLNREHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ +DTDGSIT ED++A A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKVDTDGSITPEDALAFAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IEELAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEELAKKFED 336 >gi|108758094|ref|YP_631525.1| DNA-directed RNA polymerase subunit alpha [Myxococcus xanthus DK 1622] gi|119366701|sp|Q1D748|RPOA_MYXXD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|108461974|gb|ABF87159.1| DNA-directed RNA polymerase, alpha subunit [Myxococcus xanthus DK 1622] Length = 340 Score = 408 bits (1050), Expect = e-112, Method: Composition-based stats. Identities = 164/328 (50%), Positives = 224/328 (68%), Gaps = 1/328 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW++LIKP +E +AEPL RGF TLGN+LRRVL+SSL+GAAI Sbjct: 5 FVAKNWRDLIKPRRMEVDQ-DSATPTYGKFVAEPLERGFGTTLGNSLRRVLLSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T V+I+GV HE ++I V ED+TD++LN+K + L+M + K + I GP V AGDI Sbjct: 64 TTVKIEGVDHEFTTIPEVSEDVTDVVLNLKEVLLRMHTNETKTLRIEAEGPKEVKAGDII 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T D E+LNP H IC + +RMELT +G GY PA ++ PIG I ID+L+SPI Sbjct: 124 TDPDTEILNPGHHICTISEGGKLRMELTCRRGRGYTPANVNKVAGSPIGTIPIDSLFSPI 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y V +AR GQV D+DKLS+ + TDGS++ +D+VA A++I+++QL +F+NF+E ++ Sbjct: 184 RKVNYQVTNARVGQVTDFDKLSLEVWTDGSVSPQDAVAYAAKIIKEQLTVFVNFDETEEP 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + + N L + V+ELELSVRS NCL+ NI +GDL+QRTEA+ML+ NFGR Sbjct: 244 VVAEAPKEEAKLNENLFRSVDELELSVRSANCLQQANIKSIGDLVQRTEAEMLKTKNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPES 328 KSL EIK +L MGL LGM L +WPP+ Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENWPPKQ 331 >gi|326404313|ref|YP_004284395.1| DNA-directed RNA polymerase subunit alpha [Acidiphilium multivorum AIU301] gi|325051175|dbj|BAJ81513.1| DNA-directed RNA polymerase subunit alpha [Acidiphilium multivorum AIU301] Length = 339 Score = 408 bits (1050), Expect = e-112, Method: Composition-based stats. Identities = 203/337 (60%), Positives = 260/337 (77%), Gaps = 2/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+NWQ L KP ++ I G ++ +IAEPL RGF TLGNALRRVL+SSL GAA+T Sbjct: 3 LQRNWQSLRKPEKLD-IEPGADDTRVATIIAEPLERGFGLTLGNALRRVLLSSLHGAAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+IDGVLHE SSI GV ED+TDI+LNIK I ++M GD KR+T+ GP VTAG IQT Sbjct: 62 SVRIDGVLHEFSSIAGVREDVTDIVLNIKQIAVRMHGDGPKRMTVSATGPCEVTAGMIQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +DIEV+NP+ VIC LD A + ME TV G GY+PA +R E+ PIGLI +D++YSP++ Sbjct: 122 GHDIEVMNPELVICTLDDGATLGMEFTVESGRGYLPAAANRPEDAPIGLIPVDSIYSPVR 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +VSY VE R GQV DYD+L + I+T+G++T ED+VALA+RILQDQLGMFINFEEP++ + Sbjct: 182 RVSYRVEPTRVGQVTDYDRLILNIETNGAVTPEDAVALAARILQDQLGMFINFEEPQR-L 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + LPFNP LL+KV+ELELSVRS NCL+ +NIVY+GDL+Q++E +MLR NFGRK Sbjct: 241 RAEEPRPELPFNPNLLRKVDELELSVRSANCLKNDNIVYIGDLVQKSEQEMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK VL MGL LGM + DWPPE+IEEL K+ ++ Sbjct: 301 SLNEIKEVLSAMGLGLGMVVQDWPPENIEELVKRSDN 337 >gi|163745568|ref|ZP_02152928.1| DNA-directed RNA polymerase subunit alpha [Oceanibulbus indolifex HEL-45] gi|161382386|gb|EDQ06795.1| DNA-directed RNA polymerase subunit alpha [Oceanibulbus indolifex HEL-45] Length = 338 Score = 408 bits (1050), Expect = e-112, Method: Composition-based stats. Identities = 216/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLDV-KPGNDPARQATVMAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN +HVIC+LD A V MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEILNREHVICHLDDGADVYMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT +D+VA A+RILQDQLG+F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLGIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPPE+IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPENIEDLAKKFED 336 >gi|99080120|ref|YP_612274.1| DNA-directed RNA polymerase subunit alpha [Ruegeria sp. TM1040] gi|119366729|sp|Q1GK04|RPOA_SILST RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|99036400|gb|ABF63012.1| DNA-directed RNA polymerase alpha subunit [Ruegeria sp. TM1040] Length = 338 Score = 408 bits (1049), Expect = e-112, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + ++AEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEV-KPGNDPARQATLVAEPLERGFGLTLGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+K ++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKQVSLRMEVEGPKRLSINAKGPAVVTAGDIA 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ETAGIEVLNREHVICHLDDGADLFMELTVNTGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ +DTDGSIT ED++A A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKVDTDGSITPEDALAFAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 GRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IEELAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEELAKKFED 336 >gi|83854948|ref|ZP_00948478.1| DNA-directed RNA polymerase alpha subunit [Sulfitobacter sp. NAS-14.1] gi|83941471|ref|ZP_00953933.1| DNA-directed RNA polymerase alpha subunit [Sulfitobacter sp. EE-36] gi|83842791|gb|EAP81958.1| DNA-directed RNA polymerase alpha subunit [Sulfitobacter sp. NAS-14.1] gi|83847291|gb|EAP85166.1| DNA-directed RNA polymerase alpha subunit [Sulfitobacter sp. EE-36] Length = 338 Score = 408 bits (1049), Expect = e-112, Method: Composition-based stats. Identities = 214/338 (63%), Positives = 269/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + +IAEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLDV-KPGNDPARQATVIAEPLERGFGLTMGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+KG++L+M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKGVSLRMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD +A V MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEILNRDHVICHLDDNADVYMELTVNTGKGYVAADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSI+ +D+VA A+RILQDQLG+F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSISPDDAVAFAARILQDQLGIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRQDDD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|86135793|ref|ZP_01054372.1| DNA-directed RNA polymerase alpha subunit [Roseobacter sp. MED193] gi|85826667|gb|EAQ46863.1| DNA-directed RNA polymerase alpha subunit [Roseobacter sp. MED193] Length = 338 Score = 408 bits (1049), Expect = e-112, Method: Composition-based stats. Identities = 214/338 (63%), Positives = 266/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E G + + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLEA-KPGNDPARQATIIAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++L+M + KR++I +GP VVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSLRMEVEGPKRLSINAKGPAVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN +HVIC+LD A + MELTV+ G GYV A ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEVLNREHVICHLDDGADLFMELTVNTGKGYVSADKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ I+TDGS+T +D++A A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKIETDGSVTPDDALAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 NRQDED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|49474380|ref|YP_032422.1| DNA-directed RNA polymerase subunit alpha [Bartonella quintana str. Toulouse] gi|61215920|sp|Q6FZE6|RPOA_BARQU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|49239884|emb|CAF26282.1| DNA-directed RNA polymerase alpha chain [Bartonella quintana str. Toulouse] Length = 337 Score = 408 bits (1048), Expect = e-112, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 272/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ N + +I EPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVEFCTHDN--PNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I L+M + KRV + K GPGVV AGDI Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIALRMQEEGPKRVVVCKEGPGVVRAGDIN 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME V+ G GY+P+ + ++ IGLI +D+LYSPI Sbjct: 119 TVGDMEILNPEHVICTLDEGAEIRMEFIVNTGKGYIPSDRNCVDDGRIGLIPVDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++TI+T+G++ GED+VA A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTIETNGAVNGEDAVAFAARILQDQLSLFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 IVDESDS-ELTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPTWPPENIDDLAKRYEDQ 336 >gi|294675883|ref|YP_003576498.1| DNA-directed RNA polymerase subunit alpha [Rhodobacter capsulatus SB 1003] gi|294474703|gb|ADE84091.1| DNA-directed RNA polymerase, alpha subunit [Rhodobacter capsulatus SB 1003] Length = 338 Score = 407 bits (1047), Expect = e-111, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 266/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP +E I G + + + +IAEPL RGF TLGNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPTQLE-IKAGNDPQRQATVIAEPLERGFGLTLGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KGI+LKM + KR++I +GP VVT DI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGISLKMDVEGPKRLSISAKGPRVVTGADIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DHVIC+LD A V MELTV+ G GYV A +R E+ PIGLI IDA+YSP+ Sbjct: 120 ESMGIEVLNKDHVICHLDDGADVFMELTVNTGKGYVAADKNRPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y V+ REGQVLDYDKL+M I+TDGS+T ED+VA A+RILQDQL +F+NFEEP+ Sbjct: 180 KKVAYDVQPTREGQVLDYDKLTMKIETDGSLTPEDAVAYAARILQDQLSIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SKTDAD-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL +MGL LGM + DWPPE+IE+LAK++ED+ Sbjct: 299 KSLNEIKEVLSSMGLHLGMEVEDWPPENIEDLAKRFEDQ 337 >gi|163733783|ref|ZP_02141225.1| DNA-directed RNA polymerase subunit alpha [Roseobacter litoralis Och 149] gi|161392894|gb|EDQ17221.1| DNA-directed RNA polymerase subunit alpha [Roseobacter litoralis Och 149] Length = 338 Score = 407 bits (1047), Expect = e-111, Method: Composition-based stats. Identities = 214/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLDV-KPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++++M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSIRMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A V MELTV++G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 120 DSAGIEILNRDHVICHLDDGADVYMELTVNQGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQLG+F+NFEEP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAFAARILQDQLGIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRADED-DGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|90417743|ref|ZP_01225655.1| DNA-directed RNA polymerase, alpha subunit [Aurantimonas manganoxydans SI85-9A1] gi|90337415|gb|EAS51066.1| DNA-directed RNA polymerase, alpha subunit [Aurantimonas manganoxydans SI85-9A1] Length = 342 Score = 407 bits (1046), Expect = e-111, Method: Composition-based stats. Identities = 217/343 (63%), Positives = 270/343 (78%), Gaps = 6/343 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + + G + + AEPL RGF TLGNALRRVL+SSL+GAAI Sbjct: 1 MIASNWQDLTKPNQVVFKNGGSRSK--ASLTAEPLERGFGLTLGNALRRVLLSSLQGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SSI GV ED+TDI+LN+K IN+ M G+ KR+ + K+GPG+V AGDIQ Sbjct: 59 TAIQIDGVLHEFSSIPGVREDVTDIVLNVKEINIGMQGEGPKRMVVRKQGPGIVRAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIEVLNP+H IC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+L+SP+ Sbjct: 119 TVGDIEVLNPEHEICTLDEGAEIRMEFTVNTGKGYVPADQNRAEDAPIGLIPVDSLFSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ L+ DKL+M I+TDGSI+GED+VA A+RILQDQL +F+NFEEP+++ Sbjct: 179 KKVSYKVEATREGQDLNKDKLTMQIETDGSISGEDAVAYAARILQDQLSVFVNFEEPQRD 238 Query: 241 ----VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR Sbjct: 239 QRAPAGAEEQMAELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTP 298 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM + DWPPE+I++LAK+YED+ Sbjct: 299 NFGRKSLNEIKEVLASMGLHLGMEVSDWPPENIDDLAKRYEDQ 341 >gi|119366721|sp|Q16AB8|RPOA_ROSDO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 338 Score = 407 bits (1045), Expect = e-111, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 1 MIHKNWAELIKPQQLDV-KPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++++M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSIRMEVEGPKRLSISAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A V MELTV++G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 120 ESAGIEILNRDHVICHLDDGADVYMELTVNQGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQLG+F+NFEEP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAFAARILQDQLGIFVNFEEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D + L FNP LLKKV++LELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRADED-DGLEFNPLLLKKVDDLELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 299 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 336 >gi|110678754|ref|YP_681761.1| DNA-directed RNA polymerase subunit alpha [Roseobacter denitrificans OCh 114] gi|109454870|gb|ABG31075.1| DNA-directed RNA polymerase, alpha subunit [Roseobacter denitrificans OCh 114] Length = 342 Score = 406 bits (1044), Expect = e-111, Method: Composition-based stats. Identities = 213/338 (63%), Positives = 268/338 (79%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + + AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPQQLDV-KPGNDPARQATVTAEPLERGFGLTMGNALRRVLMSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDIILN+KG++++M + KR++I +GPGVVTAGDI Sbjct: 64 TSVQIDNVLHEFSSVAGVREDVTDIILNLKGVSIRMEVEGPKRLSISAKGPGVVTAGDIS 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A V MELTV++G GYV A+ ++ E+ PIGLI IDA+YSP+ Sbjct: 124 ESAGIEILNRDHVICHLDDGADVYMELTVNQGKGYVSAEKNKPEDAPIGLIPIDAIYSPV 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGS+T +D+VA A+RILQDQLG+F+NFEEP+ Sbjct: 184 KKVSYDVQPTREGQVLDYDKLTMKVETDGSLTPDDAVAFAARILQDQLGIFVNFEEPESA 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D + L FNP LLKKV++LELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 244 SRADED-DGLEFNPLLLKKVDDLELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 302 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 303 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 340 >gi|319407401|emb|CBI81052.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. 1-1C] Length = 337 Score = 406 bits (1043), Expect = e-111, Method: Composition-based stats. Identities = 217/339 (64%), Positives = 276/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEFHA--HNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID +LHE SSI GV ED+TDIILNIK I ++M + KRV + K GPGVV AGDIQ Sbjct: 59 TAVQIDSILHEFSSIPGVREDVTDIILNIKEIAIRMEEEGPKRVILCKEGPGVVKAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+ +LNP+HVIC LD DA VRMEL ++ G GYVP++ + ++ PIGLI +D+LYSP+ Sbjct: 119 TVGDMAILNPEHVICTLDEDAEVRMELIINTGKGYVPSERNCIDDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VE+ REGQ+LDYDKL++TI+T+G++ GED++A A+RILQDQL +F+NFEEP+KE Sbjct: 179 RRVSYKVENTREGQILDYDKLTLTIETNGAVNGEDAIAFAARILQDQLLVFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + E+ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LVEEPDS-ELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPP++I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPDNIDDLAKRYEDQ 336 >gi|319404401|emb|CBI78004.1| DNA-directed RNA polymerase alpha subunit [Bartonella rochalimae ATCC BAA-1498] Length = 337 Score = 406 bits (1043), Expect = e-111, Method: Composition-based stats. Identities = 219/339 (64%), Positives = 276/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEFHA--HNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID +LHE SSI GV ED+TDIILNIK I ++M + KRV + K GPGVV AGDIQ Sbjct: 59 TAVQIDSILHEFSSIPGVREDVTDIILNIKEIAIRMEEEGPKRVILCKEGPGVVKAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+ +LNP+HVIC LD DA VRMEL V+ G GYVP++ + ++ PIGLI +D+LYSP+ Sbjct: 119 TVGDMAILNPEHVICTLDEDAEVRMELIVNTGKGYVPSERNCIDDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQ+LDYDKL++TI+T+G++ GED++A A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKVENTREGQILDYDKLTLTIETNGAVNGEDAIAFAARILQDQLLVFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + E+ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LVEEPDS-ELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPP++I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPDNIDDLAKRYEDQ 336 >gi|296282607|ref|ZP_06860605.1| DNA-directed RNA polymerase subunit alpha [Citromicrobium bathyomarinum JL354] Length = 352 Score = 405 bits (1042), Expect = e-111, Method: Composition-based stats. Identities = 199/344 (57%), Positives = 254/344 (73%), Gaps = 8/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KP ++E G +++ + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPTSLELKDTGADKKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 65 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GPG V AGDI Sbjct: 66 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMEGEGPKRLQLSATGPGAVKAGDIAVSG 125 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIE+LN D VIC LD A + MELT G GYVPA +R + PIGLI +D+LYSPIK+V Sbjct: 126 DIEILNKDLVICQLDEGATLNMELTADTGKGYVPAVQNRPADAPIGLIPVDSLYSPIKQV 185 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE--- 240 SY VE+AR GQ LDYDKL++TI+TDG++T ED+VA A+RILQDQL +F++FE+ + Sbjct: 186 SYKVENARVGQELDYDKLNLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPSS 245 Query: 241 -----VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR Sbjct: 246 PMIGMAAEPQESDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRT 305 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 306 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 349 >gi|255264362|ref|ZP_05343704.1| DNA-directed RNA polymerase, alpha subunit [Thalassiobium sp. R2A62] gi|255106697|gb|EET49371.1| DNA-directed RNA polymerase, alpha subunit [Thalassiobium sp. R2A62] Length = 342 Score = 405 bits (1042), Expect = e-111, Method: Composition-based stats. Identities = 207/339 (61%), Positives = 265/339 (78%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + ++AEPL RGF T+GNALRRVLMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLDV-KPGNDPSRQATVVAEPLERGFGLTMGNALRRVLMSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SS+ G+ ED+TDI+LN+KG+ ++M + KR++I +GPGVVTAGDI Sbjct: 64 TAVQIDNVLHEFSSVSGLREDVTDIVLNLKGVAIRMEVEGPKRLSIQAKGPGVVTAGDIS 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN +HVIC+LD A + MELTV+ G GYV A+ ++ E+ PIG+++IDA+YSP+ Sbjct: 124 ESAGIEILNKEHVICHLDDGADLFMELTVNTGKGYVSAEKNKPEDAPIGMMSIDAIYSPV 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 184 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPES- 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 243 ASTAQEDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 302 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED+ Sbjct: 303 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFEDQ 341 >gi|49475770|ref|YP_033811.1| DNA-directed RNA polymerase subunit alpha [Bartonella henselae str. Houston-1] gi|51704335|sp|Q9FDC7|RPOA_BARHE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|49238577|emb|CAF27818.1| DNA-directed RNA polymerase alpha chain [Bartonella henselae str. Houston-1] Length = 337 Score = 405 bits (1042), Expect = e-111, Method: Composition-based stats. Identities = 221/339 (65%), Positives = 271/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ N + +I EPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVEFSKHDN--PNISSVIVEPLERGFGLTLGNALRRVLLSSLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I L+M + KR+ + K GPGV+ AGDI Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIALRMREEGPKRIVVCKEGPGVLRAGDIS 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD DA +RME V+ G GYVP+ + ++ IGLI +D+LYSPI Sbjct: 119 TVGDMEILNPDHVICTLDEDAEIRMEFIVNTGKGYVPSDRNCIDDARIGLIPVDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++T++T+G++ GED++A A+RILQDQL +FINF+EP+K Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTVETNGAVNGEDALAFAARILQDQLALFINFKEPEKP 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ N L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 TVEESNS-ELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 336 >gi|163868626|ref|YP_001609835.1| DNA-directed RNA polymerase subunit alpha [Bartonella tribocorum CIP 105476] gi|189043830|sp|A9IVZ5|RPOA_BART1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|161018282|emb|CAK01840.1| DNA-directed RNA polymerase alpha subunit [Bartonella tribocorum CIP 105476] Length = 337 Score = 405 bits (1042), Expect = e-111, Method: Composition-based stats. Identities = 227/339 (66%), Positives = 273/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E + N +IAEPL RGF TLGNALRRVL+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKVE--SFTHDNSNIISVIAEPLERGFGLTLGNALRRVLLSSLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I L+M + KR+ ++K GPGVV AGDI Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIALRMEEEGPKRLVVYKEGPGVVRAGDIN 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD DA +RME V+ G GYVP+ + ++ IGLI ID+LYSPI Sbjct: 119 TVGDMEILNPDHVICTLDEDAEIRMEFIVNTGKGYVPSDRNCVDDGRIGLIPIDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++TI+T+G++ GED+VA A+RILQDQL +FINFEEP+KE Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTIETNGAVNGEDAVAFAARILQDQLSLFINFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 PVEEADS-ELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|254437251|ref|ZP_05050745.1| DNA-directed RNA polymerase, alpha subunit [Octadecabacter antarcticus 307] gi|198252697|gb|EDY77011.1| DNA-directed RNA polymerase, alpha subunit [Octadecabacter antarcticus 307] Length = 342 Score = 405 bits (1041), Expect = e-111, Method: Composition-based stats. Identities = 208/338 (61%), Positives = 264/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW ELIKP ++ G + + +IAEPL RGF TLGNALRR+LMSSL+GAAI Sbjct: 5 MIHKNWAELIKPTQLDV-QPGNDPSRQATVIAEPLERGFGLTLGNALRRILMSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SSI GV ED+TD++LN+KG+ ++M + KR+ + +GPGVVTAGDI Sbjct: 64 TAVQIDNVLHEFSSISGVREDVTDVVLNLKGVAIRMEVEGPKRLQVQAKGPGVVTAGDIS 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHV+C+LD A + MELTV+ G+GYV A ++ E+ PIG++ IDA+YSP+ Sbjct: 124 ESAGIEILNKDHVLCHLDEGAELYMELTVNTGNGYVAADKNKPEDAPIGMMAIDAIYSPV 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL+M ++TDGSIT +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 184 KKVSYDVQPTREGQVLDYDKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPES- 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 243 AQTASDDDGLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 302 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK+ED Sbjct: 303 KSLNEIKEVLSGMGLHLGMDVEDWPPDNIEDLAKKFED 340 >gi|319405874|emb|CBI79506.1| DNA-directed RNA polymerase alpha subunit [Bartonella sp. AR 15-3] Length = 337 Score = 405 bits (1041), Expect = e-111, Method: Composition-based stats. Identities = 220/339 (64%), Positives = 275/339 (81%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEFHA--HNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID +LHE SSI GV ED+TDIILNIK I ++M + KRV + K GPGVV AGDIQ Sbjct: 59 TAVQIDSILHEFSSIPGVREDVTDIILNIKEIAIRMEEEGPKRVILCKEGPGVVKAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T+ D+ +LNP+HVIC LD D VRMEL V+ G GYVPA+ + T + PIGLI +D+LYSP+ Sbjct: 119 TIGDMAILNPEHVICTLDEDVEVRMELIVNTGKGYVPAERNCTNDTPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQ+LDYDKL++T++T+G++ GED++A A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKVENTREGQILDYDKLTLTVETNGAVNGEDAIAFAARILQDQLLVFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + E+ + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 LIEEPDP-ELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|114771243|ref|ZP_01448663.1| DNA-directed RNA polymerase alpha subunit [alpha proteobacterium HTCC2255] gi|114548168|gb|EAU51055.1| DNA-directed RNA polymerase alpha subunit [alpha proteobacterium HTCC2255] Length = 338 Score = 405 bits (1041), Expect = e-111, Method: Composition-based stats. Identities = 214/339 (63%), Positives = 261/339 (76%), Gaps = 2/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKP +E I G + +IAEPL RGF TLGNALRRVL+SSL+G+AI Sbjct: 1 MIHKNWQELIKPTQLE-IKPGADPLRMATVIAEPLERGFGLTLGNALRRVLLSSLQGSAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TD++LN+KG+ + M + KRV+I +GP +VTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDMVLNLKGVAIAMEVEGPKRVSISAKGPTIVTAGDIA 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IEVLN DH+IC+LD A + MELTV G GYV A +R E+ PIGLI IDALYSP+ Sbjct: 120 ETAGIEVLNKDHIICHLDDGASLFMELTVDTGKGYVAADQNRPEDAPIGLIPIDALYSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY V+ REGQVLDYD+L+M I+TDGS++ ED+VA A+RILQDQL F+NF EP+ Sbjct: 180 LKVSYDVQPTREGQVLDYDQLTMKIETDGSVSAEDAVAFAARILQDQLATFVNFNEPEAA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++D L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 QRQDEE-DDLEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM++ DWPPE+IEELAKK+ED+ Sbjct: 299 KSLNEIKEVLTVMGLHLGMDIVDWPPENIEELAKKFEDQ 337 >gi|87200540|ref|YP_497797.1| DNA-directed RNA polymerase subunit alpha [Novosphingobium aromaticivorans DSM 12444] gi|119366705|sp|Q2G5B0|RPOA_NOVAD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|87136221|gb|ABD26963.1| DNA-directed RNA polymerase subunit alpha [Novosphingobium aromaticivorans DSM 12444] Length = 353 Score = 405 bits (1040), Expect = e-111, Method: Composition-based stats. Identities = 198/346 (57%), Positives = 254/346 (73%), Gaps = 11/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPNN+E I G + + R +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNNLE-IKPGNDSKRRATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GPG V AGDI Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMQGEGPKRLQLSATGPGEVKAGDIAVTG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A MELTV G GYVPA +R + PIGLI +D+LYSP+++V Sbjct: 125 DIEVMNKDLVICHLDEGATFNMELTVDTGKGYVPAVSNRPVDAPIGLIPVDSLYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---- 239 SY VE+AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++F++ Sbjct: 185 SYKVENARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLALFVHFDDQVPVGHV 244 Query: 240 ------EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+ML Sbjct: 245 PMVAGVPAHAPEESDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEML 304 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 R NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 RTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 350 >gi|312115711|ref|YP_004013307.1| DNA-directed RNA polymerase, subunit alpha [Rhodomicrobium vannielii ATCC 17100] gi|311220840|gb|ADP72208.1| DNA-directed RNA polymerase, alpha subunit [Rhodomicrobium vannielii ATCC 17100] Length = 346 Score = 404 bits (1039), Expect = e-111, Method: Composition-based stats. Identities = 204/338 (60%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNWQ+LIKP I + G + ++AEPL RGF TLGNALRRVL+SSL+G A+ Sbjct: 9 VLNKNWQDLIKPGKINVVP-GANPKYVASIVAEPLERGFGLTLGNALRRVLLSSLQGGAV 67 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T + IDGVLHE SSI GV ED+TDI+LN+K + L++ + KR+ + K GPGV A DI+ Sbjct: 68 TTIHIDGVLHEFSSIPGVREDVTDIVLNVKEVALRIHSEGVKRMVLRKEGPGVARARDIE 127 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D+E+LNPDHV+C LD A VRMELT + G GYVPA+ +R ++ PIGLI +D+LYSP+ Sbjct: 128 AGPDVEILNPDHVLCTLDEGATVRMELTAAIGKGYVPAERNRPDDAPIGLIPVDSLYSPV 187 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY + + REGQ+LDYDKL++ ++T+G+++ ED+VALA+RI+QDQL +F+NFEEP+KE Sbjct: 188 KKVSYRIANTREGQILDYDKLTLDVETNGAVSPEDAVALAARIIQDQLSIFVNFEEPRKE 247 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V E + L FN ALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 248 VAE-ERIPQLEFNAALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 306 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM +P+WPPE+IEELAK++ED Sbjct: 307 KSLNEIKEVLAGMGLHLGMEVPNWPPENIEELAKRFED 344 >gi|319899075|ref|YP_004159168.1| DNA-directed RNA polymerase alpha subunit [Bartonella clarridgeiae 73] gi|319403039|emb|CBI76594.1| DNA-directed RNA polymerase alpha subunit [Bartonella clarridgeiae 73] Length = 337 Score = 404 bits (1038), Expect = e-110, Method: Composition-based stats. Identities = 218/339 (64%), Positives = 274/339 (80%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKP+ +E+ + N ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPSKVEFHT--HNDPNIVSVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID +LHE SSI GV ED+TDIILNIK I ++M + KR+ + K GPGVV AGDIQ Sbjct: 59 TAVQIDSILHEFSSIPGVREDVTDIILNIKEIAIRMEEEGPKRIILCKEGPGVVKAGDIQ 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+ +LNP+HVIC LD DA VRMEL V+ G GYVP++ + ++ PIGLI +D+LYSP+ Sbjct: 119 TVGDMAILNPEHVICTLDEDAEVRMELIVNTGKGYVPSERNCVDDAPIGLIPVDSLYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQ+LDYDKL++TI+T+G++ GED++A A+RILQDQL +F+NFEEP+KE Sbjct: 179 RKVSYKVENTREGQILDYDKLTLTIETNGAVNGEDAIAFAARILQDQLLVFVNFEEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 239 L-IEEPASELTFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEIPAWPPENIDDLAKRYEDQ 336 >gi|126724892|ref|ZP_01740735.1| DNA-directed RNA polymerase subunit alpha [Rhodobacterales bacterium HTCC2150] gi|126706056|gb|EBA05146.1| DNA-directed RNA polymerase subunit alpha [Rhodobacterales bacterium HTCC2150] Length = 338 Score = 403 bits (1037), Expect = e-110, Method: Composition-based stats. Identities = 209/338 (61%), Positives = 265/338 (78%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNWQELIKPN ++ G + + +IAEPL RGF T+GNALRR+LMSSL+GAAI Sbjct: 1 MIHKNWQELIKPNQLKV-QPGNDPSRQATVIAEPLERGFGLTMGNALRRILMSSLQGAAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+VQID VLHE SS+ GV ED+TDI+LN+K + ++M + KR++I +GPGVVTAGDI Sbjct: 60 TSVQIDNVLHEFSSVAGVREDVTDIVLNLKSVAIRMEVEGPKRLSIAAKGPGVVTAGDIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+LN DHVIC+LD A V MELTV+ G GYV A+ ++ E+ PIGLI IDA++SP+ Sbjct: 120 DSAGIEILNKDHVICHLDDGADVFMELTVNTGKGYVSAEKNKPEDAPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY V+ REGQVLDYDKL++ ++TDGS+T +D+VA A+RILQDQL +F+NF+EP+ Sbjct: 180 KKVSYDVQPTREGQVLDYDKLTLKLETDGSLTPDDAVAFAARILQDQLSIFVNFDEPESA 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D L FNP LLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGR Sbjct: 240 SRADEE-DELEFNPLLLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL MGL LGM++ DWPP++IE+LAKK +D Sbjct: 299 KSLNEIKEVLSGMGLHLGMDIVDWPPDNIEDLAKKLDD 336 >gi|149922187|ref|ZP_01910625.1| DNA-directed RNA polymerase subunit alpha [Plesiocystis pacifica SIR-1] gi|149816927|gb|EDM76412.1| DNA-directed RNA polymerase subunit alpha [Plesiocystis pacifica SIR-1] Length = 337 Score = 403 bits (1036), Expect = e-110, Method: Composition-based stats. Identities = 156/331 (47%), Positives = 219/331 (66%), Gaps = 4/331 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 I +NW++LI+P ++ ++ EPL RG+ T+GN+LRRVL+SSL+GAA+T Sbjct: 7 IARNWRDLIRPKKLDVDN-DSLTDSYGKFTCEPLERGYGITIGNSLRRVLLSSLQGAAVT 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+G LHE +SI V ED+TDIILNIK + L M + + + I K G G VTA DIQ Sbjct: 66 TVRIEGALHEFTSIPAVVEDVTDIILNIKALRLSMDDATPRTLLISKTGEGPVTAADIQA 125 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + + VL+P I L ++ME+T + G GY A ++TE PIG+I ID+L+SPI+ Sbjct: 126 PSGVHVLDPSQHIATLSKGGRLQMEMTCAMGRGYATADQNKTEGMPIGVIPIDSLFSPIR 185 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV+Y V +AR G DYD+L + + TDGS+ +D++A A++I+++QL +FIN EE + E Sbjct: 186 KVNYRVTNARVGHRTDYDRLILQVWTDGSVKPDDALAYAAKIVKEQLSIFINHEEIE-ET 244 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + N L + V+ELELSVRS NCL+ NI Y+GDL+QRTEA+ML+ NFGRK Sbjct: 245 QAPSQSEQDKLNDVLWRSVDELELSVRSANCLQNANIHYIGDLVQRTEAEMLKTKNFGRK 304 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW--PPESIE 330 SL EIK +L MGL LGM + W PP + E Sbjct: 305 SLKEIKEILAQMGLSLGMKIEGWQGPPPNRE 335 >gi|326387079|ref|ZP_08208689.1| DNA-directed RNA polymerase subunit alpha [Novosphingobium nitrogenifigens DSM 19370] gi|326208260|gb|EGD59067.1| DNA-directed RNA polymerase subunit alpha [Novosphingobium nitrogenifigens DSM 19370] Length = 353 Score = 403 bits (1035), Expect = e-110, Method: Composition-based stats. Identities = 196/346 (56%), Positives = 252/346 (72%), Gaps = 11/346 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E G + + R IAEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLEV-KPGNDPQRRATFIAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GPG V AGDI Sbjct: 65 RIENVLHEFSSLAGVREDVTDIVLNVKQIALKMQGEGPKRLQLSATGPGEVRAGDIAVTG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A MELT G GYVPA +R + PIGLI ID+LYSP+++V Sbjct: 125 DIEVMNKDLVICHLDEGATFNMELTADTGKGYVPAVSNRPIDAPIGLIPIDSLYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE--- 240 SY V++AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++F++ Sbjct: 185 SYKVDNARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLSLFVHFDDQLPTGHV 244 Query: 241 -------VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+ML Sbjct: 245 AVVSGLATHAPEESDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEML 304 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 R NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 RTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 350 >gi|307294931|ref|ZP_07574773.1| DNA-directed RNA polymerase, alpha subunit [Sphingobium chlorophenolicum L-1] gi|306879405|gb|EFN10623.1| DNA-directed RNA polymerase, alpha subunit [Sphingobium chlorophenolicum L-1] Length = 354 Score = 402 bits (1034), Expect = e-110, Method: Composition-based stats. Identities = 196/347 (56%), Positives = 255/347 (73%), Gaps = 12/347 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E I + + + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLE-IKVSGDGRRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LNIK + L+M GD +R+ + GP V AGDI TV Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNIKQVALRMEGDGPRRLQLSATGPAEVRAGDITTVG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+NPD VIC+LD A + MELT G GYVPA +R + PIGLI IDALYSP+++V Sbjct: 125 DIEVMNPDLVICHLDQGATLNMELTADVGKGYVPAVANRPADAPIGLIPIDALYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 237 ----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AAGAAAGGSASEGESDANQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 351 >gi|294010565|ref|YP_003544025.1| DNA-directed RNA polymerase alpha subunit [Sphingobium japonicum UT26S] gi|292673895|dbj|BAI95413.1| DNA-directed RNA polymerase alpha subunit [Sphingobium japonicum UT26S] Length = 354 Score = 402 bits (1033), Expect = e-110, Method: Composition-based stats. Identities = 197/347 (56%), Positives = 254/347 (73%), Gaps = 12/347 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E V G + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNSLEIKVAGD-GRRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LNIK + L+M GD +R+ + GP V AGDI TV Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNIKQVALRMEGDGPRRLQLSATGPAEVRAGDITTVG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+NPD VIC+LD A + MELT G GYVPA +R + PIGLI IDALYSP+++V Sbjct: 125 DIEVMNPDLVICHLDQGATLNMELTADVGKGYVPAVANRPADAPIGLIPIDALYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 AYKVDNTRVGQELDYDKLSLTVETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 244 Query: 237 ----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 245 AAGAAAGGSASEGESDANQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 351 >gi|103486058|ref|YP_615619.1| DNA-directed RNA polymerase subunit alpha [Sphingopyxis alaskensis RB2256] gi|119366731|sp|Q1GVN6|RPOA_SPHAL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|98976135|gb|ABF52286.1| DNA-directed RNA polymerase, alpha subunit [Sphingopyxis alaskensis RB2256] Length = 352 Score = 402 bits (1032), Expect = e-110, Method: Composition-based stats. Identities = 193/345 (55%), Positives = 254/345 (73%), Gaps = 10/345 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NWQEL KP+N+E I G + + + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 RNWQELKKPSNLE-IKTGGDGKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GP V AGDI Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMEGEGPKRLQLSATGPATVKAGDIMVSG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DI+V+NP+HVIC+LD A + MEL G GYVPA +R + PIGLI +D+LYSP+++V Sbjct: 125 DIKVMNPNHVICHLDEGATLNMELVADTGKGYVPATANRPADAPIGLIPVDSLYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE--- 240 +Y V++AR GQ LDYDKL++T++TDG++T ED+VA A+RILQDQL +F++FEE + Sbjct: 185 AYKVDNARIGQELDYDKLNLTVETDGTVTPEDAVAYAARILQDQLQVFVHFEEAMSDSGL 244 Query: 241 ------VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR Sbjct: 245 IGMAAPSAASDESDVNQLNRFLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLR 304 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 TPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 349 >gi|332186889|ref|ZP_08388631.1| DNA-directed RNA polymerase, alpha subunit [Sphingomonas sp. S17] gi|332013222|gb|EGI55285.1| DNA-directed RNA polymerase, alpha subunit [Sphingomonas sp. S17] Length = 354 Score = 401 bits (1030), Expect = e-110, Method: Composition-based stats. Identities = 187/348 (53%), Positives = 248/348 (71%), Gaps = 14/348 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNALEKK--GGDGKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 63 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K + ++M G+ KR+ + GP V AGDI Sbjct: 64 KIENVLHEFSSLAGVREDVTDIVLNVKQLAIRMQGEGPKRLQLSATGPTTVKAGDIAVSG 123 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A + MELT G GYVPA +R + PIGLI +DALYSP+++V Sbjct: 124 DIEVMNKDLVICHLDEGATLNMELTADIGKGYVPAASNRPADAPIGLIPVDALYSPVRQV 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK----- 238 SY V+ R GQ LDYDKL+++++TDG++T ED+VA A+RILQDQL +F++F++ Sbjct: 184 SYKVDPTRVGQDLDYDKLTLSVETDGTVTPEDAVAYAARILQDQLALFVHFDDSALTRAA 243 Query: 239 -------KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+ +TEA+ Sbjct: 244 PVGQAAIPAAGGEPQSDAQQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVGKTEAE 303 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IEE+AKK E + Sbjct: 304 MLRTPNFGRKSLNEIKEVLSSMGLRLGMEIPGWPPENIEEMAKKLEQE 351 >gi|9837272|gb|AAG00506.1|AF285111_1 RNA polymerase alpha subunit [Bartonella henselae] Length = 337 Score = 400 bits (1029), Expect = e-109, Method: Composition-based stats. Identities = 219/339 (64%), Positives = 269/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELI PN +E+ N + +I EPL RGF TLGNALRRVL+S LRGAAI Sbjct: 1 MIQKNWQELINPNKVEFSKHDN--PNISSVIVEPLERGFGLTLGNALRRVLLSYLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDIILNIK I L+M + KR+ + K GPGV+ AGDI Sbjct: 59 TAVQIDGVLHEFSSIPGVREDVTDIILNIKEIALRMREEGPKRIVVCKEGPGVLRAGDIS 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNPDHVIC LD DA +RME V+ G GYVP+ + ++ IGLI +D+LYSPI Sbjct: 119 TVGDMEILNPDHVICTLDEDAEIRMEFIVNTGKGYVPSDRNCIDDARIGLIPVDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KVSY VE+ REGQVLDYDKL++T++T+G++ GED++A A+RILQDQL +FINF+EP+K Sbjct: 179 RKVSYKVENTREGQVLDYDKLTLTVETNGAVNGEDALAFAARILQDQLALFINFKEPEKP 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ N L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 TVEESNS-ELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM +P WPPE+I++LAK+YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEVPTWPPENIDDLAKRYEDQ 336 >gi|114704508|ref|ZP_01437416.1| DNA-directed RNA polymerase alpha subunit [Fulvimarina pelagi HTCC2506] gi|114539293|gb|EAU42413.1| DNA-directed RNA polymerase alpha subunit [Fulvimarina pelagi HTCC2506] Length = 350 Score = 400 bits (1028), Expect = e-109, Method: Composition-based stats. Identities = 219/352 (62%), Positives = 269/352 (76%), Gaps = 16/352 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI NWQ+L KPN + V + + AEPL RGF TLGNALRRVL+SSL+GAA+ Sbjct: 1 MIASNWQDLSKPNQV---VFKGSGRTKASLTAEPLERGFGLTLGNALRRVLLSSLQGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK IN+ M G+ KR+ + K+GPGVV AGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEINIGMQGEGPKRMVVRKQGPGVVRAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIEVLNPDH IC LD A +RME TV+ G GY+PA +R E+ PIGLI IDAL+SP+ Sbjct: 118 TVGDIEVLNPDHEICTLDEGAEIRMEFTVNTGKGYIPADQNRAEDAPIGLIPIDALFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VE+ REGQ L+ DKL+M I+TDGSI+GED+VA A+RI+QDQL +F+NFEEP+++ Sbjct: 178 KKVSYKVENTREGQDLNKDKLTMQIETDGSISGEDAVAYAARIIQDQLSVFVNFEEPQRD 237 Query: 241 -------------VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + ++ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+ Sbjct: 238 QRGMAIGAGVGGGAAAEEPMQELAFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQK 297 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 TEA+MLR NFGRKSL EIK VL +MGL LGM + WPPE+I++LAK+YED+ Sbjct: 298 TEAEMLRTPNFGRKSLNEIKEVLASMGLHLGMEVQAWPPENIDDLAKRYEDQ 349 >gi|94496225|ref|ZP_01302803.1| DNA-directed RNA polymerase, alpha subunit [Sphingomonas sp. SKA58] gi|94424404|gb|EAT09427.1| DNA-directed RNA polymerase, alpha subunit [Sphingomonas sp. SKA58] Length = 350 Score = 400 bits (1027), Expect = e-109, Method: Composition-based stats. Identities = 196/347 (56%), Positives = 255/347 (73%), Gaps = 12/347 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN++E I + + + +AEPL RGF TLGNALRRVL+SSL+GAA+T++ Sbjct: 2 KNWQELKKPNSLE-IKASGDGKRKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAVTSI 60 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LNIK + LKM G+ KR+ + GP VV AGDI V Sbjct: 61 KIENVLHEFSSLTGVREDVTDIVLNIKQVALKMEGEGPKRLQLSATGPAVVKAGDISVVG 120 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+NPD VIC+LD A + MELT G GYVPA +R + PIGLI +DALYSP+++V Sbjct: 121 DIEVMNPDLVICHLDQGATLNMELTADVGKGYVPAVANRPADAPIGLIPVDALYSPVRQV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y V++ R GQ LDYDKLS+T++TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 181 AYKVDNTRVGQELDYDKLSLTLETDGTVTPEDAVAYAARILQDQLQLFVHFEDALPAAAP 240 Query: 237 ----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+M Sbjct: 241 ATGHAAGAAASEGESDANQINRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEM 300 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LR NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 301 LRTPNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 347 >gi|85709029|ref|ZP_01040095.1| DNA-directed RNA polymerase alpha subunit [Erythrobacter sp. NAP1] gi|85690563|gb|EAQ30566.1| DNA-directed RNA polymerase alpha subunit [Erythrobacter sp. NAP1] Length = 351 Score = 398 bits (1024), Expect = e-109, Method: Composition-based stats. Identities = 197/344 (57%), Positives = 253/344 (73%), Gaps = 9/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + +T +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNALEIKEGGDK-QRKTTFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GP VTAGDI Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMEGEGPKRLQLSMTGPAEVTAGDIAVTG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D V+C+LD A + MELT G GY PA +R + PIGLI +D+LYSP+++V Sbjct: 125 DIEVMNKDLVLCHLDEGATLNMELTADVGKGYSPAVQNRPADAPIGLIPVDSLYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---- 239 SY VE+AR GQ LDYDKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 SYKVENARVGQELDYDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPQS 244 Query: 240 ----EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR Sbjct: 245 AMIGQAATPQEDDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRT 304 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 348 >gi|153004800|ref|YP_001379125.1| DNA-directed RNA polymerase subunit alpha [Anaeromyxobacter sp. Fw109-5] gi|171769306|sp|A7HBP5|RPOA_ANADF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|152028373|gb|ABS26141.1| DNA-directed RNA polymerase, alpha subunit [Anaeromyxobacter sp. Fw109-5] Length = 339 Score = 398 bits (1024), Expect = e-109, Method: Composition-based stats. Identities = 163/327 (49%), Positives = 222/327 (67%), Gaps = 1/327 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAI Sbjct: 5 IVTKNWRDLIKPRGL-VVDQESLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+I+GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGDI Sbjct: 64 TSVKIEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNEVKTLRIEADGPREIKAGDII 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E+LNP H I + VRME+T +G GYVPA ++ PIG I IDAL+SPI Sbjct: 124 ADGQVEILNPGHHILTISEGGRVRMEMTARRGRGYVPADKNKVPGQPIGTIPIDALFSPI 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y V +AR GQ DYDKLS+ + TDGS+ D+VA A++I+++QL +FINF+E ++ Sbjct: 184 RKVNYQVTNARVGQQTDYDKLSLEVWTDGSVAPNDAVAYAAKIVKEQLSIFINFDEAEEP 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGR Sbjct: 244 AEEVKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK +L MGL LGM L +WPP+ Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENWPPK 330 >gi|56551437|ref|YP_162276.1| DNA-directed RNA polymerase subunit alpha [Zymomonas mobilis subsp. mobilis ZM4] gi|241761084|ref|ZP_04759173.1| DNA-directed RNA polymerase, alpha subunit [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|260752950|ref|YP_003225843.1| DNA-directed RNA polymerase subunit alpha [Zymomonas mobilis subsp. mobilis NCIMB 11163] gi|61215794|sp|Q5NQ40|RPOA_ZYMMO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56543011|gb|AAV89165.1| DNA-directed RNA polymerase, alpha subunit [Zymomonas mobilis subsp. mobilis ZM4] gi|241374703|gb|EER64164.1| DNA-directed RNA polymerase, alpha subunit [Zymomonas mobilis subsp. mobilis ATCC 10988] gi|258552313|gb|ACV75259.1| DNA-directed RNA polymerase, alpha subunit [Zymomonas mobilis subsp. mobilis NCIMB 11163] Length = 353 Score = 398 bits (1023), Expect = e-109, Method: Composition-based stats. Identities = 197/348 (56%), Positives = 252/348 (72%), Gaps = 13/348 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + +AEPL RGF TLGNALRRVL+SSL+GAAITA+ Sbjct: 6 KNWQELKKPNALEKKASGN-GKCKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITAI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LNIK + +KM GD +R+ I + GPGVVTAGDI Sbjct: 65 KIENVLHEFSSLNGVREDVTDIVLNIKQVAIKMQGDGSRRLHISRTGPGVVTAGDIAVSG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+NP+ VIC+LD AV ELTV G GYV A +R + PIGLI +DALYSP+++V Sbjct: 125 DIEVMNPELVICHLDQGAVFNAELTVDTGKGYVAAVANRPADAPIGLIPVDALYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y VE+AR GQ LDYDKL +TI+TDG+I+ ED++A ++RILQDQL +F++F++ Sbjct: 185 AYKVENARVGQELDYDKLLLTIETDGTISPEDAIAYSARILQDQLQLFVHFDDGLAPPTS 244 Query: 237 -----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+ Sbjct: 245 AIGQSSLPSSSSEAENSANQLNRNLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAE 304 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 MLR NFGRKSL EIK VL MGL LGM +P WPPE+IEE+AKK E + Sbjct: 305 MLRTPNFGRKSLNEIKEVLSGMGLRLGMEIPGWPPENIEEMAKKLEQE 352 >gi|149184338|ref|ZP_01862656.1| DNA-directed RNA polymerase subunit alpha [Erythrobacter sp. SD-21] gi|148831658|gb|EDL50091.1| DNA-directed RNA polymerase subunit alpha [Erythrobacter sp. SD-21] Length = 351 Score = 398 bits (1023), Expect = e-109, Method: Composition-based stats. Identities = 197/344 (57%), Positives = 252/344 (73%), Gaps = 9/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN ++ G + + +AEPL RGF TLGNALRRVL+SSL+GAAIT++ Sbjct: 6 KNWQELKKPNTLDIKDGGDKG-RKATFVAEPLERGFGLTLGNALRRVLLSSLQGAAITSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GPG V AGDI Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMEGEGLKRLQLSATGPGEVKAGDIAVTG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A + MELT G GY PA +R + PIGLI +D+LYSP+++V Sbjct: 125 DIEVMNKDLVICHLDEGATLNMELTADSGKGYRPAVMNRPVDAPIGLIPVDSLYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK---- 239 SY VE+AR GQ LDYDKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE+ Sbjct: 185 SYKVENARVGQELDYDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPSS 244 Query: 240 ----EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + E + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR Sbjct: 245 AMIGQAAEPQESDTNQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRT 304 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 348 >gi|115376084|ref|ZP_01463329.1| DNA-directed RNA polymerase, alpha subunit [Stigmatella aurantiaca DW4/3-1] gi|310821022|ref|YP_003953380.1| DNA-directed RNA polymerase subunit alpha [Stigmatella aurantiaca DW4/3-1] gi|115366899|gb|EAU65889.1| DNA-directed RNA polymerase, alpha subunit [Stigmatella aurantiaca DW4/3-1] gi|309394094|gb|ADO71553.1| DNA-directed RNA polymerase subunit alpha [Stigmatella aurantiaca DW4/3-1] Length = 343 Score = 398 bits (1023), Expect = e-109, Method: Composition-based stats. Identities = 159/324 (49%), Positives = 222/324 (68%), Gaps = 1/324 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 I KNW++LIKP +E +AEPL RGF TLGN+LRRVL+SSL+G+AI Sbjct: 5 FIAKNWRDLIKPRRLEVDQ-DSLSTTYGKFVAEPLERGFGTTLGNSLRRVLLSSLQGSAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+I+ V HE +++ V ED+TDI+LN+K + L+M + K + I GP + AGDI Sbjct: 64 TSVKIENVDHEFTTLPEVAEDVTDIVLNLKEVLLRMHTNETKTLRIEAEGPKEIKAGDII 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D+E+LNP H IC + VRMEL+ +G GYVPA ++ P+G I ID+L++PI Sbjct: 124 ADQDVEILNPGHHICTVSEGGKVRMELSCRRGRGYVPASVNKVAGAPLGTIPIDSLFAPI 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y V +AR GQV DYDKL++ + TDGS+T +D+VA A++I+++QL +F+NF+E ++ Sbjct: 184 RKVNYQVTNARVGQVTDYDKLTLEVWTDGSVTPQDAVAYAAKIIKEQLTVFVNFDETEEP 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + + N L + V+ELELSVRS NCL+ NI +GDL+QRTEA+ML+ NFGR Sbjct: 244 VVAEAPKEEAKLNENLFRSVDELELSVRSANCLQQANIKSIGDLVQRTEAEMLKTKNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL EIK +L MGL LGM L +W Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENW 327 >gi|85374439|ref|YP_458501.1| DNA-directed RNA polymerase subunit alpha [Erythrobacter litoralis HTCC2594] gi|123099515|sp|Q2N9D7|RPOA_ERYLH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|84787522|gb|ABC63704.1| DNA-directed RNA polymerase alpha subunit [Erythrobacter litoralis HTCC2594] Length = 351 Score = 398 bits (1022), Expect = e-109, Method: Composition-based stats. Identities = 194/344 (56%), Positives = 250/344 (72%), Gaps = 9/344 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KP ++ ++ + IAEPL RG+ TLGNALRRVL++SL+GAAIT++ Sbjct: 6 KNWQELKKPTQLDVKE-SSDKARKATFIAEPLERGYGLTLGNALRRVLLASLQGAAITSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM G+ KR+ + GP V AGDI Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMEGEGPKRLQLSATGPAEVKAGDIAVSG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A + MELT G GYVPA +R + PIGLI +D+LYSPI++V Sbjct: 125 DIEVMNKDLVICHLDEGATLNMELTADIGSGYVPAVQNRPADAPIGLIPVDSLYSPIRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE--- 240 SY VE AR GQ LD+DKLS+TI+TDG++T ED+VA A+RILQDQL +F++FE+ + Sbjct: 185 SYKVEKARVGQELDFDKLSLTIETDGTVTPEDAVAYAARILQDQLTLFVHFEDGIPQPQS 244 Query: 241 -----VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR Sbjct: 245 AMIGVAAEPQQDDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRT 304 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EIK VL +MGL LGM++P WPPE+IEE+AKK E + Sbjct: 305 PNFGRKSLNEIKEVLSSMGLRLGMDIPGWPPENIEEMAKKLEQE 348 >gi|121601834|ref|YP_989021.1| DNA-directed RNA polymerase subunit alpha [Bartonella bacilliformis KC583] gi|158513082|sp|A1USR8|RPOA_BARBK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120614011|gb|ABM44612.1| DNA-directed RNA polymerase, alpha subunit [Bartonella bacilliformis KC583] Length = 337 Score = 398 bits (1022), Expect = e-109, Method: Composition-based stats. Identities = 216/339 (63%), Positives = 269/339 (79%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN IE+ N ++AEPL RGF TLGNALRR+L+SSLRGAAI Sbjct: 1 MIQKNWQELIKPNKIEFHA--HSNPNVLSVVAEPLERGFGLTLGNALRRILLSSLRGAAI 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQ++GVLHE SSI GV ED+ DIILNIK I ++M + KR+ + K GPG+V AGDI+ Sbjct: 59 TAVQVEGVLHEFSSIPGVREDVADIILNIKEIAIRMEEEGPKRIVVCKEGPGIVKAGDIR 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV D+E+LNP+HVIC LD A +RME V+ G GYVP+ + ++ PIGLI ID+LYSPI Sbjct: 119 TVGDMEILNPEHVICTLDEGAEIRMEFIVNTGKGYVPSDRNCFDDAPIGLIPIDSLYSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KVSY VE+ REGQVLDYDKL++TI+T+G++ G+D+VA A+RILQDQL +F+NF+EP+KE Sbjct: 179 NKVSYKVENTREGQVLDYDKLTLTIETNGAVNGKDAVAFAARILQDQLSVFVNFKEPQKE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + E+ L FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TE++MLR NFGR Sbjct: 239 LVEEQ-TSELSFNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTESEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM + WPPE+I++LAK YED+ Sbjct: 298 KSLNEIKEVLACMGLHLGMEISAWPPENIDDLAKHYEDQ 336 >gi|294085982|ref|YP_003552742.1| DNA-directed RNA polymerase subunit alpha [Candidatus Puniceispirillum marinum IMCC1322] gi|292665557|gb|ADE40658.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Puniceispirillum marinum IMCC1322] Length = 338 Score = 397 bits (1021), Expect = e-109, Method: Composition-based stats. Identities = 187/338 (55%), Positives = 256/338 (75%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI+KNW +L KP+ +E I + + ++ ++ P RGF T+GNALRRVL+SSL+G+AI Sbjct: 1 MIEKNWLDLKKPDELE-IKVSEYNPSQAVVAVGPFERGFGVTIGNALRRVLLSSLQGSAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQI GV+HE SSI GV ED+TD++LN+KG+ ++ + KR+ + GP VTAG I Sbjct: 60 TAVQIQGVVHEFSSIPGVREDVTDLVLNLKGVAVRKDEEGSKRLRLSAEGPLAVTAGMIS 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPDHV+C+LD A + MELTV+ G GYVPA +R+E+ PIGLI IDA++SP+ Sbjct: 120 ESAGVEIMNPDHVLCHLDKGASLAMELTVASGKGYVPAVANRSEDSPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +V+Y VE+AR GQ+ DYDKL +T++TDGS+T ED+VA A+RILQ+QL FINFEEPK Sbjct: 180 LQVAYKVENARVGQITDYDKLLLTLETDGSVTPEDAVAYAARILQEQLQTFINFEEPKSN 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +D + LPF+ LL+KV+ELELSVRS NCL+ +NIVY+GDL+ +TE +MLR NFGR Sbjct: 240 T-QDEDPDPLPFSRNLLRKVDELELSVRSANCLKNDNIVYIGDLVLKTEHEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK VL M L LGM++ +WPPE++EELA++ ++ Sbjct: 299 KSLNEIKEVLKGMELELGMDIANWPPENVEELARRLDE 336 >gi|239787588|emb|CAX84056.1| DNA-directed RNA polymerase subunit alpha [uncultured bacterium] Length = 339 Score = 397 bits (1019), Expect = e-108, Method: Composition-based stats. Identities = 169/339 (49%), Positives = 242/339 (71%), Gaps = 3/339 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELIKP +E + + + + ++AEPL RGF TLGNALRRVL+SSL+GAA++ Sbjct: 1 MYRNWTELIKPRKVELVG-EGDSQYKATLVAEPLERGFGTTLGNALRRVLLSSLQGAAVS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 AV+I+GVLHE SSI GV ED+TDIILN+KG+ ++M + +T+ GVVTAGDI Sbjct: 60 AVRIEGVLHEFSSIPGVLEDVTDIILNLKGVAIRMRSGVTRTMTLVADKEGVVTAGDIDC 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPI 180 +DIE+LNP H I L+ + M +TV+ G GYV A + G I +D Y+P+ Sbjct: 120 GHDIEILNPGHHIATLNKSGKLNMTMTVTTGKGYVRATTGADDQPTNIGDIPLDCSYNPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY V +AR GQ DYD+L + I+T+G ++ ED++ALA++ILQDQL +FINF++ Sbjct: 180 KRVSYKVSNARVGQQTDYDRLVLDIETNGVVSPEDALALAAKILQDQLSLFINFDDIPIH 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q+TE++ML+ NFGR Sbjct: 240 -EGRDDNATPKWNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKTESEMLKTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL M L LGM+L WPPE++E+LA++++++ Sbjct: 299 KSLNEIKEVLEEMDLSLGMHLDGWPPENLEDLARQFDEE 337 >gi|148554247|ref|YP_001261829.1| DNA-directed RNA polymerase subunit alpha [Sphingomonas wittichii RW1] gi|166229281|sp|A5V5X5|RPOA_SPHWW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148499437|gb|ABQ67691.1| DNA-directed RNA polymerase, alpha subunit [Sphingomonas wittichii RW1] Length = 353 Score = 395 bits (1016), Expect = e-108, Method: Composition-based stats. Identities = 189/348 (54%), Positives = 249/348 (71%), Gaps = 13/348 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNWQEL KPN +E G + + + +AEPL RGF TLGN+LRRVL+SSL+GAA+T++ Sbjct: 6 KNWQELKKPNGLE-KKSGGDGKRKATFVAEPLERGFGLTLGNSLRRVLLSSLQGAAVTSI 64 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+ VLHE SS+ GV ED+TDI+LN+K I LKM GD +R+ + GP VTAG I Sbjct: 65 KIENVLHEFSSLAGVREDVTDIVLNVKQIALKMQGDGPRRLQLSATGPAEVTAGMIAASG 124 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIEV+N D VIC+LD A + MELT G GYV A +R + PIGLI +DALYSP+++V Sbjct: 125 DIEVMNTDLVICHLDDGATLNMELTADVGKGYVTAAANRPVDAPIGLIPVDALYSPVRQV 184 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE------- 236 +Y VE+ R GQ LDYDKL++TI+TDG++T ED++A ++RILQDQL +F++F++ Sbjct: 185 AYKVENTRVGQELDYDKLTLTIETDGTVTPEDALAYSARILQDQLQLFVHFDDGMAISAP 244 Query: 237 -----PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + N LLKKV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+ Sbjct: 245 AAGAGAAGGAAGEPEGDANQLNRYLLKKVDELELSVRSANCLKNDNIIYIGDLVQKTEAE 304 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IEE+AKK E + Sbjct: 305 MLRTPNFGRKSLNEIKEVLASMGLRLGMEIPGWPPENIEEMAKKLEQE 352 >gi|116749017|ref|YP_845704.1| DNA-directed RNA polymerase subunit alpha [Syntrophobacter fumaroxidans MPOB] gi|158512349|sp|A0LIL7|RPOA_SYNFM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116698081|gb|ABK17269.1| DNA-directed RNA polymerase, alpha subunit [Syntrophobacter fumaroxidans MPOB] Length = 335 Score = 394 bits (1013), Expect = e-108, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 237/337 (70%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+NW+ELIKP +E G EPL RGF TLGNALRRVL+SSL+GAAIT Sbjct: 1 MQRNWRELIKPKRLEVETKG-LPNTYGKFECEPLERGFGITLGNALRRVLLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V++DGVLHE S+I GV ED+TD+ILN+K + KM D + V I K G G V AGDIQ Sbjct: 60 SVKVDGVLHEFSTIPGVLEDVTDVILNLKEVRFKMHSDGPRLVVIEKDGEGEVAAGDIQG 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EVLNP+ IC L+ DA +RMELTV +G GY+PA + EN PIG I IDA++SPI+ Sbjct: 120 GPHVEVLNPEQHICTLEKDARLRMELTVKQGKGYLPADRNIEENQPIGTIPIDAIFSPIR 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSYTV AR Q+ DYDKL+M I +DGS+ +D++A +++IL+DQL +FINFEE + Sbjct: 180 KVSYTVTQARVAQITDYDKLTMEIWSDGSVKPDDALAYSAKILKDQLTIFINFEEEMETT 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E++ FN L + V+ELELSVRS NCL+ +I Y+G+L+Q+TEA+ML+ NFGRK Sbjct: 240 EEEV-RAEPVFNDHLFRSVDELELSVRSANCLKNADIRYIGELVQKTEAEMLKTKNFGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYE 337 SL EIK +L MGL LGM L ++P + IE K+ E Sbjct: 299 SLNEIKEILTEMGLSLGMKLENFPSRDDIENRRKEQE 335 >gi|39997923|ref|NP_953874.1| DNA-directed RNA polymerase subunit alpha [Geobacter sulfurreducens PCA] gi|61215992|sp|Q749B3|RPOA_GEOSL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|39984868|gb|AAR36224.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sulfurreducens PCA] gi|298506861|gb|ADI85584.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sulfurreducens KN400] Length = 340 Score = 394 bits (1013), Expect = e-108, Method: Composition-based stats. Identities = 169/340 (49%), Positives = 231/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LI P ++ AEP RGF TLGN+LRRVL+SSL+GA IT Sbjct: 1 MYRNWRDLISPKKLQVES-ETLTNKYGKFYAEPFERGFGTTLGNSLRRVLLSSLQGAGIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GVLHE SSI GV ED+T+IILN+KG++LKM G K V I +G G++TAGDI T Sbjct: 60 SVRIKGVLHEFSSIPGVTEDVTNIILNLKGVSLKMYGTEPKTVRIIHKGDGIITAGDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +E+LNP+H I DA + ME+ V G GYVPA +R E P+G I IDAL+SPI+ Sbjct: 120 DPQVEILNPEHHIATCSKDANLEMEMVVKVGKGYVPADRNRDEKAPVGTIPIDALFSPIR 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + T+GS+ ED+VA A++IL++QL +FINF+E + Sbjct: 180 KVNFTVSNARVGQMTDYDKLTLEVWTNGSVIPEDAVAFAAKILKEQLSIFINFDEEAEPS 239 Query: 242 -KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + ++ P N L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ NFGR Sbjct: 240 GEAEVGEGESPINENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L +P PE + L + +D+ Sbjct: 300 KSLNEIKDILAEMGLTLGMKLEGFPDPEVMRRLRGERKDE 339 >gi|117924180|ref|YP_864797.1| DNA-directed RNA polymerase subunit alpha [Magnetococcus sp. MC-1] gi|158512333|sp|A0L5Z8|RPOA_MAGSM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|117607936|gb|ABK43391.1| DNA-directed RNA polymerase subunit alpha [Magnetococcus sp. MC-1] Length = 340 Score = 393 bits (1009), Expect = e-107, Method: Composition-based stats. Identities = 177/339 (52%), Positives = 241/339 (71%), Gaps = 2/339 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELIKP+ IE E + + ++AEPL RGF TLGNALRRVL+SSL+GAA++ Sbjct: 1 MYRNWTELIKPHTIELGGDETEIQRKATLVAEPLERGFGTTLGNALRRVLLSSLQGAAVS 60 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE SS+ GV ED+TDIILNIKG+ L+M K + + G VTAG I+ Sbjct: 61 TVRIEGVLHEFSSVPGVIEDVTDIILNIKGLALRMESTGIKNIYLRVDKEGPVTAGMIEC 120 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-HHRTENDPIGLITIDALYSPI 180 IE+LNPDH I L+ + + +TV+ G GYV A+ + E+ IG I IDA Y+P+ Sbjct: 121 ETGIEILNPDHHIATLNKSGTLDITMTVTTGKGYVRAQLNREDESYAIGDIPIDASYNPV 180 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE+AR GQ DYDKL M I+T+G +T ED++ALA++ILQDQL FINF++ Sbjct: 181 KKVAYRVENARVGQQTDYDKLIMDIETNGVVTPEDALALAAKILQDQLNPFINFDDV-PT 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + +NP L +KV+ELELSVRS NCL+ ++IVY+GDL+Q++E++ML+ NFGR Sbjct: 240 AHDHEMEDRPQWNPNLFRKVDELELSVRSANCLKNDDIVYIGDLVQKSESEMLKTPNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL MGL LGM L WPPE+I++L+K++E++ Sbjct: 300 KSLNEIKEVLDEMGLSLGMTLDTWPPENIDDLSKQFEEE 338 >gi|262277117|ref|ZP_06054910.1| DNA-directed RNA polymerase, alpha subunit [alpha proteobacterium HIMB114] gi|262224220|gb|EEY74679.1| DNA-directed RNA polymerase, alpha subunit [alpha proteobacterium HIMB114] Length = 338 Score = 391 bits (1004), Expect = e-107, Method: Composition-based stats. Identities = 185/339 (54%), Positives = 258/339 (76%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI+KNW+EL+KP+ ++ ++++ + EPL +GFA TLGNALRR+L+SS++G A+ Sbjct: 1 MIEKNWKELVKPSKLDVQT--NDDKSYAKITIEPLEKGFALTLGNALRRILLSSIQGTAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGV+HE SSI GV ED+TDI+LNIK ++LK+ K++ + +GPG + A D++ Sbjct: 59 TAIQIDGVVHEFSSINGVREDVTDIVLNIKALSLKLKNPGPKKLVLDAQGPGEIKAKDLK 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIE+LNP+ VICNLD + + MELTV+ G GYV A+ +R ++ P+GLI +D++YSP+ Sbjct: 119 ESADIEILNPEQVICNLDDNTKIYMELTVNTGKGYVSAEKNREKDSPLGLIPVDSVYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY V REG +DYDKL+M ++T+GS+ ED VA A+RILQDQLGMFINFEEPK+ Sbjct: 179 KRVSYNVSETREGLSIDYDKLTMEVETNGSVEAEDCVAYAARILQDQLGMFINFEEPKEA 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + FN LL++V+ELELSVRS NCL+ +NI+Y+GDL+Q+TE +MLR NFGR Sbjct: 239 VAQ-QTKSEPEFNKNLLRRVDELELSVRSMNCLKNDNIIYIGDLVQKTEGEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL M L+LG+ +P+WPPE+I EL+KK E++ Sbjct: 298 KSLNEIKEVLSGMSLYLGIEIPNWPPENIAELSKKLEEE 336 >gi|77918342|ref|YP_356157.1| DNA-directed RNA polymerase subunit alpha [Pelobacter carbinolicus DSM 2380] gi|90110854|sp|Q3A6M0|RPOA_PELCD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|77544425|gb|ABA87987.1| DNA-directed RNA polymerase subunit alpha [Pelobacter carbinolicus DSM 2380] Length = 338 Score = 391 bits (1004), Expect = e-106, Method: Composition-based stats. Identities = 173/338 (51%), Positives = 240/338 (71%), Gaps = 2/338 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW+ELIKP ++ + +AEP RGF TLGN+LRRVL+SSL+GAAIT Sbjct: 1 MYKNWRELIKPKRLQVDA-DSLSDTYGKFMAEPFERGFGTTLGNSLRRVLLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GVLHE S+I GV ED+TDIILN+KG+ LK+ G + + I K+G GV+TA DI T Sbjct: 60 SVRIKGVLHEFSNIPGVTEDVTDIILNLKGVLLKLHGSDSRNIRIVKKGAGVITAADIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + ++VLNPDH I DA + +++ V+ G GYVPA+ +R + P+G I ID+L+SP+K Sbjct: 120 DSHVDVLNPDHHILTCGKDADIELDMVVAMGKGYVPAERNRDDKAPVGTIPIDSLFSPVK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL + + TDGS+ +D VA A++IL++QL +FINF+E + V Sbjct: 180 KVNFTVTNARVGQITDYDKLILEVLTDGSVRPDDGVAYAAKILKEQLQIFINFDEETETV 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + +S N L + VEELELSVRS NCL+ NI +GDL+QR+EA+ML+ NFGRK Sbjct: 240 VEEESEESRKINENLYRSVEELELSVRSANCLKNANIHLIGDLVQRSEAEMLKTQNFGRK 299 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYED 338 SL EIK +L MGL LGM L ++P PE ++ + + ED Sbjct: 300 SLNEIKDILAEMGLSLGMMLENFPDPEYLKMIQEGKED 337 >gi|330814176|ref|YP_004358415.1| DNA-directed RNA polymerase alpha subunit [Candidatus Pelagibacter sp. IMCC9063] gi|327487271|gb|AEA81676.1| DNA-directed RNA polymerase alpha subunit [Candidatus Pelagibacter sp. IMCC9063] Length = 338 Score = 390 bits (1003), Expect = e-106, Method: Composition-based stats. Identities = 189/339 (55%), Positives = 255/339 (75%), Gaps = 3/339 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI KNW+ELIKP+ I+ E++ ++ EPL RGFA TLGNALRRVL+SS++G A+ Sbjct: 1 MIDKNWKELIKPSKIDIQA--SEDKKFAKIVVEPLERGFALTLGNALRRVLLSSIQGTAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SSI GV ED+TDI+LNIK ++LK++ + K++ + +GPG +TA I Sbjct: 59 TAIQIDGVLHEFSSINGVREDVTDIVLNIKSLSLKLNTNGPKKLILDAKGPGEITAKMIN 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DIE+LNPD VICNLD ++ V ME V+ G GYV A +R ++ P+GLI ID++YSP+ Sbjct: 119 PNPDIEILNPDQVICNLDENSKVYMEFVVNTGKGYVSADKNREKDSPLGLIPIDSVYSPV 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY V + REG +DYDKL+M I+T+GS+ +D +A A+RILQDQL +F+NF+EPK E Sbjct: 179 KRVSYNVSNTREGLSIDYDKLTMEIETNGSVASDDCLAFAARILQDQLSLFVNFDEPK-E 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V FN LL++V+ELELSVRS NCL+ +NI+Y+GDL+Q+TE +MLR NFGR Sbjct: 238 VVVQPTQSEPEFNKNLLRRVDELELSVRSMNCLKNDNIIYIGDLVQKTEGEMLRTPNFGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK V+ M L+LG+ +P+WPPE+I EL+KK ED+ Sbjct: 298 KSLNEIKEVISGMSLYLGIEIPNWPPENISELSKKLEDE 336 >gi|162456219|ref|YP_001618586.1| DNA-directed RNA polymerase, alpha subunit [Sorangium cellulosum 'So ce 56'] gi|229564257|sp|A9FGB8|RPOA_SORC5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|161166801|emb|CAN98106.1| DNA-directed RNA polymerase, alpha subunit [Sorangium cellulosum 'So ce 56'] Length = 346 Score = 389 bits (999), Expect = e-106, Method: Composition-based stats. Identities = 164/325 (50%), Positives = 224/325 (68%), Gaps = 1/325 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI +NW++LI+P I + EPL RGF T+GN+LRRVL+SSL+GAA Sbjct: 10 MIARNWRDLIRPKGISIDA-ESGTQFYAKFTCEPLERGFGITIGNSLRRVLLSSLQGAAA 68 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA++I+G LHE +++ V ED++DIILN+K + K + V I + GPG V A DIQ Sbjct: 69 TAIRIEGALHEFTTVPDVVEDVSDIILNVKEVVFKAATPKTYSVRIDREGPGPVYARDIQ 128 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 V + VLNPDH+I LD + MELTV+ G GYVPA+ ++T PIG I IDAL+SPI Sbjct: 129 LVEGLSVLNPDHLIAVLDKKGPLSMELTVNVGRGYVPAERNKTPTMPIGTIPIDALFSPI 188 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+YTV++AR GQV DYDKL++ + T+GS++ D+VA A++IL++QL +++NFEE ++ Sbjct: 189 RKVNYTVQNARVGQVTDYDKLTLEVWTNGSVSPADAVAFAAKILKEQLSIWVNFEESEET 248 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + P N L + VEELELSVRS NCL+ NI +G+L+QRTE DML+ NFGR Sbjct: 249 SYQAVMSDDEPLNENLFRSVEELELSVRSANCLQNANITLIGELVQRTEQDMLKTKNFGR 308 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK +L MGL LGM + +WP Sbjct: 309 KSLKEIKEILANMGLSLGMKIDNWP 333 >gi|95930496|ref|ZP_01313232.1| DNA-directed RNA polymerase, alpha subunit [Desulfuromonas acetoxidans DSM 684] gi|95133536|gb|EAT15199.1| DNA-directed RNA polymerase, alpha subunit [Desulfuromonas acetoxidans DSM 684] Length = 338 Score = 388 bits (996), Expect = e-106, Method: Composition-based stats. Identities = 165/338 (48%), Positives = 233/338 (68%), Gaps = 2/338 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW++LIKP ++ N AEP RGF T+GN+LRR+L+SSL+GAAIT Sbjct: 1 MYKNWRDLIKPKRLQVDS-RSLTANYGKFFAEPFERGFGTTIGNSLRRILLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GVLHE S++ GV ED+TDIILN+K + L++ G + + I K+G GV+TAGDI T Sbjct: 60 SVRIKGVLHEFSTVPGVTEDVTDIILNLKSVLLRLEGQESRNIRIVKKGAGVITAGDIVT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++E+LNPD I +A V +++ VS G GYV A+ +R + P+G I ID+++SPIK Sbjct: 120 DSNVEILNPDLYIATCTKEADVEIDMVVSMGKGYVTAERNRDDKAPVGTIPIDSIFSPIK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV+Y V +AR GQ+ DYDKL++ + TD S+ ED+VA +++IL++ L MFINF+E + Sbjct: 180 KVNYAVTNARVGQITDYDKLTLEVWTDASVKPEDAVAYSAKILKEHLQMFINFDEEQIPE 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E + N L + VEELELSVRS NCL+ I +GDL+Q+TEA+ML+ NFGRK Sbjct: 240 EEPEEEEVQKINENLYRSVEELELSVRSANCLKNARISLIGDLVQKTEAEMLKTQNFGRK 299 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYED 338 SL EIK +L MGL LGM L ++P PE ++ L K E+ Sbjct: 300 SLNEIKDILAEMGLTLGMKLENFPDPEYLKVLQKSREE 337 >gi|222056679|ref|YP_002539041.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sp. FRC-32] gi|221565968|gb|ACM21940.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sp. FRC-32] Length = 340 Score = 385 bits (988), Expect = e-105, Method: Composition-based stats. Identities = 169/340 (49%), Positives = 231/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW++LIKP ++ AEP RGF TLGN+LRRVL+SSL+GAAIT Sbjct: 1 MYKNWRDLIKPKKLQVET-ESLTNTYGKFYAEPFERGFGTTLGNSLRRVLLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ GVLHE S+I GV ED TDIILN+KG+ KM G + V I ++G G+V AGDI T Sbjct: 60 SVKAKGVLHEFSAIPGVTEDATDIILNLKGVRFKMHGHEPRVVRIAQKGEGIVRAGDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +IEVLNP+H I DA + ME+ V G GYVPA +R E P+G I ID+++SP+ Sbjct: 120 DPNIEVLNPNHHIATCSKDANLEMEMVVKLGKGYVPADRNRDEKAPVGTIPIDSIFSPLT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + V Sbjct: 180 KVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLTIFINFDEEVEPV 239 Query: 242 KEDINVKSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E ++ N L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NFGR Sbjct: 240 EEAEPMEERERLNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L ++P PE + L + +++ Sbjct: 300 KSLNEIKDILVDMGLTLGMKLDNFPDPEIMRRLRGEQKEE 339 >gi|328953130|ref|YP_004370464.1| DNA-directed RNA polymerase subunit alpha [Desulfobacca acetoxidans DSM 11109] gi|328453454|gb|AEB09283.1| DNA-directed RNA polymerase subunit alpha [Desulfobacca acetoxidans DSM 11109] Length = 336 Score = 385 bits (988), Expect = e-105, Method: Composition-based stats. Identities = 162/325 (49%), Positives = 217/325 (66%), Gaps = 1/325 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW +LI+P +E I EPL RGF TLGNALRRVL+SSLRG AIT Sbjct: 1 MHKNWTDLIRPKKLE-IDPDTHNRFYGKFTCEPLERGFGATLGNALRRVLLSSLRGTAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I G+ HE S I GV ED+T++ILN+K + KM K + + R G VTAG +T Sbjct: 60 SVKIKGIHHEFSPIPGVIEDVTEVILNLKAVRFKMHSQEEKVIYLEAREEGEVTAGAFKT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 IE+LNPD I L D + +E TV G GY PA+ ++ E IG I +DA++SPI+ Sbjct: 120 DGTIEILNPDSHIATLARDGELFIEATVKSGKGYRPAEENKQEGQSIGTIPVDAIFSPIR 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++ V AR GQ DYDKL++ + TDGS++ ED+VALA++IL++QL +FINFEEP +E Sbjct: 180 KVNHIVTQARVGQQTDYDKLTLEVWTDGSVSPEDAVALAAKILKEQLTIFINFEEPCEET 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E + N L + V ELELSVRS NCL+ NI ++G+L+Q++EA+ML+ NFGRK Sbjct: 240 EEKPATEISRLNENLFRPVNELELSVRSANCLKNANIRFIGELVQKSEAEMLKTKNFGRK 299 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 SL EIK +L MGL LGM L ++PP Sbjct: 300 SLNEIKEILSEMGLNLGMKLENFPP 324 >gi|262197162|ref|YP_003268371.1| DNA-directed RNA polymerase, subunit alpha [Haliangium ochraceum DSM 14365] gi|262080509|gb|ACY16478.1| DNA-directed RNA polymerase, alpha subunit [Haliangium ochraceum DSM 14365] Length = 344 Score = 384 bits (987), Expect = e-105, Method: Composition-based stats. Identities = 164/328 (50%), Positives = 226/328 (68%), Gaps = 4/328 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW++LI+P +E Q+ +N EPL RGF TLGN+LRRVL+SSL+GAA Sbjct: 17 FMAKNWRDLIRPRMLE---TEQKTDNYGKFSCEPLERGFGTTLGNSLRRVLLSSLQGAAF 73 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T V+I+ LHE SS+ GV ED+TDIILN+K LK+ D V + K G G TAGDI Sbjct: 74 THVKIEHALHEFSSLPGVVEDVTDIILNLKETMLKVEEDRVYTVRLEKEGEGPFTAGDIS 133 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV + +LNPDHVI +L D + MEL + G GYV A+ H T + +G + IDALYSPI Sbjct: 134 TVTGVNILNPDHVIGHLARDGKISMELIIGTGRGYVSAERHTT-SPGVGYVPIDALYSPI 192 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +K ++TV +AR GQ DYDKL++ + T+G +T +D+VA A++IL++QL +FINFEE + Sbjct: 193 RKANFTVTNARVGQQTDYDKLTLEVWTNGGVTPDDAVAFAAKILKEQLNIFINFEEQAEP 252 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V++ ++ + N L + V+ELELSVRS NCL+ NI Y+G+L+Q++E++ML+ NFGR Sbjct: 253 VEQHVDEEQEKLNENLWRTVDELELSVRSANCLQNANIKYIGELVQKSESEMLKTKNFGR 312 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPES 328 KSL EIK +L MGL LGM L +WP + Sbjct: 313 KSLKEIKEILAEMGLSLGMKLDNWPGTN 340 >gi|78221873|ref|YP_383620.1| DNA-directed RNA polymerase subunit alpha [Geobacter metallireducens GS-15] gi|119366684|sp|Q39XX9|RPOA_GEOMG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78193128|gb|ABB30895.1| DNA-directed RNA polymerase subunit alpha [Geobacter metallireducens GS-15] Length = 340 Score = 384 bits (986), Expect = e-104, Method: Composition-based stats. Identities = 165/340 (48%), Positives = 232/340 (68%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LI P ++ AEP RGF TLGN+LRRVL+SSL+GAAI+ Sbjct: 1 MYRNWRDLISPKKLQVES-ESLTNTYGKFFAEPFERGFGTTLGNSLRRVLLSSLQGAAIS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GVLHE SSI GV ED+T+IILN+KG++LKM G+ + V I +G G+V AGDI T Sbjct: 60 SVKIKGVLHEFSSIPGVTEDVTNIILNLKGVSLKMHGNEARTVRIIHKGDGIVKAGDIVT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++E+LNPDH I DA + ME+ V G GYVP+ +R E P+G + IDA++SPIK Sbjct: 120 DANVEILNPDHHIATCSKDANLEMEMVVKLGKGYVPSDRNRDEKAPVGTMPIDAIFSPIK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + T+GS+ ED+VA A++IL++QL +FINF+E + Sbjct: 180 KVNFTVSNARVGQMTDYDKLTLEVWTNGSVVPEDAVAFAAKILKEQLSIFINFDEEAEPA 239 Query: 242 KEDINVKSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + N L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NFGR Sbjct: 240 EEAETEEERERVNENLYRSVDELELSVRSANCLKNAGIKMIGELVSRSEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L +P PE + + + +D+ Sbjct: 300 KSLNEIKDILADMGLTLGMKLDGFPDPEVMRRIRGERKDE 339 >gi|148263165|ref|YP_001229871.1| DNA-directed RNA polymerase subunit alpha [Geobacter uraniireducens Rf4] gi|146396665|gb|ABQ25298.1| DNA-directed RNA polymerase subunit alpha [Geobacter uraniireducens Rf4] Length = 340 Score = 383 bits (984), Expect = e-104, Method: Composition-based stats. Identities = 167/340 (49%), Positives = 228/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LIKP ++ AEP RGF TLGN+LRRVL+SSL+GAAIT Sbjct: 1 MYRNWRDLIKPKKLQVET-ESLTNTYGKFYAEPFERGFGTTLGNSLRRVLLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ GVLHE S+I GV ED TDIILN+KG+ KM G + V I ++G G+V AGDI T Sbjct: 60 SVKAKGVLHEFSAIPGVTEDATDIILNLKGVRFKMHGHESRVVRIVQKGEGLVKAGDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++EVLNP+H I DA + ME+ V G GYVPA +R E P+G I ID+++SP+ Sbjct: 120 DPNVEVLNPNHHIATCSKDANLEMEMVVKMGKGYVPADRNRDEKAPVGTIPIDSIFSPLT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKE 240 KV++TV +AR GQ+ DYDKL + I TDGS+ +D++A AS+IL+DQL +FINF+ E + Sbjct: 180 KVNFTVSNARVGQITDYDKLIIEIWTDGSVKPQDALAYASKILKDQLTIFINFDEEVEPV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + FN L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ NFGR Sbjct: 240 EEVEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L ++P PE + L + ++ Sbjct: 300 KSLNEIKDILVDMGLTLGMRLDNFPDPEIMRRLRGEQNEE 339 >gi|189424437|ref|YP_001951614.1| DNA-directed RNA polymerase subunit alpha [Geobacter lovleyi SZ] gi|189420696|gb|ACD95094.1| DNA-directed RNA polymerase, alpha subunit [Geobacter lovleyi SZ] Length = 340 Score = 382 bits (982), Expect = e-104, Method: Composition-based stats. Identities = 156/340 (45%), Positives = 226/340 (66%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW++LIKP ++ +AEP RGF TLGN+LRRVL+SSL+GAAIT Sbjct: 1 MYKNWRDLIKPKQLQIEK-ETLTTTYGKFVAEPFERGFGTTLGNSLRRVLLSSLQGAAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GV HE SSI GV ED+TDIILN+K + L+ G + I +G G++ A DI Sbjct: 60 SVRIKGVQHEFSSIPGVTEDVTDIILNLKSVRLRFHGADQATIRIIHKGDGIIKAADIMV 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++E++NP+ I DAV+ ME+TV G GYV A +R E P+G I IDA++SPI Sbjct: 120 PHNVEIMNPEMHIATCGKDAVLEMEMTVKIGKGYVSADRNRDEKAPVGTIPIDAIFSPII 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++ V +AR GQ+ DYDKL++ + TDGS+ +D++A A++I+++Q+ +FINF+E + + Sbjct: 180 KVNFVVSNARVGQMTDYDKLTLEVWTDGSVKPDDAIAYAAKIVKEQMSIFINFDEESEPL 239 Query: 242 -KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++ N L + VEELELSVRS NCL+ I +G+L+ +TEA+ML+ NFGR Sbjct: 240 FQDEAAEDDSKINENLYRTVEELELSVRSANCLKNAGIKLIGELVSKTEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL GM L +P PE ++ L + +D+ Sbjct: 300 KSLNEIKDILNEMGLTFGMKLDSFPDPEVVKRLRGEQKDE 339 >gi|254449927|ref|ZP_05063364.1| DNA-directed RNA polymerase, alpha subunit [Octadecabacter antarcticus 238] gi|198264333|gb|EDY88603.1| DNA-directed RNA polymerase, alpha subunit [Octadecabacter antarcticus 238] Length = 322 Score = 382 bits (980), Expect = e-104, Method: Composition-based stats. Identities = 197/320 (61%), Positives = 252/320 (78%), Gaps = 1/320 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 G + + ++AEPL RGF TLGNALRR+LMSSL+GAAITAVQID VLHE SSI GV Sbjct: 2 KPGNDPSRQATVVAEPLERGFGLTLGNALRRILMSSLQGAAITAVQIDNVLHEFSSISGV 61 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+TD++LN+KG+ ++M + KR+ + +GPGVVTAGDI IE+LN DHV+C+LD Sbjct: 62 REDVTDVVLNLKGVAIRMEVEGPKRLQVQAKGPGVVTAGDISESAGIEILNKDHVLCHLD 121 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A + MELTV+ G GYV A+ ++ E+ PIG++ IDA+YSP+KKVSY V+ REGQVLDY Sbjct: 122 EGAELYMELTVNTGKGYVAAEKNKPEDAPIGMMAIDAIYSPVKKVSYDVQPTREGQVLDY 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL+M ++TDGSIT +D+VA A+RILQDQL +F+NF+EP+ + + L FNP LLK Sbjct: 182 DKLTMKVETDGSITPDDAVAFAARILQDQLSIFVNFDEPESAQAANDD-DGLEFNPLLLK 240 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 KV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL MGL LG Sbjct: 241 KVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLSGMGLHLG 300 Query: 319 MNLPDWPPESIEELAKKYED 338 M++ DWPP++IE+LAKK+ED Sbjct: 301 MDVEDWPPDNIEDLAKKFED 320 >gi|197122366|ref|YP_002134317.1| DNA-directed RNA polymerase subunit alpha [Anaeromyxobacter sp. K] gi|220917148|ref|YP_002492452.1| DNA-directed RNA polymerase, alpha subunit [Anaeromyxobacter dehalogenans 2CP-1] gi|238689847|sp|B4UBC6|RPOA_ANASK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765241|sp|B8J887|RPOA_ANAD2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|196172215|gb|ACG73188.1| DNA-directed RNA polymerase, alpha subunit [Anaeromyxobacter sp. K] gi|219955002|gb|ACL65386.1| DNA-directed RNA polymerase, alpha subunit [Anaeromyxobacter dehalogenans 2CP-1] Length = 340 Score = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 161/327 (49%), Positives = 223/327 (68%), Gaps = 1/327 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAI Sbjct: 5 IVTKNWRDLIKPRGL-VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD+ Sbjct: 64 TSVKVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGDLI 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+SPI Sbjct: 124 TDAQVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKIPGSPIGTIPIDALFSPI 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E ++ Sbjct: 184 RKVNYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAEEP 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGR Sbjct: 244 AEEIKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK +L MGL LGM L +WPP+ Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENWPPK 330 >gi|86158342|ref|YP_465127.1| DNA-directed RNA polymerase subunit alpha [Anaeromyxobacter dehalogenans 2CP-C] gi|119366661|sp|Q2IJ57|RPOA_ANADE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|85774853|gb|ABC81690.1| DNA-directed RNA polymerase subunit alpha [Anaeromyxobacter dehalogenans 2CP-C] Length = 339 Score = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 161/327 (49%), Positives = 223/327 (68%), Gaps = 1/327 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ KNW++LIKP + + +AEPL RGF TLGN+LRRVL+SSL+GAAI Sbjct: 5 IVTKNWRDLIKPRGL-VVDQDSLSNTYGKFVAEPLERGFGITLGNSLRRVLLSSLQGAAI 63 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+++GV HE +I V ED+TDIILN+K + L++ + K + I GP + AGD+ Sbjct: 64 TSVKVEGVEHEFMTIPEVAEDVTDIILNLKEVLLQIHTNDVKTIRIEADGPKEIKAGDLI 123 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +EVLNP H I + VR E+T +G GYVPA+ ++ PIG I IDAL+SPI Sbjct: 124 TDAQVEVLNPGHHILTISEGGRVRAEMTARRGRGYVPAERNKVPGSPIGTIPIDALFSPI 183 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV+Y V +AR GQ DYDKL++ + TDGS+ D+VA A++I+++QL +FINF+E ++ Sbjct: 184 RKVNYQVTNARVGQQTDYDKLTLEVWTDGSVAPADAVAFAAKIVKEQLSIFINFDEAEEP 243 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E V+ N L + V+ELELSVRS NCL+ NI +GDL+Q+TEA+ML+ NFGR Sbjct: 244 AEEIKPVEEQKLNENLFRSVDELELSVRSANCLQNANIKTIGDLVQKTEAEMLKTKNFGR 303 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPE 327 KSL EIK +L MGL LGM L +WPP+ Sbjct: 304 KSLKEIKEILAEMGLSLGMKLENWPPK 330 >gi|71083781|ref|YP_266501.1| DNA-directed RNA polymerase subunit alpha [Candidatus Pelagibacter ubique HTCC1062] gi|91763183|ref|ZP_01265147.1| DNA-directed RNA polymerase alpha subunit [Candidatus Pelagibacter ubique HTCC1002] gi|90110855|sp|Q4FLP1|RPOA_PELUB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71062894|gb|AAZ21897.1| DNA-directed RNA polymerase [Candidatus Pelagibacter ubique HTCC1062] gi|91717596|gb|EAS84247.1| DNA-directed RNA polymerase alpha subunit [Candidatus Pelagibacter ubique HTCC1002] Length = 342 Score = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 186/336 (55%), Positives = 255/336 (75%), Gaps = 3/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW+ LIKP ++ + ++++ +IAEPL +G+ TLGN+LRR+L+SS+RGAA+T++ Sbjct: 9 KNWKALIKPAQLDVKI--SDDKSHAKIIAEPLEKGYGLTLGNSLRRILLSSIRGAAVTSI 66 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE +SIKGV ED+TDI+LN+K + LK S ++ K++ + +GPG + A DI V Sbjct: 67 QIDGVLHEFTSIKGVREDVTDIVLNVKSLALKSSSETTKKLILDAKGPGEIKASDIAPVA 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIE+LNPD VICNLD + ME+ V G GYVPA ++ E P+GLI ID+LYSP+KKV Sbjct: 127 DIEILNPDLVICNLDENTHFHMEMNVGTGKGYVPAVMNKPEEPPLGLIAIDSLYSPVKKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY++ +AREG+ LDYDKL M ++T+GSI+ ED+VA ++RI QDQL MF+NF+EP EV Sbjct: 187 SYSISTAREGKALDYDKLIMEVETNGSISAEDAVAYSARIFQDQLNMFVNFDEP-VEVPV 245 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 FN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGRKSL Sbjct: 246 KEVSSEPEFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EIK VL M L+LGM +P+WPPE+I E++KK E++ Sbjct: 306 NEIKEVLTGMSLYLGMEIPNWPPENIAEMSKKLEEQ 341 >gi|94968283|ref|YP_590331.1| DNA-directed RNA polymerase subunit alpha [Candidatus Koribacter versatilis Ellin345] gi|119366658|sp|Q1IS93|RPOA_ACIBL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|94550333|gb|ABF40257.1| DNA-directed RNA polymerase subunit alpha [Candidatus Koribacter versatilis Ellin345] Length = 368 Score = 380 bits (977), Expect = e-103, Method: Composition-based stats. Identities = 148/318 (46%), Positives = 212/318 (66%), Gaps = 2/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + + + A+P RGF T+GNALRRVL+SS+ GAAITAV+I Sbjct: 3 WKGFQKPKRLAFDS-ESLTDKYGHFWAQPFERGFGTTIGNALRRVLLSSIEGAAITAVKI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE SI GV ED TDIILN+K I +++GD+ K + + PG+VT+G I+T D+ Sbjct: 62 EGVLHEFQSIPGVVEDATDIILNLKQIPFRLNGDAPKAIYLRAEQPGIVTSGMIETDADV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+L+ D I + + ME+ + KG GYV A + E+ +G I ID+++SP++K +Y Sbjct: 122 EILDKDVYIATISEGGKLDMEMRLKKGRGYVSADKNFDEDLGLGFIPIDSVHSPVRKCNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +VE+AR GQ+ DYDKLS+ + T+GS+ D++ LA+++L+D + +FINFEE E Sbjct: 182 SVEAARLGQITDYDKLSIELWTNGSVNPADALGLAAKLLKDHMNIFINFEEE-IEASHAE 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + K N L + VEELELSVRS NCL+ NI +G+L+Q+TEA+ML+ NFGRKSL E Sbjct: 241 DRKPEIRNENLNRSVEELELSVRSYNCLKNANIQTIGELVQKTEAEMLKTKNFGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPD 323 IK +L +MGL LGM + + Sbjct: 301 IKEILASMGLSLGMKIDE 318 >gi|157804011|ref|YP_001492560.1| DNA-directed RNA polymerase subunit alpha [Rickettsia canadensis str. McKiel] gi|166229278|sp|A8EZJ2|RPOA_RICCK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157785274|gb|ABV73775.1| DNA-directed RNA polymerase subunit alpha [Rickettsia canadensis str. McKiel] Length = 340 Score = 380 bits (977), Expect = e-103, Method: Composition-based stats. Identities = 184/337 (54%), Positives = 250/337 (74%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + E N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENV-SETNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE S+I GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSAIPGVKEDVSEMILNIKGIEVKMYVAEKRIIKLKAIGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVICNL + + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICNLAKNKQLEMELTCKVGKGYVLSTNSYADNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L + L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKLNLRFGMDVPDWPPENIQELSKRYED 337 >gi|34581393|ref|ZP_00142873.1| DNA-directed RNA polymerase alpha chain [Rickettsia sibirica 246] gi|28262778|gb|EAA26282.1| DNA-directed RNA polymerase alpha chain [Rickettsia sibirica 246] Length = 340 Score = 380 bits (976), Expect = e-103, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 249/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENVPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMYVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|26987220|ref|NP_742645.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas putida KT2440] gi|104779780|ref|YP_606278.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas entomophila L48] gi|148545764|ref|YP_001265866.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas putida F1] gi|167031524|ref|YP_001666755.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas putida GB-1] gi|170723881|ref|YP_001751569.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas putida W619] gi|325272033|ref|ZP_08138476.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas sp. TJI-51] gi|37999653|sp|Q88QL1|RPOA_PSEPK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|123079274|sp|Q1IFU1|RPOA_PSEE4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172048432|sp|A5VXS2|RPOA_PSEP1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|24981859|gb|AAN66109.1|AE016239_4 DNA-directed RNA polymerase, alpha subunit [Pseudomonas putida KT2440] gi|95108767|emb|CAK13461.1| RNA polymerase, alpha subunit [Pseudomonas entomophila L48] gi|148509822|gb|ABQ76682.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas putida F1] gi|166858012|gb|ABY96419.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas putida GB-1] gi|169761884|gb|ACA75200.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas putida W619] gi|313496844|gb|ADR58210.1| RpoA [Pseudomonas putida BIRD-1] gi|324102837|gb|EGC00241.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas sp. TJI-51] Length = 333 Score = 380 bits (976), Expect = e-103, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +T+ D I +DA +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQTDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|157828836|ref|YP_001495078.1| DNA-directed RNA polymerase subunit alpha [Rickettsia rickettsii str. 'Sheila Smith'] gi|165933563|ref|YP_001650352.1| DNA-directed RNA polymerase subunit alpha [Rickettsia rickettsii str. Iowa] gi|166229279|sp|A8GT45|RPOA_RICRS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189043844|sp|B0BUN6|RPOA_RICRO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157801317|gb|ABV76570.1| DNA-directed RNA polymerase subunit alpha [Rickettsia rickettsii str. 'Sheila Smith'] gi|165908650|gb|ABY72946.1| DNA-directed RNA polymerase alpha chain [Rickettsia rickettsii str. Iowa] Length = 340 Score = 380 bits (975), Expect = e-103, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 250/337 (74%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + MELT G GYV + ++ +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMELTCKVGKGYVLSTNNYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G++ E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGAVLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+++EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENMQELSKRYED 337 >gi|37999710|sp|Q8L2F8|RPOA_PSEPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21039415|gb|AAM33636.1|AF506984_1 RpoA [Pseudomonas putida] Length = 333 Score = 379 bits (974), Expect = e-103, Method: Composition-based stats. Identities = 147/336 (43%), Positives = 224/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLVVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|254283060|ref|ZP_04958028.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium NOR51-B] gi|219679263|gb|EED35612.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium NOR51-B] Length = 334 Score = 379 bits (974), Expect = e-103, Method: Composition-based stats. Identities = 152/338 (44%), Positives = 216/338 (63%), Gaps = 9/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P I + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSSVNEFLTPR---VIKVDEKSTTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ L M+G +++ +GP VTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVQEDVIEILLNLKGVALTMAGKDEAELSLVAKGPCTVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+EV NPDHVIC L D + + L +G GY PA D I +DA +S Sbjct: 118 DHDVEVSNPDHVICTLTSDQELAVRLVAQRGRGYSPADSREDPEDETRSIGRLHLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI+++SY VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PIRRISYVVESARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLSVFVDLESEA 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 QTTATEQE---DEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLKNDERLL 332 >gi|77461276|ref|YP_350783.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas fluorescens Pf0-1] gi|330812051|ref|YP_004356513.1| DNA-directed RNA polymerase alpha chain [Pseudomonas brassicacearum subsp. brassicacearum NFM421] gi|90110861|sp|Q3K612|RPOA_PSEPF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|77385279|gb|ABA76792.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas fluorescens Pf0-1] gi|327380159|gb|AEA71509.1| DNA-directed RNA polymerase alpha chain [Pseudomonas brassicacearum subsp. brassicacearum NFM421] Length = 333 Score = 379 bits (973), Expect = e-103, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|229592878|ref|YP_002874997.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas fluorescens SBW25] gi|312963345|ref|ZP_07777828.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas fluorescens WH6] gi|229364744|emb|CAY52723.1| DNA-directed RNA polymerase alpha chain [Pseudomonas fluorescens SBW25] gi|311282425|gb|EFQ61023.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas fluorescens WH6] gi|330962500|gb|EGH62760.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. maculicola str. ES4326] Length = 333 Score = 379 bits (973), Expect = e-103, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + + M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|254455604|ref|ZP_05069033.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Pelagibacter sp. HTCC7211] gi|207082606|gb|EDZ60032.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Pelagibacter sp. HTCC7211] Length = 342 Score = 379 bits (973), Expect = e-103, Method: Composition-based stats. Identities = 180/335 (53%), Positives = 257/335 (76%), Gaps = 3/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KNW+ LIKP+ ++ + ++ +IAEPL +G+ TLGN+LRR+L+SS+RGAA+T++ Sbjct: 9 KNWKSLIKPSKLDVQI--SDDLTHAKIIAEPLEKGYGLTLGNSLRRILLSSIRGAAVTSI 66 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE +SIKGV ED+TDI+LN+K + LK + + K++ + +GPG + A DI V Sbjct: 67 QIDGVLHEFTSIKGVREDVTDIVLNVKSLALKSNSEGTKKLVLDAKGPGEIKASDIAPVA 126 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E+LNPD VICNLD + ME+ V+ G GYVPA ++ E P+GLI ID+LYSP+KKV Sbjct: 127 DVEILNPDLVICNLDENTNFHMEMNVNTGKGYVPADLNKPEEPPLGLIAIDSLYSPVKKV 186 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY++ +AREG+ LDYDKL+M ++T+G+I+ ED+VA ++RI QDQL MF+NF+EP + + Sbjct: 187 SYSISTAREGKALDYDKLTMEVETNGAISAEDAVAYSARIFQDQLKMFVNFDEPVEAPVK 246 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ FN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q++E +MLR NFGRKSL Sbjct: 247 EVST-EPEFNKNLLRKVDELELSVRSMNCLKNDNIIYIGDLVQKSEGEMLRTPNFGRKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL M L+LGM +P+WPP++I E++KK E+ Sbjct: 306 NEIKEVLTGMSLYLGMEIPNWPPDNIAEMSKKLEE 340 >gi|15892905|ref|NP_360619.1| DNA-directed RNA polymerase subunit alpha [Rickettsia conorii str. Malish 7] gi|20139543|sp|Q92GZ0|RPOA_RICCN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|15620096|gb|AAL03520.1| DNA-directed RNA polymerase alpha chain [Rickettsia conorii str. Malish 7] Length = 340 Score = 379 bits (973), Expect = e-103, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 248/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDTLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|70732859|ref|YP_262626.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas fluorescens Pf-5] gi|90110859|sp|Q4K557|RPOA_PSEF5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|68347158|gb|AAY94764.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas fluorescens Pf-5] Length = 333 Score = 378 bits (972), Expect = e-103, Method: Composition-based stats. Identities = 147/336 (43%), Positives = 224/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + + M+L V++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGALNMKLVVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|239948295|ref|ZP_04700048.1| DNA-directed RNA polymerase, alpha subunit [Rickettsia endosymbiont of Ixodes scapularis] gi|239922571|gb|EER22595.1| DNA-directed RNA polymerase, alpha subunit [Rickettsia endosymbiont of Ixodes scapularis] Length = 340 Score = 378 bits (972), Expect = e-103, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE S I GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSFIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVICN+ + + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICNIAKNKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLRLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|299138174|ref|ZP_07031354.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium sp. MP5ACTX8] gi|298600104|gb|EFI56262.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium sp. MP5ACTX8] Length = 359 Score = 378 bits (972), Expect = e-103, Method: Composition-based stats. Identities = 145/318 (45%), Positives = 206/318 (64%), Gaps = 1/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + A+P RGF T+GNALRR L+SS+ GAA+TAV+I Sbjct: 3 WRGFQKPKRLAVDQ-ETLTPTFGKFSAQPFERGFGTTIGNALRRTLLSSIEGAAVTAVKI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE SI GV ED TDIILN+K I K++GD K + + GVVT+G I+ +D+ Sbjct: 62 EGVLHEFQSIAGVVEDATDIILNLKQIPFKLNGDGPKTLYLRADAAGVVTSGSIEADSDV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+L+P IC + + ME+ + +G GYV A + + IG I +D+++SP++KV+Y Sbjct: 122 EILDPSVYICTISEGGRIDMEMRLKRGRGYVSADKNFDSDLGIGFIPVDSVHSPVRKVNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR GQ+ DYDKL++ I T+G+I D++ L++++L+D + +FINFEE + Sbjct: 182 LVEAARLGQITDYDKLTLEIWTNGTILPADALGLSAKLLKDHMTIFINFEEEMEAGASGD 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L N L + VEELELSVRS NCL+ NI +G+LIQ+TEA+ML+ NFGRKSL E Sbjct: 242 HDGPLLRNENLNRSVEELELSVRSYNCLKNANIATIGELIQKTEAEMLKTKNFGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPD 323 IK +L MGL LGM + + Sbjct: 302 IKEILAQMGLSLGMKIDE 319 >gi|28867879|ref|NP_790498.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato str. DC3000] gi|66047751|ref|YP_237592.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. syringae B728a] gi|71737175|ref|YP_276681.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. phaseolicola 1448A] gi|213969239|ref|ZP_03397377.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato T1] gi|237797457|ref|ZP_04585918.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. oryzae str. 1_6] gi|257483210|ref|ZP_05637251.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tabaci ATCC 11528] gi|289623824|ref|ZP_06456778.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aesculi str. NCPPB3681] gi|289648917|ref|ZP_06480260.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aesculi str. 2250] gi|289675513|ref|ZP_06496403.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. syringae FF5] gi|298489071|ref|ZP_07007093.1| DNA-directed RNA polymerase alpha subunit [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|301381746|ref|ZP_07230164.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato Max13] gi|302061054|ref|ZP_07252595.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato K40] gi|302130805|ref|ZP_07256795.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato NCPPB 1108] gi|302189302|ref|ZP_07265975.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. syringae 642] gi|37999595|sp|Q889U6|RPOA_PSESM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|75500423|sp|Q4ZMR8|RPOA_PSEU2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110858|sp|Q48D61|RPOA_PSE14 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|28851115|gb|AAO54193.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas syringae pv. tomato str. DC3000] gi|63258458|gb|AAY39554.1| DNA-directed RNA polymerase [Pseudomonas syringae pv. syringae B728a] gi|71557728|gb|AAZ36939.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas syringae pv. phaseolicola 1448A] gi|213925917|gb|EEB59474.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tomato T1] gi|298156383|gb|EFH97481.1| DNA-directed RNA polymerase alpha subunit [Pseudomonas savastanoi pv. savastanoi NCPPB 3335] gi|330869406|gb|EGH04115.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aesculi str. 0893_23] gi|330879417|gb|EGH13566.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. morsprunorum str. M302280PT] gi|330899711|gb|EGH31130.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. japonica str. M301072PT] gi|330940915|gb|EGH43866.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. pisi str. 1704B] gi|330953172|gb|EGH53432.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae Cit 7] gi|330966886|gb|EGH67146.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. actinidiae str. M302091] gi|330988257|gb|EGH86360.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. lachrymans str. M301315] gi|331012438|gb|EGH92494.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. tabaci ATCC 11528] gi|331020307|gb|EGI00364.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. oryzae str. 1_6] Length = 333 Score = 378 bits (972), Expect = e-103, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 226/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|15604481|ref|NP_220999.1| DNA-directed RNA polymerase subunit alpha [Rickettsia prowazekii str. Madrid E] gi|6226040|sp|Q9ZCS9|RPOA_RICPR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|3861175|emb|CAA15075.1| DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN (rpoA) [Rickettsia prowazekii] gi|292572263|gb|ADE30178.1| DNA-directed RNA polymerase alpha chain [Rickettsia prowazekii Rp22] Length = 340 Score = 378 bits (971), Expect = e-103, Method: Composition-based stats. Identities = 185/337 (54%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENFPE-TNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I T Sbjct: 63 SIKIPAIEHEFSSIPGVQEDVSEVILNIKGIEVKMHVSEKRIIKLKAMGPCVVTAGMIDT 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVICNL + + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICNLAKNKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFIAFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDSLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|320322297|gb|EFW78391.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. glycinea str. B076] gi|320331955|gb|EFW87891.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. glycinea str. race 4] Length = 333 Score = 378 bits (971), Expect = e-103, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 226/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|297717806|gb|ADI50046.1| DNA-directed RNA polymerase alpha subunit [Candidatus Odyssella thessalonicensis L13] Length = 338 Score = 378 bits (971), Expect = e-103, Method: Composition-based stats. Identities = 187/338 (55%), Positives = 247/338 (73%), Gaps = 2/338 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++Q NW+ LIKPN ++ G + +I EPL RG+ TLGNALRR+L+SSL+GAA Sbjct: 1 VLQNNWEALIKPNKLDV-RYGTPDLRHADIIVEPLERGYGLTLGNALRRILLSSLQGAAF 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+I+GVLHE S+I GV ED+TDIILN+K + ++ + KRV + G G V A I+ Sbjct: 60 TSVKIEGVLHEFSTIPGVMEDVTDIILNLKTVGVRSQVEGVKRVKLVASGKGPVYARQIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 IE+L+ D +IC+LD A + ME+TV G GY+PA E+ PIGLI IDA++SP+ Sbjct: 120 CPAGIEILDEDIIICHLDEGAKLSMEMTVESGKGYIPANSTSHEDKPIGLIPIDAIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VSY +E R GQ D+DKL M+I TDGS+ +D+VALA+RI+QDQL FINF+EPK Sbjct: 180 KRVSYKIEQTRVGQRTDFDKLIMSISTDGSLKPDDAVALAARIMQDQLYSFINFDEPK-T 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + LPFNP LL+KV+ELELSVRS NCL+ ENI+Y+GDL+Q++E +MLR NFGR Sbjct: 239 IDKKESKIELPFNPNLLRKVDELELSVRSANCLKNENIIYIGDLVQKSEHEMLRTPNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EI+ VL TMGL LGM +P+WPPE+IEEL KK ED Sbjct: 299 KSLNEIREVLETMGLTLGMIIPNWPPENIEELTKKLED 336 >gi|120553677|ref|YP_958028.1| DNA-directed RNA polymerase subunit alpha [Marinobacter aquaeolei VT8] gi|158513044|sp|A1TYM2|RPOA_MARAV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120323526|gb|ABM17841.1| DNA-directed RNA polymerase subunit alpha [Marinobacter aquaeolei VT8] Length = 334 Score = 378 bits (971), Expect = e-103, Method: Composition-based stats. Identities = 155/331 (46%), Positives = 225/331 (67%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P I+ + R + EPL RGF HTLG+ALRR+L+SS+ G A+T Sbjct: 1 MQRSVHELLTPRTIDVK---ESSATRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+KG+ +KM+G +T+ K+GPGVVTAGDI+ Sbjct: 58 EAQIDGVLHEYSAIEGVQEDVIEILLNLKGVAVKMNGRDDAELTLSKKGPGVVTAGDIKL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NP+HVIC+L + V M L V++G GY PA + D I +DA +S Sbjct: 118 DHDVEIANPEHVICHLSENGEVNMRLRVARGRGYEPADQRGLDEDETRAIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++F+ K Sbjct: 178 PVRRVAYAVESARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPERVEEEEEIDP---ILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >gi|157964782|ref|YP_001499606.1| DNA-directed RNA polymerase subunit alpha [Rickettsia massiliae MTU5] gi|166991522|sp|A8F2C3|RPOA_RICM5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157844558|gb|ABV85059.1| DNA-directed RNA polymerase alpha chain [Rickettsia massiliae MTU5] Length = 340 Score = 378 bits (970), Expect = e-103, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNALIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKVTGPCVVTAGMIDT 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + M LT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMALTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|51473815|ref|YP_067572.1| DNA-directed RNA polymerase subunit alpha [Rickettsia typhi str. Wilmington] gi|61215890|sp|Q68WA2|RPOA_RICTY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|51460127|gb|AAU04090.1| RNA nucleotidyltransferase (DNA-directed) [Rickettsia typhi str. Wilmington] Length = 340 Score = 378 bits (970), Expect = e-103, Method: Composition-based stats. Identities = 183/337 (54%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ +I EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVTYENFPE-TNNKAKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I T Sbjct: 63 SIKIPAIEHEFSSIPGVQEDVSEVILNIKGIEVKMHVSEKRIMKLKATGPCVVTAGMIDT 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNP+HVICNL + + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPNHVICNLAKNKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL + ++T+G + E +V LA+RILQ+QL +FI FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIIFVETNGDVLPEMAVGLAARILQEQLQLFIAFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + SLPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDSLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|238650948|ref|YP_002916804.1| DNA-directed RNA polymerase subunit alpha [Rickettsia peacockii str. Rustic] gi|259494172|sp|C4K2F5|RPOA_RICPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238625046|gb|ACR47752.1| DNA-directed RNA polymerase subunit alpha [Rickettsia peacockii str. Rustic] Length = 340 Score = 377 bits (969), Expect = e-102, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VV AG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVVKAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALPFAPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|192362391|ref|YP_001981233.1| DNA-directed RNA polymerase subunit alpha [Cellvibrio japonicus Ueda107] gi|238692458|sp|B3PK62|RPOA_CELJU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|190688556|gb|ACE86234.1| DNA-directed RNA polymerase, alpha subunit [Cellvibrio japonicus Ueda107] Length = 328 Score = 377 bits (969), Expect = e-102, Method: Composition-based stats. Identities = 155/333 (46%), Positives = 224/333 (67%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ + R ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQTAVNEFLTPRHIDVSEI---TPTRARVVLEPLERGFGHTLGNALRRILLSSMAGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ + M G +T+ K+GPGVVTAGDIQ Sbjct: 58 EAEIDGVLHEYSAIEGVREDVIEILLNLKGVAVVMHGKDSTVLTLSKKGPGVVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NPDHVI N+ + ++M LT+++G GY PA R ++D I +DA +S Sbjct: 118 DHDVEIKNPDHVIANITGNTELKMRLTIARGRGYQPADSRRRDDDESRAIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+++Y+VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E K Sbjct: 178 PVKRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLEGEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + E +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 QSAPEQKE---EAIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLKN 327 >gi|146308898|ref|YP_001189363.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas mendocina ymp] gi|330505182|ref|YP_004382051.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas mendocina NK-01] gi|172046039|sp|A4XZ65|RPOA_PSEMY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145577099|gb|ABP86631.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas mendocina ymp] gi|328919468|gb|AEB60299.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas mendocina NK-01] Length = 333 Score = 377 bits (969), Expect = e-102, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 224/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQEV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+GPGVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLAKKGPGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N DHVI NL + + M+LTV++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIVNGDHVIANLAANGSLNMKLTVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|229586985|ref|YP_002845486.1| DNA-directed RNA polymerase subunit alpha [Rickettsia africae ESF-5] gi|259494171|sp|C3PP83|RPOA_RICAE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|228022035|gb|ACP53743.1| DNA-directed RNA polymerase alpha chain [Rickettsia africae ESF-5] Length = 340 Score = 377 bits (968), Expect = e-102, Method: Composition-based stats. Identities = 182/337 (54%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVIC+L D + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICDLAKDKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDVLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +L F+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALLFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|157826039|ref|YP_001493759.1| DNA-directed RNA polymerase subunit alpha [Rickettsia akari str. Hartford] gi|166229276|sp|A8GPC6|RPOA_RICAH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157799997|gb|ABV75251.1| DNA-directed RNA polymerase subunit alpha [Rickettsia akari str. Hartford] Length = 340 Score = 377 bits (968), Expect = e-102, Method: Composition-based stats. Identities = 180/337 (53%), Positives = 246/337 (72%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNRVAYENFPEIN-NKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKG+ LKM + + + GP VVTAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGVELKMHVAEKRIMKLKATGPCVVTAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDH+ICNL + + M LT G GYV + + ++ PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHIICNLAKNKQLEMALTCKVGKGYVLSTNSYEDDLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGGLLPEMAVGLAARILQEQLQLFISFEEH--EE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDTLPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+K+YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSKRYED 337 >gi|330969796|gb|EGH69862.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. aceris str. M302273PT] Length = 333 Score = 377 bits (968), Expect = e-102, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 226/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLVSRGLSLGMRLDNWPPASLKKDDK 330 >gi|49087442|gb|AAT51459.1| PA4238 [synthetic construct] Length = 334 Score = 377 bits (967), Expect = e-102, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVV---SQTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLAKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F+ + K Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFV---DLK 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 GDSEPVVEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|330891907|gb|EGH24568.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. mori str. 301020] Length = 333 Score = 377 bits (967), Expect = e-102, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I GVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIGGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|2896137|gb|AAC03116.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa] Length = 358 Score = 377 bits (967), Expect = e-102, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 224/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVV---SQTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLAKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F+ + K Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFV---DLK 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 GDSEPVVEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+ E + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLTERRQ 330 >gi|226939212|ref|YP_002794283.1| DNA-directed RNA polymerase subunit alpha [Laribacter hongkongensis HLHK9] gi|254765253|sp|C1DAU3|RPOA_LARHH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|226714136|gb|ACO73274.1| RpoA [Laribacter hongkongensis HLHK9] Length = 327 Score = 377 bits (967), Expect = e-102, Method: Composition-based stats. Identities = 155/332 (46%), Positives = 217/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + + + EP RG+A+TLGNALRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPV---SATQARVAMEPFERGYAYTLGNALRRILLSSMPGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LN+KG+ K+ G +T+ K G G V A DI Sbjct: 58 EVSIAGVLHEYSALDGVREDVVDILLNLKGVVFKLHGRDSVLLTLKKEGEGAVRASDIDL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 179 +D+EV+NPDHVIC+L + ME+ V KG GY PA + +N IG I +DA +SP Sbjct: 118 PHDVEVVNPDHVICHLAAGGKIDMEIKVEKGRGYQPAPARVKQDDNRQIGTILLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VS++VESAR Q D D+L M I+T+G I E++V A+RIL DQL +F + + Sbjct: 178 LRRVSFSVESARVEQRTDLDRLVMDIETNGVIEPEEAVRSAARILIDQLSIFADLQGTTV 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 238 EV---VEERAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 326 >gi|15599434|ref|NP_252928.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas aeruginosa PAO1] gi|107103754|ref|ZP_01367672.1| hypothetical protein PaerPA_01004825 [Pseudomonas aeruginosa PACS2] gi|116054394|ref|YP_788881.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas aeruginosa UCBPP-PA14] gi|152984557|ref|YP_001346248.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas aeruginosa PA7] gi|218889433|ref|YP_002438297.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas aeruginosa LESB58] gi|254237102|ref|ZP_04930425.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa C3719] gi|254242909|ref|ZP_04936231.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa 2192] gi|296387205|ref|ZP_06876704.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas aeruginosa PAb1] gi|313111392|ref|ZP_07797197.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa 39016] gi|12230944|sp|O52760|RPOA_PSEAE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122261422|sp|Q02T55|RPOA_PSEAB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171460895|sp|A6UZL3|RPOA_PSEA7 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|9950455|gb|AAG07626.1|AE004841_4 DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa PAO1] gi|115589615|gb|ABJ15630.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa UCBPP-PA14] gi|126169033|gb|EAZ54544.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa C3719] gi|126196287|gb|EAZ60350.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa 2192] gi|150959715|gb|ABR81740.1| DNA-directed RNA polymerase, alpha subunit [Pseudomonas aeruginosa PA7] gi|218769656|emb|CAW25416.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa LESB58] gi|310883699|gb|EFQ42293.1| DNA-directed RNA polymerase alpha chain [Pseudomonas aeruginosa 39016] Length = 333 Score = 377 bits (967), Expect = e-102, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVV---SQTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLAKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N DHVI NL + + M+L V++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIINGDHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F+ + K Sbjct: 178 PVRRVSYVVENARVEQRTNLDKLVLDLETNGTLDPEEAIRRAATILQQQLAAFV---DLK 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 GDSEPVVEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|90020631|ref|YP_526458.1| DNA-directed RNA polymerase subunit alpha [Saccharophagus degradans 2-40] gi|119366723|sp|Q21M33|RPOA_SACD2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|89950231|gb|ABD80246.1| DNA-directed RNA polymerase, alpha subunit [Saccharophagus degradans 2-40] Length = 329 Score = 376 bits (965), Expect = e-102, Method: Composition-based stats. Identities = 153/333 (45%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ LG R ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRHIDVTELG---PTRAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV HE S+I+GV ED+ +I+LN+K + + M G +++ K+GPG VTAGDIQ Sbjct: 58 EVEIDGVQHEYSAIEGVQEDVIEILLNLKNVAVVMHGKDQAVLSLSKQGPGAVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +DIE+ NP+ VI N+ D + M LTVS+G GY P T+ D I +DA +S Sbjct: 118 DHDIEIKNPELVIANITSDTSLSMRLTVSRGRGYQPVDARATDEDETRAIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y+VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E K Sbjct: 178 PVRRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLEGEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 ---EAEPEQKEDQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDILASRGLSLGMRLENWPPASLKN 327 >gi|119478107|ref|ZP_01618186.1| DNA-directed RNA polymerase alpha subunit [marine gamma proteobacterium HTCC2143] gi|119448813|gb|EAW30056.1| DNA-directed RNA polymerase alpha subunit [marine gamma proteobacterium HTCC2143] Length = 334 Score = 376 bits (965), Expect = e-102, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 220/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I+ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRVIDVDEVSS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGVLHE S+I+GV ED+ +I+LN+KG+++ M G +T+ K G G VTAGDIQ Sbjct: 58 EVAIDGVLHEYSAIEGVQEDVIEILLNLKGVSILMHGKDEAVLTLSKSGAGPVTAGDIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +DIE+ NPDH+I L+ + M LT+ +G GYVPA +++++ I +DA +S Sbjct: 118 DHDIEISNPDHLIATLNEAGSLNMTLTIGRGRGYVPADARQSDDEETRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +V+Y VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F+ + + Sbjct: 178 PVHRVAYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLSVFV---DLE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 235 SEKEAEPEEEEDEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LG+ L +WPP S++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGLRLDNWPPASLKNDDK 330 >gi|220935467|ref|YP_002514366.1| DNA-directed RNA polymerase subunit alpha [Thioalkalivibrio sp. HL-EbGR7] gi|254765261|sp|B8GV33|RPOA_THISH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|219996777|gb|ACL73379.1| DNA-directed RNA polymerase subunit alpha [Thioalkalivibrio sp. HL-EbGR7] Length = 334 Score = 376 bits (965), Expect = e-102, Method: Composition-based stats. Identities = 153/337 (45%), Positives = 227/337 (67%), Gaps = 9/337 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q EL+KP +IE + + + ++ EPL RGF HTLGNALRR+L+SS+ GAA+ Sbjct: 1 MQTKVNELLKPRHIEVTSV---SDRQAKVVLEPLERGFGHTLGNALRRILLSSIPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GVLHE +SI+GV ED+ DI+LN+KGI L+M +T+ K+GPGVVTAGDI Sbjct: 58 EAEIEGVLHEYTSIEGVQEDVVDILLNLKGIALRMHNRDEATLTLKKKGPGVVTAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E++NP+HVI +L + + M L + +G GY P + +E+ PIG + +DA +S Sbjct: 118 DHDVEIVNPEHVIAHLTKNGELSMSLKLGRGRGYQPVTARRSSESEDRPIGRLMLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++V+Y VESAR Q D D+L + ++T+G++ +D++ A+ ILQ QL F+ E + Sbjct: 178 PIRRVAYKVESARVEQRTDMDRLVIELETNGTVEADDAIRQAAGILQSQLAAFV---ELQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + K + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 GDESTVTESKQMEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 G+KSL EIK VL + GL +GM L +WPP +++ KK Sbjct: 295 GKKSLTEIKDVLASHGLSMGMRLENWPPPGLKDQDKK 331 >gi|114561361|ref|YP_748874.1| DNA-directed RNA polymerase subunit alpha [Shewanella frigidimarina NCIMB 400] gi|119366726|sp|Q089M9|RPOA_SHEFN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114332654|gb|ABI70036.1| DNA-directed RNA polymerase, alpha subunit [Shewanella frigidimarina NCIMB 400] Length = 329 Score = 375 bits (964), Expect = e-102, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEALLTLSKSGTGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIVNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|330430070|gb|AEC21404.1| DNA-directed RNA polymerase alpha chain [Pusillimonas sp. T7-7] Length = 329 Score = 375 bits (964), Expect = e-102, Method: Composition-based stats. Identities = 148/328 (45%), Positives = 211/328 (64%), Gaps = 6/328 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G +N ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVG---KNHARVVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ DI+LN+KG+ K+ + + K+G GVV A DI+ +D+E Sbjct: 61 GVVHEYSTVAGVREDVVDILLNLKGVVFKLHNREEVTLVLRKQGAGVVLASDIELPHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKV 183 ++NPDHVI NL + M++ V +G GYVP +D I +DA YSP+++V Sbjct: 121 IINPDHVIANLTDAGKLEMQIKVEQGRGYVPGNVRALSDDRTHTIGRIVLDASYSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G ++ E++V ++RIL DQ+ +F E ++ Sbjct: 181 SYAVESARVEQRTDLDKLVLDIETNGVVSPEEAVRQSARILMDQISVFAALEGAGDSYED 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 241 APSRAAQQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +E Sbjct: 301 NEIKEVLAARGLTLGMKLENWPPLGLER 328 >gi|67458694|ref|YP_246318.1| DNA-directed RNA polymerase subunit alpha [Rickettsia felis URRWXCal2] gi|75536844|sp|Q4UMQ5|RPOA_RICFE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|67004227|gb|AAY61153.1| DNA-directed RNA polymerase alpha chain [Rickettsia felis URRWXCal2] Length = 340 Score = 375 bits (964), Expect = e-102, Method: Composition-based stats. Identities = 181/337 (53%), Positives = 247/337 (73%), Gaps = 3/337 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIKPN + Y + N+ ++ EPL RGF TLGNA+RRVL+SSL+GAAIT Sbjct: 4 LSKNWNTLIKPNKVAYENFPE-TNNKAKIVVEPLERGFGLTLGNAMRRVLLSSLQGAAIT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I + HE SSI GV ED++++ILNIKGI +KM + + + GP V+TAG I+T Sbjct: 63 SIKIPAIEHEFSSIPGVKEDVSEVILNIKGIEVKMHVAEKRIMKLKATGPCVITAGMIET 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E+LNPDHVICNL + + MELT G GYV + + +N PIG I IDAL++P+K Sbjct: 123 GHDVEILNPDHVICNLAKNKQLEMELTCKVGKGYVLSTNSYEDNLPIGEIAIDALFNPVK 182 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y VE+ R GQV DYDKL M ++T+G + E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 SVTYKVENTRVGQVTDYDKLIMFVETNGDLLPEMAVGLAARILQEQLQLFISFEE--QEE 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTE+DMLR NFGRK Sbjct: 241 DKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTESDMLRTPNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EIK +L L GM++PDWPPE+I+EL+ +YED Sbjct: 301 SLNEIKEILAKFNLRFGMDVPDWPPENIQELSNRYED 337 >gi|167626015|ref|YP_001676309.1| DNA-directed RNA polymerase subunit alpha [Shewanella halifaxensis HAW-EB4] gi|167356037|gb|ABZ78650.1| DNA-directed RNA polymerase, alpha subunit [Shewanella halifaxensis HAW-EB4] Length = 329 Score = 375 bits (963), Expect = e-102, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 214/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNPTRARVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA ++ PIG + +D+ +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNDVSMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 ETAPVEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|51894182|ref|YP_076873.1| DNA-directed RNA polymerase subunit alpha [Symbiobacterium thermophilum IAM 14863] gi|61215885|sp|Q67JX1|RPOA_SYMTH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|51857871|dbj|BAD42029.1| RNA polymerase alpha subunit [Symbiobacterium thermophilum IAM 14863] Length = 315 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 137/309 (44%), Positives = 208/309 (67%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP IE +VL E+ + + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDGV Sbjct: 4 MEKP-KIETVVL-AEDNSYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+TDIILN+K ++L+M D K + + G G VTAGDI T D+E+L Sbjct: 62 LHEFSTLPGVVEDVTDIILNLKQLSLRMHSDEPKVLRLHAEGEGEVTAGDIHTDADVEIL 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD I LD + E+TVSKG GYVPA ++T + PIG+I +D+++SPI++V+YT+E Sbjct: 122 NPDLHIATLDKGGRLIAEITVSKGRGYVPADQNKTPDMPIGVIPVDSIFSPIRRVNYTIE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R G +YDKL++ + T+G+I +++ + A++IL++ L +FI+ E E++ + Sbjct: 182 HTRVGNKTNYDKLTLEVWTNGAIRPDEACSWAAKILKEHLELFISLTEDADEIEVMQEKE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 N + +EEL+LSVRS NCL+ I + +L+ +T+ +M+++ N G+KSL E+K Sbjct: 242 DDERNKLMEMTIEELDLSVRSYNCLKRAGINTIAELVSKTDEEMMKVRNLGKKSLEEVKT 301 Query: 309 VLGTMGLFL 317 L GL L Sbjct: 302 KLAAFGLSL 310 >gi|119773379|ref|YP_926119.1| DNA-directed RNA polymerase subunit alpha [Shewanella amazonensis SB2B] gi|158513008|sp|A1S243|RPOA_SHEAM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119765879|gb|ABL98449.1| DNA-directed RNA polymerase [Shewanella amazonensis SB2B] Length = 329 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVILEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ + NPDHVIC+L + + M + V +G GYVPA + ++ PIG + +DA +S Sbjct: 118 DGDVTIANPDHVICHLTGNHDISMRIRVERGRGYVPASARAQNEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPEQKEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|225873050|ref|YP_002754509.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium capsulatum ATCC 51196] gi|225794173|gb|ACO34263.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium capsulatum ATCC 51196] Length = 363 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 142/318 (44%), Positives = 206/318 (64%), Gaps = 1/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + + E A+P RGF T+GNALRR L+SS+ GAA+TAV+I Sbjct: 3 WRGFQKPKRL-VVDPETLTEKFGKFSAQPFERGFGTTIGNALRRTLLSSIEGAAVTAVKI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE SI GV ED TDIILN+K + K++GD K + + PGVVT+G I+ D+ Sbjct: 62 EGVLHEFQSIPGVVEDATDIILNLKQVPFKLNGDGPKALYVRADQPGVVTSGMIEADADV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+L+ D I + + ME+ + +G G+V A + + IG I +D+++SP++KV+Y Sbjct: 122 EILDKDIYIATVSEGGKLEMEMRLKRGRGFVSADKNHDNDLGIGFIPVDSVHSPVRKVNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR GQ+ DYDKL++ + T+G++ D+V LA+++L+D + +FINFEE + Sbjct: 182 FVEAARLGQITDYDKLTLEVMTNGTVLPADAVGLAAKLLKDHMSIFINFEEEIEAESHSE 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + N L + VEELELSVRS NCL+ NI +G+L+Q+TEA+ML+ NFGRKSL E Sbjct: 242 EGRVQLRNENLNRSVEELELSVRSYNCLKNANIQTIGELVQKTEAEMLKTKNFGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPD 323 IK +L MGL LGM + + Sbjct: 302 IKEILAQMGLSLGMKIDE 319 >gi|226942803|ref|YP_002797876.1| DNA-directed RNA polymerase subunit alpha [Azotobacter vinelandii DJ] gi|226717730|gb|ACO76901.1| DNA-directed RNA polymerase, alpha subunit [Azotobacter vinelandii DJ] Length = 333 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 144/336 (42%), Positives = 219/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ + R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQAV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +++ K+G G VTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLSLSKKGSGAVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N HVI NL + + M+L V++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIVNGGHVIANLADNGALNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 APVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|218779736|ref|YP_002431054.1| DNA-directed RNA polymerase subunit alpha [Desulfatibacillum alkenivorans AK-01] gi|218761120|gb|ACL03586.1| DNA-directed RNA polymerase, alpha subunit [Desulfatibacillum alkenivorans AK-01] Length = 343 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 155/335 (46%), Positives = 226/335 (67%), Gaps = 8/335 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NW+ELIKP ++ + I EPL RGF TLGNALRR+++SSL GAAI Sbjct: 6 LMYMNWRELIKPQRVQV----ESSPTHGKFITEPLERGFGLTLGNALRRIILSSLHGAAI 61 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+ D V+HE S+I GV ED++++ILN+K + L M+ + + K+GPGVVTAGD+ Sbjct: 62 VSVKFDNVMHEFSAIPGVLEDVSELILNLKEVRLTMTETGPCPLNLEKQGPGVVTAGDLI 121 Query: 121 TVND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + N ++VLNPD I + D+V RME+ G GY A+ ++ E+DP+G I ID+++SP Sbjct: 122 SPNGKVQVLNPDLYIATISDDSVFRMEMQCQVGKGYAMAEANKNEDDPVGTIPIDSVFSP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EP 237 I++V+Y V +AR GQ DYDKL++ + TDGS+T ED+VA A++IL++Q+ +FINF+ Sbjct: 182 IRRVNYVVGNARVGQRTDYDKLTLEVWTDGSLTPEDAVAYAAKILKEQISIFINFDEEME 241 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ E + FN L + V+ELELSVRS NCL+ +I + +L+++TE++ML+ N Sbjct: 242 PEQEVEAEETDAPEFNENLYRSVDELELSVRSANCLKNASIHKIFELVRKTESEMLKTKN 301 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDW-PPESIEE 331 FGRKSL EIK VL MGL GM L + PPE +E Sbjct: 302 FGRKSLNEIKEVLSEMGLSFGMKLEGFQPPEESDE 336 >gi|224827042|ref|ZP_03700139.1| DNA-directed RNA polymerase, alpha subunit [Lutiella nitroferrum 2002] gi|224600708|gb|EEG06894.1| DNA-directed RNA polymerase, alpha subunit [Lutiella nitroferrum 2002] Length = 327 Score = 375 bits (962), Expect = e-102, Method: Composition-based stats. Identities = 156/332 (46%), Positives = 219/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + + EP RG+AHTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPV---SATHARVSMEPFERGYAHTLGNALRRILLSSMPGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LN+KG+ LK+ G +T+ K G G V AGDI+ Sbjct: 58 EVTIAGVLHEYSALDGVREDVVDILLNLKGVVLKLHGRDSVVLTLKKEGEGAVLAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+EV+NPDHVIC+L + +E+ V KG GY P + ++ +N IG I +DA +SP Sbjct: 118 PHDVEVINPDHVICHLAAGGKIDLEVKVEKGRGYQPVSVRVNQDDNRAIGTIQLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VS+ VESAR Q D D+L + I+T+G I E +V A+RIL DQL +F + + Sbjct: 178 VRRVSFGVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFA---DLQG 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E++ K+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 235 TAVEEVVEKAPPIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 326 >gi|332040527|gb|EGI76903.1| DNA-directed RNA polymerase subunit alpha [Hylemonella gracilis ATCC 19624] Length = 328 Score = 374 bits (961), Expect = e-102, Method: Composition-based stats. Identities = 159/328 (48%), Positives = 214/328 (65%), Gaps = 6/328 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPKTINVEQLG---PNRAKVALEPFERGYGHTLGNALRRVLLSSMPGYAATEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTAGDIQT +D+E Sbjct: 60 GVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTAGDIQTPHDVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYSPIKKV 183 ++NP+HVI L + M++ V KG GYVP R ++ I +DA YSP+K+V Sbjct: 120 IINPEHVIATLSAGGKLDMQIKVEKGRGYVPGTMRRHTDEQSKSIGRIVLDASYSPVKRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + +K Sbjct: 180 SYAVESARVEQRTDLDKLVIEIETNGTITAEDAVRASAKILVEQLAVFAQLDGSEKIFDT 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL Sbjct: 240 PSQRSAGQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRSENELLKTPNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP ++E+ Sbjct: 300 NEIKEVLASRGLTLGMKLENWPPAALEK 327 >gi|322418391|ref|YP_004197614.1| DNA-directed RNA polymerase subunit alpha [Geobacter sp. M18] gi|320124778|gb|ADW12338.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sp. M18] Length = 339 Score = 374 bits (961), Expect = e-102, Method: Composition-based stats. Identities = 162/340 (47%), Positives = 228/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LI+P ++ AEP RGF TLG LRRVL+SSL+GAAI Sbjct: 1 MYRNWRDLIRPKKLQVET-ESLTNTYGKFYAEPFERGFGTTLGTGLRRVLISSLQGAAIV 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI T Sbjct: 60 SVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDIVT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP+ Sbjct: 120 DNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSPVH 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 180 KVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVEPQ 239 Query: 242 KEDINVKSLPFNPALL-KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + L + V+ELELSVRS NCL+ I +G+L+ RTEA+ML+ NFGR Sbjct: 240 EEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRTEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L ++P PE + L + +++ Sbjct: 300 KSLNEIKDILVDMGLTLGMKLENFPDPEIMRRLRGEQKEE 339 >gi|212634854|ref|YP_002311379.1| DNA-directed RNA polymerase subunit alpha [Shewanella piezotolerans WP3] gi|212556338|gb|ACJ28792.1| DNA-directed RNA polymerase [Shewanella piezotolerans WP3] Length = 329 Score = 374 bits (961), Expect = e-102, Method: Composition-based stats. Identities = 145/333 (43%), Positives = 214/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ V+NPDHVIC+L + V M + V +G GYVPA ++ PIG + +D+ +S Sbjct: 118 DGDVTVMNPDHVICHLTGNNEVSMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EAAPVEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|240948150|ref|ZP_04752553.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor NM305] gi|240297503|gb|EER48010.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor NM305] Length = 329 Score = 374 bits (961), Expect = e-102, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA + Sbjct: 118 DGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ V ++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQPVVKEEK---PEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|330879400|gb|EGH13549.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. glycinea str. race 4] Length = 333 Score = 374 bits (961), Expect = e-102, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 225/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GV TA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVGTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|126666788|ref|ZP_01737765.1| DNA-directed RNA polymerase subunit alpha [Marinobacter sp. ELB17] gi|126628833|gb|EAZ99453.1| DNA-directed RNA polymerase subunit alpha [Marinobacter sp. ELB17] Length = 334 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 152/331 (45%), Positives = 225/331 (67%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P I+ + R + EPL RGF HTLG+ALRR+L+SS+ G A+T Sbjct: 1 MQRSVHELLTPRTIDVK---ESGSTRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+KG+ +KM G + + K+GPGVVTAGDI+ Sbjct: 58 EAQIDGVLHEYSAIEGVQEDVIEILLNLKGVAVKMHGRDDAELMLSKKGPGVVTAGDIKL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NP+HVIC+L + V M L++++G GY PA + D I +DA +S Sbjct: 118 DHDVEIANPEHVICHLSENGEVNMRLSIARGRGYEPADQRGLDEDETRAIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y+VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++F+ K Sbjct: 178 PVRRVAYSVESARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 E---PERVEEEEEIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASL 325 >gi|157960038|ref|YP_001500072.1| DNA-directed RNA polymerase subunit alpha [Shewanella pealeana ATCC 700345] gi|157845038|gb|ABV85537.1| DNA-directed RNA polymerase, alpha subunit [Shewanella pealeana ATCC 700345] Length = 329 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 214/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA ++ PIG + +D+ +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNEVSMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFVELRDVT 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 ETAPVEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|331018185|gb|EGH98241.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas syringae pv. lachrymans str. M302278PT] Length = 333 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 224/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQISVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KG+ +K+ G +T+ K+G GVVTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGLAIKLHGRDEVTLTLSKKGSGVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++NPDHVI NL + V+ M+LTV++G GY PA +++ D I +D+ +S Sbjct: 118 DHDVEIVNPDHVIANLASNGVLNMKLTVARGRGYEPADSRQSDEDESRSIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRIAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V +LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVIEQE---DEIDPILLRPVYDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + L LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRSLSLGMRLDNWPPASLKKDDK 330 >gi|119502948|ref|ZP_01625033.1| DNA-directed RNA polymerase subunit alpha [marine gamma proteobacterium HTCC2080] gi|119461294|gb|EAW42384.1| DNA-directed RNA polymerase subunit alpha [marine gamma proteobacterium HTCC2080] Length = 334 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 145/338 (42%), Positives = 216/338 (63%), Gaps = 9/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + P I + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MSTNVNEFLTPR---VIKVDEKSPTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV HE S+++G ED+ +I+LN+KG+ L M+G +++ +GP VTA +IQT Sbjct: 58 EVEIDGVQHEYSAVEGAQEDVIEILLNLKGVALSMTGKDEAELSLVAKGPCTVTAAEIQT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+++ NPDHVIC+L D + M + V +G GY PA + I +DA +S Sbjct: 118 DHDVQIGNPDHVICHLTADQELVMRVVVERGRGYSPADSRINPEEETRSIGKLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY V+SAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PVRRVSYVVDSARVEQRTDLDKLIIDLETNGTIDPEEAIRRAATILQQQLLVFVDLESEA 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 QATAQEAD---DEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLRNDERLL 332 >gi|82701925|ref|YP_411491.1| DNA-directed RNA polymerase subunit alpha [Nitrosospira multiformis ATCC 25196] gi|119366704|sp|Q2YAX2|RPOA_NITMU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|82409990|gb|ABB74099.1| DNA-directed RNA polymerase subunit alpha [Nitrosospira multiformis ATCC 25196] Length = 334 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 149/335 (44%), Positives = 216/335 (64%), Gaps = 10/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N + P I+ + + EP RG+ HTLGNALRR+L+SS+ G A T Sbjct: 1 MQSN--TFLTPRIIDVQNI---SPLHARITMEPFERGYGHTLGNALRRILLSSMPGFAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQI GV+HE S++ GV ED+ DI+LN+KGI LK+ + +T+ K+G G VTAGDI+ Sbjct: 56 EVQISGVVHEYSALDGVQEDVVDILLNLKGIVLKLHNRTEALLTLSKKGEGTVTAGDIEG 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+E++NPDHV+ +L + M++ V G GYVP + E+ IG I +DA +SP Sbjct: 116 GHDVEIINPDHVVAHLTSGGKLDMQIKVEMGRGYVPGTVRQLAHESRAIGSILLDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VSY VESAR Q D DKL M I+T+G + E+++ A+++L +QL +F + + Sbjct: 176 VRRVSYAVESARVEQRTDLDKLVMDIETNGVVDPEEAIRYAAKVLVEQLSVFADLKGTPL 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V++ K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 236 PVEQ---PKLPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 RKSL EIK VL + GL LGM L WPP ++++ K Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLESWPPSNLDKGKK 327 >gi|34499615|ref|NP_903830.1| DNA-directed RNA polymerase subunit alpha [Chromobacterium violaceum ATCC 12472] gi|41688632|sp|Q7NQH7|RPOA_CHRVO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|34105466|gb|AAQ61821.1| DNA-directed RNA polymerase (alpha subunit) [Chromobacterium violaceum ATCC 12472] Length = 327 Score = 374 bits (960), Expect = e-101, Method: Composition-based stats. Identities = 154/332 (46%), Positives = 217/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ + + EP RG+AHTLGN+LRR+L+SS+ G A T Sbjct: 1 MQNSASEFLKPRLIDVQPV---SATHARVSMEPFERGYAHTLGNSLRRILLSSMPGYAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LN+KG+ LK+ G +T+ K G G V A DI+ Sbjct: 58 EVTIAGVLHEYSALDGVREDVVDILLNLKGVVLKLHGRDSVVLTLKKEGEGAVLASDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+EV+NP+HVIC++ + ME+ V KG GY P A+ +N IG I +DA +SP Sbjct: 118 PHDVEVINPEHVICHISSGGKIDMEVKVEKGRGYQPVSARTSHDDNRSIGTIQLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VS+ VESAR Q D D+L + I+T+G I E +V A+RIL DQL +F + + Sbjct: 178 VRRVSFAVESARVEQRTDLDRLVLDIETNGVIEPEQAVRNAARILMDQLSIFA---DLQG 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E++ K+ P +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 235 TAVEEVVEKAPPIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGMKLENWPPAGLEK 326 >gi|149675708|dbj|BAF64734.1| DNA-directed RNA polymerase alpha subunit [Shewanella livingstonensis] Length = 329 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEALLTLSKSGTGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIVNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEQAVVEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL +IK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTDIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|152998246|ref|YP_001343081.1| DNA-directed RNA polymerase subunit alpha [Marinomonas sp. MWYL1] gi|150839170|gb|ABR73146.1| DNA-directed RNA polymerase, alpha subunit [Marinomonas sp. MWYL1] Length = 334 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 156/336 (46%), Positives = 227/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE LG R + +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQELGN---CRAKVTLQPLERGFGHTLGNALRRILLSSMPGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ + + G +T+ K+GPG+VTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVKEDVIEILLNLKGVAIALHGQDEATLTLSKKGPGIVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 V D E+ NPDH+I +LD A + M++ V++G GY PA E PIG + +DA +S Sbjct: 118 VADAEIANPDHIIAHLDDTAELTMQIKVARGRGYEPADARVAGDDETRPIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y+V++AR Q D DKL + I+++G+I E+++ A+ ILQ Q+ +F+ E Sbjct: 178 PVRRVAYSVDNARVEQRTDLDKLVLDIESNGTIDPEEAIRRAATILQQQIAVFVALESES 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EAPVVEEE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL GL LGM L +WPP S+++ +K Sbjct: 295 GKKSLTEIKDVLAQRGLSLGMRLENWPPASLKDDSK 330 >gi|56477619|ref|YP_159208.1| DNA-directed RNA polymerase subunit alpha [Aromatoleum aromaticum EbN1] gi|81598738|sp|Q5P307|RPOA_AZOSE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56313662|emb|CAI08307.1| DNA-directed RNA polymerase (alpha subunit) [Aromatoleum aromaticum EbN1] Length = 326 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 216/333 (64%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I+ + + + EP RGF HTLGNALRR+L+SSL G A T Sbjct: 1 MQSN--SLLKPRIIDVQSV---SPVQARVTMEPFERGFGHTLGNALRRILLSSLPGYAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I+GVLHE S++ GV ED+ D++LN+KG+ LK+ S + + K G GVVTA DI+ Sbjct: 56 EVSIEGVLHEYSTLDGVREDIVDLLLNLKGVVLKLHSRSEATLRLAKSGDGVVTARDIEV 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+E++NPDHVI +L + M++ V +G GYVP + + IG + +DA +SP Sbjct: 116 GHDVEIINPDHVIAHLAPGGKLDMQIKVEEGRGYVPGNVRPAAGDTKTIGRVVLDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VSY VESAR Q D D+L + I+T+G++ E+++ A+R+L DQL +F + E Sbjct: 176 VRRVSYLVESARVEQRTDLDRLVIDIETNGAVDPEEAIRYAARVLMDQLSVFADLEGTAP 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V++ P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 236 VVEQSAAQTIDP---VLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 RKSL EIK VL + GL LGM L +WPP +E+L Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLENWPPAGLEKL 325 >gi|127511117|ref|YP_001092314.1| DNA-directed RNA polymerase subunit alpha [Shewanella loihica PV-4] gi|158513465|sp|A3Q9A7|RPOA_SHELP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|126636412|gb|ABO22055.1| DNA-directed RNA polymerase, alpha subunit [Shewanella loihica PV-4] Length = 329 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +D+ +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|146281195|ref|YP_001171348.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas stutzeri A1501] gi|158514171|sp|A4VHQ5|RPOA_PSEU5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145569400|gb|ABP78506.1| DNA-directed RNA polymerase alpha chain [Pseudomonas stutzeri A1501] gi|327479348|gb|AEA82658.1| DNA-directed RNA polymerase subunit alpha [Pseudomonas stutzeri DSM 4166] Length = 333 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 146/336 (43%), Positives = 222/336 (66%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P +I+ V+ R + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQSSVNEFLTPRHIDVQVV---SPTRAKITLEPLERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE S+I+GV ED+ +I+LN+KGI +K+ G +++ K+G G VTA DIQ Sbjct: 58 EAEIDGVLHEYSAIEGVQEDVIEILLNLKGIAIKLHGRDEVTLSLVKKGAGAVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E++N DH+I NL + + M+L V++G GY PA +++ D I +DA +S Sbjct: 118 DHDVEIVNGDHLIANLAANGSLNMKLKVARGRGYEPADARQSDEDESRSIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VE+AR Q + DKL + ++T+G++ E+++ A+ ILQ QL F++ + Sbjct: 178 PVRRVAYVVENARVEQRTNLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPVVVEQE---DEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKKDDK 330 >gi|313903124|ref|ZP_07836518.1| DNA-directed RNA polymerase subunit alpha [Thermaerobacter subterraneus DSM 13965] gi|313466626|gb|EFR62146.1| DNA-directed RNA polymerase subunit alpha [Thermaerobacter subterraneus DSM 13965] Length = 315 Score = 373 bits (959), Expect = e-101, Method: Composition-based stats. Identities = 128/311 (41%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP I+ + L ++ + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I+ Sbjct: 2 SEMEKPT-IQTVEL-SDDGTYGRFVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRIE 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S++ GV ED T+IILN+K + +KM D + + I +G G V A DI T D+E Sbjct: 60 GVLHEFSTLPGVVEDTTEIILNLKELAIKMYTDEPQVLRIEAQGEGEVRAADIITPPDVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N DH+I L+ D + ME+TV +G GYVPA ++ + IG+I +D++++PI+KV++ Sbjct: 120 IVNGDHLIATLEPDGRLFMEMTVQRGRGYVPADRNKDPDRSIGVIPVDSIFTPIRKVNFQ 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R G+V DYD+L++ + T+G+I +++ + A++IL D L +F+ + + + Sbjct: 180 VENTRVGKVTDYDRLTLEVWTNGTIAPDEAASQAAQILTDHLALFLTLTDQARGTGTAVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L ++EL+LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E+ Sbjct: 240 KEDDARAKLLEMSIDELDLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEEV 299 Query: 307 KGVLGTMGLFL 317 + L +GL L Sbjct: 300 EEKLAALGLSL 310 >gi|307543850|ref|YP_003896329.1| DNA-directed RNA polymerase subunit alpha [Halomonas elongata DSM 2581] gi|307215874|emb|CBV41144.1| DNA-directed RNA polymerase subunit alpha [Halomonas elongata DSM 2581] Length = 332 Score = 373 bits (958), Expect = e-101, Method: Composition-based stats. Identities = 141/335 (42%), Positives = 224/335 (66%), Gaps = 9/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + + ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIKVEEI---SAHHAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I GV HE S+I+G+ ED+ +I+LN+K + +KM +++ K+GP VVTAGDI Sbjct: 58 EAEIAGVDHEYSAIEGIQEDVIEILLNLKDVAIKMHSRDEAVLSLNKQGPAVVTAGDIAL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+EV+NP+HVI +++ A ++M+L +++G GY PA +D I +DA +S Sbjct: 118 DHDVEVVNPEHVIAHVNEGAELKMQLKIARGRGYEPADVRGDADDESRAIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY+VE+AR Q D DKL + ++TDG++ E+++ ++ ILQ+QL F++ E K Sbjct: 178 PVRRVSYSVEAARVEQRTDLDKLIIDLETDGTLDPEEAIRRSATILQEQLAAFVDLEADK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +++ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 E---QEVEEEEDHIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 GKKSLNEIKDVLAARGLSLGMRLENWPPASLKDDK 329 >gi|223042028|ref|ZP_03612209.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor 202] gi|198246530|gb|ACH82222.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor 202] Length = 329 Score = 373 bits (958), Expect = e-101, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA + Sbjct: 118 DGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARIHAQDDDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|170728984|ref|YP_001763010.1| DNA-directed RNA polymerase subunit alpha [Shewanella woodyi ATCC 51908] gi|169814331|gb|ACA88915.1| DNA-directed RNA polymerase, alpha subunit [Shewanella woodyi ATCC 51908] Length = 329 Score = 373 bits (957), Expect = e-101, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVLEILLNLKGLAVVVEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA + PIG + +D+ +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNDVSMRIRVERGRGYVPASARAQTEDDERPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPELKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|91791564|ref|YP_561215.1| DNA-directed RNA polymerase subunit alpha [Shewanella denitrificans OS217] gi|119366725|sp|Q12ST4|RPOA_SHEDO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91713566|gb|ABE53492.1| DNA-directed RNA polymerase, alpha subunit [Shewanella denitrificans OS217] Length = 329 Score = 373 bits (957), Expect = e-101, Method: Composition-based stats. Identities = 145/331 (43%), Positives = 215/331 (64%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEAMLTLSKSGTGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >gi|197117350|ref|YP_002137777.1| DNA-directed RNA polymerase subunit alpha [Geobacter bemidjiensis Bem] gi|197086710|gb|ACH37981.1| DNA-directed RNA polymerase, alpha subunit [Geobacter bemidjiensis Bem] Length = 339 Score = 373 bits (957), Expect = e-101, Method: Composition-based stats. Identities = 161/340 (47%), Positives = 228/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LI+P ++ AEP RGF TLG LRRVL+SSL+GAAI Sbjct: 1 MYRNWRDLIRPKKLQVET-ESLTNTYGKFFAEPFERGFGTTLGTGLRRVLISSLQGAAIV 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI T Sbjct: 60 SVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP+ Sbjct: 120 DNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSPVH 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 180 KVNFTVTNARVGQITDYDKLTIEVWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVEPQ 239 Query: 242 KEDINVKSLPFNPALL-KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NFGR Sbjct: 240 EEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L ++P PE + L + +++ Sbjct: 300 KSLNEIKDILVDMGLTLGMKLDNFPDPEIMRRLRGEQKEE 339 >gi|322436518|ref|YP_004218730.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium sp. MP5ACTX9] gi|321164245|gb|ADW69950.1| DNA-directed RNA polymerase, alpha subunit [Acidobacterium sp. MP5ACTX9] Length = 367 Score = 372 bits (956), Expect = e-101, Method: Composition-based stats. Identities = 141/318 (44%), Positives = 207/318 (65%), Gaps = 1/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + A+P RGF T+GNALRR L+SS+ GAA+TAV+I Sbjct: 3 WRGFQKPKRLAVDN-ETITPKYGKFSAQPFERGFGTTIGNALRRTLLSSIEGAAVTAVRI 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE SI GV ED TDIILN+K I K++GD K + + GV+T+G I+ D+ Sbjct: 62 EGVLHEFQSITGVVEDATDIILNLKQIPFKLAGDGPKALYLRSDAAGVITSGMIEADADV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+L+P+ IC + + ME+ + +G GY+ A + + +G I +D+++SP++KV+Y Sbjct: 122 EILDPNVYICTISEGGKIDMEMRLKRGRGYISADKNFDGDLGLGFIPVDSVHSPVRKVNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR GQ+ DYDKLS+ I T+G++ D++ L++++L+D + +FINFEE + ++ Sbjct: 182 VVEAARLGQITDYDKLSIEIWTNGTVLPADALGLSAKLLKDHMTIFINFEEEMEAGHDNG 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + N L + VEELELSVRS NCL+ NI +G+LIQ+TEA+ML+ NFGRKSL E Sbjct: 242 HDGPAMRNENLNRSVEELELSVRSYNCLKNANIATIGELIQKTEAEMLKTKNFGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPD 323 IK +L MGL LGM + + Sbjct: 302 IKEILAQMGLSLGMKIDE 319 >gi|119899680|ref|YP_934893.1| DNA-directed RNA polymerase subunit alpha [Azoarcus sp. BH72] gi|158512916|sp|A1KB01|RPOA_AZOSB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119672093|emb|CAL96007.1| DNA-directed RNA polymerase [Azoarcus sp. BH72] Length = 326 Score = 372 bits (956), Expect = e-101, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 221/333 (66%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I+ + + + EP RGF HTLGNALRR+L+SSL G A T Sbjct: 1 MQSN--ALLKPRIIDVQSI---SPVQARVTMEPFERGFGHTLGNALRRILLSSLPGHAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I+GVLHE S++ G+ ED+ D++LN+KG+ LK+ S +T+ K G GVVTA DI+ Sbjct: 56 EVSIEGVLHEYSTLDGMREDIVDLLLNLKGVVLKLHNRSEAMLTLSKSGEGVVTARDIEG 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+E++NPDHVI +L + M++ V +G GYVP A+ EN IG I +DA +SP Sbjct: 116 GHDVEIINPDHVIAHLAPGGKLEMQIKVEQGRGYVPGNARPVSAENKTIGRIVLDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VSY VESAR Q D D+L + I+T+G++ E+++ A+R+L DQL +F + E Sbjct: 176 VRRVSYLVESARVEQRTDLDRLVIDIETNGAVDPEEAIRYAARVLMDQLSVFADLEGTPV 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V + K+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 236 AV---VPEKTPSIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 RKSL EIK VL + GL LGM L +WPP +E+L Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLENWPPAGLEKL 325 >gi|110812362|gb|ABG91718.1| DNA-directed RNA polymerase, alpha subunit [Shewanella putrefaciens 200] Length = 336 Score = 372 bits (956), Expect = e-101, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 8 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 64 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G V A DI Sbjct: 65 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEAMLTLSKSGAGPVIAADITH 124 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 125 DGDVTIVNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 184 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 185 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 242 DVTEPELKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 302 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 334 >gi|157377426|ref|YP_001476026.1| DNA-directed RNA polymerase subunit alpha [Shewanella sediminis HAW-EB3] gi|157319800|gb|ABV38898.1| DNA-directed RNA polymerase, alpha subunit [Shewanella sediminis HAW-EB3] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + V M + V +G GYVPA ++ PIG + +D+ +S Sbjct: 118 DGDVTIMNPDHVICHLTGNNDVSMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|92112579|ref|YP_572507.1| DNA-directed RNA polymerase subunit alpha [Chromohalobacter salexigens DSM 3043] gi|119366673|sp|Q1R0F0|RPOA_CHRSD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91795669|gb|ABE57808.1| DNA-directed RNA polymerase subunit alpha [Chromohalobacter salexigens DSM 3043] Length = 333 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 227/336 (67%), Gaps = 10/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E ++P +I+ + N ++ EP RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQRSVTEFLRPRDIKVEEI---NANHAKIVLEPFERGFGHTLGNALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT-IFKRGPGVVTAGDIQ 120 +I+GVLHE S+I+GV ED+ +I+LN+K + +KM G+ + V + K+GP VVTAGDI Sbjct: 58 EAEIEGVLHEYSAIEGVQEDVIEILLNLKDVAVKMHGNRDEVVLALSKQGPSVVTAGDIA 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALY 177 +D+E++NPDHVI +L+ ++M+L V +G GY PA +E D I +DA + Sbjct: 118 VDHDVEIVNPDHVIAHLNDSGELKMQLKVVRGRGYEPADTRASEEDESRAIGRLQLDATF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++VSY+VE+AR Q D DKL + ++TDG++ E+++ ++ ILQ+QL F++ E Sbjct: 178 SPVRRVSYSVEAARVEQRTDLDKLIIDLETDGTLDPEEAIRRSATILQEQLAAFVDLEAD 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K+ +++ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 KE---QEVEEEEDQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP S+++ Sbjct: 295 LGKKSLNEIKDVLAARGLSLGMRLENWPPASLKDDK 330 >gi|251793851|ref|YP_003008583.1| DNA-directed RNA polymerase subunit alpha [Aggregatibacter aphrophilus NJ8700] gi|247535250|gb|ACS98496.1| DNA-directed RNA polymerase, alpha subunit [Aggregatibacter aphrophilus NJ8700] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTQ---AKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVLLTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA ++ E+ PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDENASINMRIRVQRGRGYVPASARAQNQDEDRPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I ED++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGTIDPEDAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQPEIKEEK---PEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|120597014|ref|YP_961588.1| DNA-directed RNA polymerase subunit alpha [Shewanella sp. W3-18-1] gi|146294816|ref|YP_001185240.1| DNA-directed RNA polymerase subunit alpha [Shewanella putrefaciens CN-32] gi|158512973|sp|A1RED9|RPOA_SHESW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172046873|sp|A4YBV8|RPOA_SHEPC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120557107|gb|ABM23034.1| DNA-directed RNA polymerase, alpha subunit [Shewanella sp. W3-18-1] gi|145566506|gb|ABP77441.1| DNA-directed RNA polymerase, alpha subunit [Shewanella putrefaciens CN-32] gi|319424605|gb|ADV52679.1| DNA-directed RNA polymerase, alpha subunit [Shewanella putrefaciens 200] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEAMLTLSKSGAGPVIAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIVNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPELKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|24371854|ref|NP_715896.1| DNA-directed RNA polymerase subunit alpha [Shewanella oneidensis MR-1] gi|113968569|ref|YP_732362.1| DNA-directed RNA polymerase subunit alpha [Shewanella sp. MR-4] gi|114045732|ref|YP_736282.1| DNA-directed RNA polymerase subunit alpha [Shewanella sp. MR-7] gi|117918682|ref|YP_867874.1| DNA-directed RNA polymerase subunit alpha [Shewanella sp. ANA-3] gi|41688704|sp|Q8EK47|RPOA_SHEON RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366727|sp|Q0HNR2|RPOA_SHESM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366728|sp|Q0I080|RPOA_SHESR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512311|sp|A0KRP9|RPOA_SHESA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|24345671|gb|AAN53341.1|AE015474_4 DNA-directed RNA polymerase, alpha subunit [Shewanella oneidensis MR-1] gi|113883253|gb|ABI37305.1| DNA-directed RNA polymerase, alpha subunit [Shewanella sp. MR-4] gi|113887174|gb|ABI41225.1| DNA-directed RNA polymerase, alpha subunit [Shewanella sp. MR-7] gi|117611014|gb|ABK46468.1| DNA-directed RNA polymerase, alpha subunit [Shewanella sp. ANA-3] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 143/333 (42%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEAMLTLSKSGAGPVIAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDHVIC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIVNPDHVICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEMKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|260914656|ref|ZP_05921122.1| DNA-directed RNA polymerase subunit alpha [Pasteurella dagmatis ATCC 43325] gi|260631255|gb|EEX49440.1| DNA-directed RNA polymerase subunit alpha [Pasteurella dagmatis ATCC 43325] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA H + E PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDENASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|254785104|ref|YP_003072532.1| DNA-directed RNA polymerase subunit alpha [Teredinibacter turnerae T7901] gi|237684107|gb|ACR11371.1| DNA-directed RNA polymerase, alpha subunit [Teredinibacter turnerae T7901] Length = 329 Score = 372 bits (955), Expect = e-101, Method: Composition-based stats. Identities = 148/333 (44%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ L R ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSAVNEFLTPRHIDVTEL---APTRAKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I GV HE S+I+GV ED+ +I+LNIK + + M G +++ K+GPGVVT DIQ Sbjct: 58 EVEIAGVQHEYSAIEGVREDVIEILLNIKNLAVVMHGKDTTTLSLVKQGPGVVTGADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NP+ VI N+ D + M+LT+++G GY P +++ D I +DA +S Sbjct: 118 DHDVEIANPELVIANITGDVTLDMKLTIARGRGYQPVDARQSDEDETRAIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++YTVESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E K Sbjct: 178 PVRRLAYTVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLEGEK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 ---EVEPEQKEDQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK +L + GL LGM L +WPP S++ Sbjct: 295 GKKSLTEIKDILASRGLSLGMRLENWPPASLKN 327 >gi|15603255|ref|NP_246329.1| DNA-directed RNA polymerase subunit alpha [Pasteurella multocida subsp. multocida str. Pm70] gi|13431846|sp|P57941|RPOA_PASMU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|12721765|gb|AAK03474.1| RpoA [Pasteurella multocida subsp. multocida str. Pm70] Length = 329 Score = 372 bits (954), Expect = e-101, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D A + M + V +G GYVPA H + E PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDESASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|91774660|ref|YP_544416.1| DNA-directed RNA polymerase subunit alpha [Methylobacillus flagellatus KT] gi|119366697|sp|Q1H4L2|RPOA_METFK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91708647|gb|ABE48575.1| DNA-directed RNA polymerase subunit alpha [Methylobacillus flagellatus KT] Length = 328 Score = 372 bits (954), Expect = e-101, Method: Composition-based stats. Identities = 157/333 (47%), Positives = 214/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ V+ R + EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVDVI---SPVRARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S++ GV ED+ DI+LN+KG+ LK++ + +T+ K GVVTAGD T Sbjct: 58 EVKIDGVVHEYSTLDGVQEDVVDILLNLKGVALKLNSKNEATLTLNKSTEGVVTAGDFDT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 +D E+ NPDHVI +L + +E+ V G GY P R E+ +G I +DA +S Sbjct: 118 GHDAEIANPDHVIAHLTKGGKLNLEVKVEMGRGYQPVPQRRKTEDEDRVLGFIQVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KVSY VESAR Q D DKL M ++T+G I E ++ A+RIL QL +F + E Sbjct: 178 PISKVSYQVESARVEQRTDLDKLIMDVETNGIIEPEQAIRDAARILMGQLSVFADLEGAP 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVEVKQA---PQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 GRKSLNEIKDVLASKGLTLGMKLENWPPAGLEK 327 >gi|89093590|ref|ZP_01166538.1| DNA-directed RNA polymerase, alpha subunit [Oceanospirillum sp. MED92] gi|89082280|gb|EAR61504.1| DNA-directed RNA polymerase, alpha subunit [Oceanospirillum sp. MED92] Length = 334 Score = 372 bits (954), Expect = e-101, Method: Composition-based stats. Identities = 152/336 (45%), Positives = 224/336 (66%), Gaps = 8/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQRSVNEFLSPRHIDVQEI---SKTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KGI + + + +T+ K G VTAGDIQ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVIEILLNLKGIAVLLHNNDEAVLTLSKSEAGPVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 D+E+ NPDHVI +L+ A + M+LT+ +G GYVPA ++ + I +DA +S Sbjct: 118 NQDVEIANPDHVIAHLNEGASLNMQLTIGRGRGYVPADLRVSDEEETRAIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VESAR Q D DKL + I+++G+I E+++ A+ ILQ QL +F++ E+ Sbjct: 178 PVRRVSYVVESARVEQRTDLDKLVIDIESNGTIDPEEAIRRAATILQQQLIVFVDLEDGA 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + K++ +P LL+ V++LEL+VRS NCL+ E I Y+GDLIQRTE ++L+ N Sbjct: 238 DQAKDEPEE--PEIDPILLRPVDDLELTVRSANCLKAEQIYYIGDLIQRTEVELLKTPNL 295 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ K Sbjct: 296 GKKSLTEIKDVLASKGLSLGMRLENWPPASLKNDDK 331 >gi|118579145|ref|YP_900395.1| DNA-directed RNA polymerase subunit alpha [Pelobacter propionicus DSM 2379] gi|158512561|sp|A1ALW7|RPOA_PELPD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118501855|gb|ABK98337.1| DNA-directed RNA polymerase subunit alpha [Pelobacter propionicus DSM 2379] Length = 340 Score = 371 bits (953), Expect = e-101, Method: Composition-based stats. Identities = 154/340 (45%), Positives = 227/340 (66%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW++LI+P +++ + AEP RGFA TLGN+LRR+L+SSL+G+AIT Sbjct: 1 MYKNWRDLIRPKQLQFEK-ESLSDTYGKFFAEPFERGFATTLGNSLRRILLSSLQGSAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GVLHE S+I+GV ED+TDIILN+KG+ LK+ + + G GVV AGD Sbjct: 60 SVRIKGVLHEFSAIQGVTEDVTDIILNLKGVRLKLHSVVQATIRVVHTGEGVVKAGDFVV 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++E++NP+H I DA M++TV G GYV A +R E P+G I ID+++SPIK Sbjct: 120 GHNVEIMNPEHHIATCGKDAHFEMDMTVKMGKGYVSADKNRDEKAPVGTIPIDSIFSPIK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++T+ +AR GQ+ DYDKL++ I TDGS+ +D++A +++I+++QL +FINF+E + Sbjct: 180 KVNFTISNARVGQMTDYDKLTLEIWTDGSVKPDDALAYSAKIMKEQLSIFINFDEEAEPQ 239 Query: 242 KEDINVKS-LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + N L + VEELELSVRS NCL+ I +G+L+ +TEA+ML+ NFGR Sbjct: 240 APEESQDEIDKINENLYRTVEELELSVRSANCLKNAGIKLIGELVSKTEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL GM L +P P+ + L + ++ Sbjct: 300 KSLNEIKDILSDMGLTFGMKLDSFPEPDMLRRLRGEQNEE 339 >gi|326793583|ref|YP_004311403.1| DNA-directed RNA polymerase subunit alpha [Marinomonas mediterranea MMB-1] gi|326544347|gb|ADZ89567.1| DNA-directed RNA polymerase subunit alpha [Marinomonas mediterranea MMB-1] Length = 334 Score = 371 bits (953), Expect = e-101, Method: Composition-based stats. Identities = 156/336 (46%), Positives = 228/336 (67%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE + R + +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIEVQEISS---TRAKVTLQPLERGFGHTLGNALRRILLSSMPGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ + + G +T+ K+GPGVVTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVKEDVIEILLNLKGVAIALHGQDEATLTLSKKGPGVVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 V D E+ NPDHVI +LD A + M++ V++G GY PA E PIG + +DA +S Sbjct: 118 VTDSEISNPDHVIAHLDDTAELNMQIKVARGRGYEPADARVASDDETRPIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y+V++AR Q D DKL + I+++G+I E+++ A+ ILQ Q+ +F+ + Sbjct: 178 PVRRVAYSVDNARVEQRTDLDKLVLDIESNGTIDPEEAIRRAATILQQQIAVFVAL---E 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 SESEAVVEEEEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL GL LGM L +WPP S+++ +K Sbjct: 295 GKKSLTEIKDVLAQRGLSLGMRLENWPPASLKDDSK 330 >gi|253701895|ref|YP_003023084.1| DNA-directed RNA polymerase subunit alpha [Geobacter sp. M21] gi|251776745|gb|ACT19326.1| DNA-directed RNA polymerase, alpha subunit [Geobacter sp. M21] Length = 339 Score = 371 bits (953), Expect = e-101, Method: Composition-based stats. Identities = 161/340 (47%), Positives = 228/340 (67%), Gaps = 3/340 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW++LI+P ++ AEP RGF TLG LRRVL+SSL+GAAI Sbjct: 1 MYRNWRDLIRPKKLQVET-ESLTNTYGKFFAEPFERGFGTTLGTGLRRVLISSLQGAAIV 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ GVLHE S++ GV ED+TDIILN+KG+ LK+ G+ + + I ++G GVV A DI T Sbjct: 60 SVKAKGVLHEFSAVPGVTEDMTDIILNLKGVRLKVHGNESRMIRIVQKGEGVVKAKDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 N++E+LNP+H I DA + M+L V G GYVPA +R E P+G I IDA++SP+ Sbjct: 120 DNNVEILNPEHHIATCSKDANLEMDLMVKVGKGYVPADRNRDEKAPVGTIPIDAIFSPVH 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++TV +AR GQ+ DYDKL++ + TDGS+ +D+VA AS+IL+DQL +FINF+E + Sbjct: 180 KVNFTVTNARVGQITDYDKLTIELWTDGSVKPQDAVAYASKILKDQLSIFINFDEDVEPQ 239 Query: 242 KEDINVKSLPFNPALL-KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +E + L + V+ELELSVRS NCL+ I +G+L+ R+EA+ML+ NFGR Sbjct: 240 EEAEPEEERERFNENLYRSVDELELSVRSANCLKNAGIKLIGELVSRSEAEMLKTQNFGR 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 KSL EIK +L MGL LGM L ++P PE + L + +++ Sbjct: 300 KSLNEIKDILVDMGLTLGMKLENFPDPEIMRRLRGEQKEE 339 >gi|254449307|ref|ZP_05062752.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium HTCC5015] gi|198261066|gb|EDY85366.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium HTCC5015] Length = 330 Score = 371 bits (953), Expect = e-101, Method: Composition-based stats. Identities = 155/335 (46%), Positives = 222/335 (66%), Gaps = 9/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E +KP ++ L + R ++ EPL RGF HTLGNALRR+L+SS+ GAA+T Sbjct: 1 MSGNVNEFLKPRLVDVQQL---SDTRAKVVLEPLERGFGHTLGNALRRILLSSMPGAAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQIDGVLHE ++I+GV ED+ +I+LN+K + + ++ + +++ K+G G V AGDIQ Sbjct: 58 EVQIDGVLHEYTTIEGVQEDVLEILLNLKNLAIVLNAKNEAVLSLSKKGKGPVKAGDIQA 117 Query: 122 VNDIEVLNPDHVICNLDVDAV-VRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYS 178 +D+E++NPD VI NL D+ + M L V KG GY PA R E +G + +DA YS Sbjct: 118 DHDVEIVNPDFVIANLTQDSSELSMTLKVKKGRGYEPASQRREEAETAAVGTLQLDASYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +V+YTV+SAR Q D DKL + ++T+G+I E+S+ A+ ILQ+Q+ +F++ + Sbjct: 178 PVYRVAYTVDSARVEQRTDLDKLIIDLETNGTIDPEESIRRAATILQEQISVFVDLQAED 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +ED P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 VSEEEDDASDIDP---VLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 G+KSL EIK VL GL LGM L +WPP SI + A Sbjct: 295 GKKSLTEIKDVLAQHGLSLGMRLENWPPASIAKEA 329 >gi|325577151|ref|ZP_08147635.1| DNA-directed RNA polymerase subunit alpha [Haemophilus parainfluenzae ATCC 33392] gi|301155355|emb|CBW14821.1| RNA polymerase, alpha subunit [Haemophilus parainfluenzae T3T1] gi|325160733|gb|EGC72854.1| DNA-directed RNA polymerase subunit alpha [Haemophilus parainfluenzae ATCC 33392] Length = 329 Score = 371 bits (953), Expect = e-101, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALY 177 D+E++NP HVIC+L D +A + M + V +G GYVPA H + E+ PIG + +DA Y Sbjct: 118 DGDVEIVNPSHVICHLTDENASINMRIRVQRGRGYVPASARTHSQNEDRPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|56460991|ref|YP_156272.1| DNA-directed RNA polymerase subunit alpha [Idiomarina loihiensis L2TR] gi|61215803|sp|Q5QXV8|RPOA_IDILO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56180001|gb|AAV82723.1| DNA-directed RNA polymerase alpha subunit [Idiomarina loihiensis L2TR] Length = 329 Score = 371 bits (952), Expect = e-100, Method: Composition-based stats. Identities = 141/331 (42%), Positives = 217/331 (65%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQI---SPTHAKVTLEPLERGFGYTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ + + G +T+ K G G VTAGD Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVIEVLLNLKGLAVSVEGKDEATLTLNKSGAGPVTAGDFTH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 D+E++NP+HVIC+L D + M + V +G GYVPA + + PIG + +DA +S Sbjct: 118 DGDVEIVNPEHVICHLTGDYELVMRVKVERGRGYVPAASRQSADDDERPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F+ E + Sbjct: 178 PVERIAYSVDAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DISEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >gi|126176330|ref|YP_001052479.1| DNA-directed RNA polymerase subunit alpha [Shewanella baltica OS155] gi|152998774|ref|YP_001364455.1| DNA-directed RNA polymerase subunit alpha [Shewanella baltica OS185] gi|160873350|ref|YP_001552666.1| DNA-directed RNA polymerase subunit alpha [Shewanella baltica OS195] gi|217975176|ref|YP_002359927.1| DNA-directed RNA polymerase subunit alpha [Shewanella baltica OS223] gi|304412789|ref|ZP_07394391.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS183] gi|307307453|ref|ZP_07587188.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica BA175] gi|171704509|sp|A6WHV3|RPOA_SHEB8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171769979|sp|A3DA47|RPOA_SHEB5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|125999535|gb|ABN63610.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS155] gi|151363392|gb|ABS06392.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS185] gi|160858872|gb|ABX47406.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS195] gi|217500311|gb|ACK48504.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS223] gi|304348869|gb|EFM13285.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS183] gi|306910241|gb|EFN40674.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica BA175] gi|315265578|gb|ADT92431.1| DNA-directed RNA polymerase, alpha subunit [Shewanella baltica OS678] Length = 329 Score = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 142/333 (42%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVTIEGKDEAMLTLSKSGAGPVIAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NPDH+IC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIVNPDHIICHLTGNNDISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G+I E+++ ++ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTIDPEEAIRRSATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPELKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 327 >gi|52426078|ref|YP_089215.1| DNA-directed RNA polymerase subunit alpha [Mannheimia succiniciproducens MBEL55E] gi|61215866|sp|Q65QY0|RPOA_MANSM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52308130|gb|AAU38630.1| RpoA protein [Mannheimia succiniciproducens MBEL55E] Length = 329 Score = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVD---IEQVSPTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA H + E PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDENASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGAIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|296268581|ref|YP_003651213.1| DNA-directed RNA polymerase subunit alpha [Thermobispora bispora DSM 43833] gi|296091368|gb|ADG87320.1| DNA-directed RNA polymerase, alpha subunit [Thermobispora bispora DSM 43833] Length = 340 Score = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 127/322 (39%), Positives = 191/322 (59%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVLHE S++ G Sbjct: 9 LQEEPLSEYRSRFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVLHEFSTVPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TDIILN+K + + D + + K+GPG VTA DI +EV NP+ I L Sbjct: 69 VKEDVTDIILNLKQLVVSSEHDEPVVMYLRKQGPGEVTAADIAPPAGVEVHNPELHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D Sbjct: 129 NGKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + ++T SI D+VA A + L + G+ + ++ + L Sbjct: 189 FDRLILDVETKPSIKPRDAVASAGKTLVELFGLARELNVEAEGIEIGPSPTDAALAADLA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L MGL L Sbjct: 249 LPIEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGAKSIEEVKQKLAEMGLTL 308 Query: 318 GMNLPDWPPESIEELAKKYEDK 339 + P + P ++ + +D+ Sbjct: 309 KDSPPGFDPATVAGGGGRLDDE 330 >gi|74316448|ref|YP_314188.1| DNA-directed RNA polymerase subunit alpha [Thiobacillus denitrificans ATCC 25259] gi|90110875|sp|Q3SLM4|RPOA_THIDA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|74055943|gb|AAZ96383.1| DNA-directed RNA polymerase, alpha subunit [Thiobacillus denitrificans ATCC 25259] Length = 326 Score = 370 bits (951), Expect = e-100, Method: Composition-based stats. Identities = 155/332 (46%), Positives = 216/332 (65%), Gaps = 9/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E + + +I EP RG+ HTLGNALRR+L+SS+ G A T Sbjct: 1 MQ-SATEFLKPRIVE---VDRASPLHAKVIMEPFERGYGHTLGNALRRILLSSMVGYAPT 56 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S+I+GV ED+ DI+LN+KGI KM G + + + K G GVVTAGDI+ Sbjct: 57 EVAISGVVHEYSTIEGVQEDVVDILLNLKGIAFKMHGKAEAILKVSKSGEGVVTAGDIEV 116 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +DIEVLNPDHVI +L + ME+ + G GY P A+ E +G I +DA +SP Sbjct: 117 GHDIEVLNPDHVIAHLTKGGKLDMEIKIEAGRGYQPATARKVSEETRAVGSILVDASFSP 176 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++V+Y VESAR Q D D+L + I+T+G + E++V A+RIL QL +F + E Sbjct: 177 VRRVAYAVESARVEQRTDLDRLVIDIETNGVVEPEEAVRTAARILVSQLSVFADLEGTPA 236 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + + +S +P LL+ V++LEL+VRS NCL+ ENI ++GDLIQR+E ++LR N G Sbjct: 237 ESE---SPRSPQVDPLLLRPVDDLELTVRSANCLKAENIYFIGDLIQRSETELLRTPNLG 293 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E Sbjct: 294 RKSLNEIKDVLASKGLSLGMKLENWPPAGLER 325 >gi|294142908|ref|YP_003558886.1| DNA-directed RNA polymerase subunit alpha [Shewanella violacea DSS12] gi|12230609|sp|Q9S0Q8|RPOA_SHEVD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|5913932|dbj|BAA84525.1| RNA polymerase alpha subunit [Shewanella violacea] gi|293329377|dbj|BAJ04108.1| DNA-directed RNA polymerase, alpha subunit [Shewanella violacea DSS12] Length = 329 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 142/331 (42%), Positives = 215/331 (64%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVD---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NP+HV+C+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIMNPEHVVCHLTGNNEISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q D DKL + + T+G++ E+++ A+ IL +QL F+ E + Sbjct: 178 PVARIAYNVEAARVEQRTDLDKLVIDMTTNGTLDPEEAIRRAATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >gi|33594507|ref|NP_882151.1| DNA-directed RNA polymerase subunit alpha [Bordetella pertussis Tohama I] gi|33594778|ref|NP_882421.1| DNA-directed RNA polymerase subunit alpha [Bordetella parapertussis 12822] gi|33599050|ref|NP_886610.1| DNA-directed RNA polymerase subunit alpha [Bordetella bronchiseptica RB50] gi|61234210|sp|P0A4E5|RPOA_BORPE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61234215|sp|P0A4E6|RPOA_BORBR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61234219|sp|P0A4E7|RPOA_BORPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|406284|emb|CAA81390.1| RNA polymerase alpha subunit [Bordetella pertussis Tohama I] gi|33564583|emb|CAE43899.1| DNA-directed RNA polymerase alpha chain [Bordetella pertussis Tohama I] gi|33564854|emb|CAE39798.1| DNA-directed RNA polymerase alpha chain [Bordetella parapertussis] gi|33575096|emb|CAE30559.1| DNA-directed RNA polymerase alpha chain [Bordetella bronchiseptica RB50] Length = 328 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 207/328 (63%), Gaps = 7/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G + ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVG---AHHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ +D+E Sbjct: 61 GVVHEYSTIAGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKNGAGAVVASDIELPHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 ++NPDH+ICNL + M++ V KG GYVP D I +DA +SP+++V Sbjct: 121 IINPDHLICNLTDAGKIEMQVKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G I+ E++V A+RIL DQ+ +F E + Sbjct: 181 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQAARILMDQISVFAALEGAGDAYEP 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 241 PV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +E Sbjct: 300 NEIKEVLAARGLTLGMKLENWPPLGLER 327 >gi|302344329|ref|YP_003808858.1| DNA-directed RNA polymerase, subunit alpha [Desulfarculus baarsii DSM 2075] gi|301640942|gb|ADK86264.1| DNA-directed RNA polymerase, alpha subunit [Desulfarculus baarsii DSM 2075] Length = 334 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 164/338 (48%), Positives = 230/338 (68%), Gaps = 4/338 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++NW+ELIKP+ ++ EPL RGF HT+GNALRR+L+SSL+GAA+T Sbjct: 1 MERNWRELIKPSRLQIDE-EIHTSRYGKFSCEPLERGFGHTIGNALRRILISSLQGAAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++++GVLHE S+I GV ED+TDIILN+KGI L+ G +TI +G GVV AGDI+T Sbjct: 60 NLRMEGVLHEFSTIPGVLEDVTDIILNLKGIQLRYLGFDSTTMTISAQGEGVVKAGDIKT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D+E+LNP+H I L + + ELTV G GYV A+ +++ DPIG I ID+ +SPI Sbjct: 120 PPDVEILNPEHHIATLSPEGRLEAELTVRTGKGYVTAERNKSPEDPIGYIAIDSAFSPIT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KVSY V AR GQ+ DYDKL++ + T+G++ ED+VA A++IL++QL +FINF + E Sbjct: 180 KVSYVVTQARVGQITDYDKLTLEVHTNGAVRPEDAVAYAAKILKEQLQIFINF-PEEPEP 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + N L + V+ELELSVRS NCL+ +I Y+G+L+QR+EA+ML+ NFGRK Sbjct: 239 THEEEREEPRLNENLFRTVDELELSVRSANCLKNADIKYIGELVQRSEAEMLKTKNFGRK 298 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 SL EIK +L MGL LGM L +P ++L + +K Sbjct: 299 SLNEIKEMLTDMGLSLGMKLDGFPAR--DDLENRDREK 334 >gi|88861469|ref|ZP_01136095.1| DNA-directed RNA polymerase alpha chain [Pseudoalteromonas tunicata D2] gi|88816517|gb|EAR26346.1| DNA-directed RNA polymerase alpha chain [Pseudoalteromonas tunicata D2] Length = 328 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVEIDAV---SPTRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSAKEGVQEDIIEILLNLKGLAVTLEGKDEVFLTLTKSGVGPVTAADIQH 117 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+ + NPDHVIC+L ++ + M + V +G GYVPA + + PIG + +DA + Sbjct: 118 DGDVTICNPDHVICHLTTANSSISMRIRVERGRGYVPASNRLSSDDDERPIGRLLLDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS IL +QL F++ + Sbjct: 178 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + V ++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 TEPVAKEEK---PEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >gi|329893624|ref|ZP_08269758.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC3088] gi|328923551|gb|EGG30863.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC3088] Length = 334 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 154/336 (45%), Positives = 219/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I + ++ R L+ EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSAVNEFLTPR---VITVDEKSNTRALVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 VQIDGVLHE S+I+GV ED+ +I+LN+K + + ++G +T+ K+ PG VTAGDI Sbjct: 58 EVQIDGVLHEYSTIEGVQEDVIEILLNLKDVAVVLNGKDEAELTLSKKEPGPVTAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NPDHVICN+ + V ++L VS+G GY PA E D I +DA +S Sbjct: 118 DHDVEICNPDHVICNVTGGSGVNLKLVVSRGRGYSPADSRGNEEDETRAIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++V+Y VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PIRRVAYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLESEG 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 EAEAVVEEDEVDP---ILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKNDDR 330 >gi|212704609|ref|ZP_03312737.1| hypothetical protein DESPIG_02671 [Desulfovibrio piger ATCC 29098] gi|212672008|gb|EEB32491.1| hypothetical protein DESPIG_02671 [Desulfovibrio piger ATCC 29098] Length = 347 Score = 370 bits (950), Expect = e-100, Method: Composition-based stats. Identities = 150/335 (44%), Positives = 214/335 (63%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP+ I + EPL RG+ T+GNA+RRVL++SL+GAA +V Sbjct: 13 RNWNELVKPDQI-LRDEDTASSTHGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAFVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TD++LNIK + L+M D +R+T+ G VTA IQ Sbjct: 72 KITGVQHEFTTIHGVLEDVTDVVLNIKQVRLRMDTDEPQRLTLRVDSKGPVTAAQIQANQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + VLNP+ I L D V+ ME V G GYVPA H D IGLI +D+ +SP++KV Sbjct: 132 HVTVLNPEQHIATLTEDVVLEMEFEVRMGKGYVPADMHEGLADEIGLIKLDSSFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 192 AYAVEQARVGQMTNYDRLILEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDERVSGDMR 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S N L K +++LELSVR+TNCLR NI +G+L+QR+EA+ML+ NFGRKSL Sbjct: 252 HGSSDSGETNEHLFKSIDDLELSVRATNCLRSANIALVGELVQRSEAEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL MGL GM + + + + K+ + Sbjct: 312 DEIKEVLHDMGLDFGMKVDGFEKKYQDWKRKQQNE 346 >gi|149926592|ref|ZP_01914852.1| DNA-directed RNA polymerase subunit alpha [Limnobacter sp. MED105] gi|149824521|gb|EDM83737.1| DNA-directed RNA polymerase subunit alpha [Limnobacter sp. MED105] Length = 326 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 215/326 (65%), Gaps = 9/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +E + N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 6 LLKPRIVEVETV---APNSAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVSIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ D++LN+KGI K+ VT+ + GVVTAGDI+ +D+E++ Sbjct: 63 VHEYSTLDGVQEDVVDLLLNLKGIVFKLESRDVVTVTLKREVEGVVTAGDIELPHDVEII 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P I +DA +SP+K+VSY Sbjct: 123 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGSVRRFPDEPSKAIGRIVLDASFSPVKRVSY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D D+L M+I+T+G ++ E+S+ LA+RIL +QL +F E + ++ Sbjct: 183 AVESARVEQRTDLDRLVMSIETNGVLSPEESIRLAARILVEQLSVFAALEN---TAEPEV 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 240 SQRAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL GL LGM L +WPP +++ Sbjct: 300 IKEVLAARGLTLGMKLENWPPAGLDK 325 >gi|221126761|ref|XP_002164946.1| PREDICTED: similar to alpha subunit of RNA polymerase [Hydra magnipapillata] gi|260222202|emb|CBA31529.1| DNA-directed RNA polymerase subunit alpha [Curvibacter putative symbiont of Hydra magnipapillata] Length = 329 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 160/334 (47%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP +I + Q NR + EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNN---LLKPKSI---SVEQLGPNRAKVALEPFERGYGHTLGNALRRVLLSSMPGFAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNREEVTLSLRKDTEGVVTAADIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NP+HVI NL + M++ V KG GYVP R ++P I +DA +S Sbjct: 115 PHDVEIINPEHVIANLSHGGKLDMQIKVEKGRGYVPGSMRRYADEPNKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSYTVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E + Sbjct: 175 PVRRVSYTVESARVEQRTDLDKLVVEIETNGAVTAEDAVRASAKILVEQLAVFAQLEGSE 234 Query: 239 KEV-KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 LDAFTAPAPRGNTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L WPP S+E+ Sbjct: 295 LGRKSLNEIKEVLASRGLTLGMKLESWPPASLEK 328 >gi|163752127|ref|ZP_02159332.1| DNA-directed RNA polymerase alpha subunit [Shewanella benthica KT99] gi|161327962|gb|EDP99137.1| DNA-directed RNA polymerase alpha subunit [Shewanella benthica KT99] Length = 329 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 143/331 (43%), Positives = 215/331 (64%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P + + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVN---IEQVNPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGLAVVIEGKDEAMLTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+ ++NP+H+IC+L + + M + V +G GYVPA ++ PIG + +DA +S Sbjct: 118 DGDVTIMNPEHIICHLTGNNEISMRIRVERGRGYVPASARAQTEDDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++YTVE+AR Q D DKL + + T+G++ E+++ A+ IL +QL F+ E + Sbjct: 178 PVARIAYTVEAARVEQRTDLDKLVIDMTTNGTLDPEEAIRRAATILAEQLDAFV---ELR 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 235 DVTEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASL 325 >gi|254362772|ref|ZP_04978854.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica PHL213] gi|261492717|ref|ZP_05989265.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica serotype A2 str. BOVINE] gi|261495668|ref|ZP_05992114.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica serotype A2 str. OVINE] gi|153094401|gb|EDN75250.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica PHL213] gi|261308775|gb|EEY10032.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica serotype A2 str. OVINE] gi|261311570|gb|EEY12725.1| DNA-directed RNA polymerase subunit alpha [Mannheimia haemolytica serotype A2 str. BOVINE] Length = 329 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + ++ PIG + +DA + Sbjct: 118 DGDVEIVNPDHVICHLTDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|167855325|ref|ZP_02478093.1| DNA-directed RNA polymerase alpha chain [Haemophilus parasuis 29755] gi|219871571|ref|YP_002475946.1| DNA-directed RNA polymerase subunit alpha [Haemophilus parasuis SH0165] gi|167853583|gb|EDS24829.1| DNA-directed RNA polymerase alpha chain [Haemophilus parasuis 29755] gi|219691775|gb|ACL32998.1| DNA-directed RNA polymerase subunit alpha [Haemophilus parasuis SH0165] Length = 329 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVICNL D +A + M + V +G GYVPA H + ++ PIG + +DA + Sbjct: 118 DGDVEIVNPDHVICNLTDKNASISMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|221064829|ref|ZP_03540934.1| DNA-directed RNA polymerase, alpha subunit [Comamonas testosteroni KF-1] gi|264680560|ref|YP_003280470.1| DNA-directed RNA polymerase, subunit alpha [Comamonas testosteroni CNB-2] gi|299532876|ref|ZP_07046263.1| DNA-directed RNA polymerase subunit alpha [Comamonas testosteroni S44] gi|220709852|gb|EED65220.1| DNA-directed RNA polymerase, alpha subunit [Comamonas testosteroni KF-1] gi|262211076|gb|ACY35174.1| DNA-directed RNA polymerase, alpha subunit [Comamonas testosteroni CNB-2] gi|298719100|gb|EFI60070.1| DNA-directed RNA polymerase subunit alpha [Comamonas testosteroni S44] Length = 332 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 162/337 (48%), Positives = 217/337 (64%), Gaps = 13/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTINVEQLGH---NRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+T+I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVTNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNVRRYGDESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSY VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + Sbjct: 175 PVKRVSYAVESARVEQRTDLDKLVLEIETNGAITAEDAVRASAKILVEQLAVFAQLDGGD 234 Query: 239 KEVKEDINV----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 D + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 IASVFDAPAGGRGAATSFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLK 294 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 TPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 331 >gi|87122790|ref|ZP_01078663.1| DNA-directed RNA polymerase alpha subunit [Marinomonas sp. MED121] gi|86161955|gb|EAQ63247.1| DNA-directed RNA polymerase alpha subunit [Marinomonas sp. MED121] Length = 334 Score = 370 bits (949), Expect = e-100, Method: Composition-based stats. Identities = 157/336 (46%), Positives = 232/336 (69%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ EL+ P NIE + + + R+ + +PL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQRSVSELLTPRNIE---VQEAGKTRSKVTLQPLERGFGHTLGNALRRILLSSMPGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ + + G +T+ K+GPGVVTAGDIQ Sbjct: 58 EVEIDGVLHEYSAIEGVKEDVIEILLNLKGVAIALHGQDEATLTLSKKGPGVVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYS 178 V D E+ NPDHVI +LD A + M++ V++G GY PA E PIG + +DA +S Sbjct: 118 VADAEISNPDHVIAHLDDTAELNMQIKVARGCGYEPADARIASDDETRPIGRLQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY+V++AR Q D DKL + I+++G+I E+++ A+ ILQ Q+ +F+ + Sbjct: 178 PVRRVSYSVDNARVEQRTDLDKLVIDIESNGTIDPEEAIRRAATILQQQIAVFVAL---E 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E ++ + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 SESEQVVEEEEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL GL LGM L +WPP S+++ +K Sbjct: 295 GKKSLTEIKDVLAQRGLSLGMRLENWPPASLKDDSK 330 >gi|163859245|ref|YP_001633543.1| DNA-directed RNA polymerase subunit alpha [Bordetella petrii DSM 12804] gi|229564247|sp|A9IHR6|RPOA_BORPD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|163262973|emb|CAP45276.1| DNA-directed RNA polymerase alpha chain [Bordetella petrii] Length = 328 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 207/328 (63%), Gaps = 7/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G + ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGT---HHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ +D+E Sbjct: 61 GVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKNGAGTVVASDIELPHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 ++NPDH+ICNL V M++ V KG GYVP D I +DA +SP+++V Sbjct: 121 IINPDHLICNLTEAGKVEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E + Sbjct: 181 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDSYEA 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 241 PV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +E Sbjct: 300 NEIKEVLAARGLTLGMKLENWPPLGLER 327 >gi|187476574|ref|YP_784598.1| DNA-directed RNA polymerase subunit alpha [Bordetella avium 197N] gi|119366666|sp|Q2L238|RPOA_BORA1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|115421160|emb|CAJ47644.1| DNA-directed RNA polymerase alpha chain [Bordetella avium 197N] Length = 328 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 148/328 (45%), Positives = 207/328 (63%), Gaps = 7/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G N ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVG---PNHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G+V A DI+ +D+E Sbjct: 61 GVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLILRKNGSGLVLASDIELPHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 ++NP+H ICNL + M++ V KG GYVP D I +DA +SP+++V Sbjct: 121 IVNPEHPICNLTDAGKLEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIILDASFSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E + Sbjct: 181 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDSYEA 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 241 PV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +E Sbjct: 300 NEIKEVLAARGLTLGMKLENWPPLGLER 327 >gi|152978166|ref|YP_001343795.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus succinogenes 130Z] gi|171704199|sp|A6VLL3|RPOA_ACTSZ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|150839889|gb|ABR73860.1| DNA-directed RNA polymerase, alpha subunit [Actinobacillus succinogenes 130Z] Length = 329 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA H + E PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDENASISMRIRVQRGRGYVPASARAHSQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIELETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLDNWPPASIAE 328 >gi|315633479|ref|ZP_07888769.1| DNA-directed RNA polymerase subunit alpha [Aggregatibacter segnis ATCC 33393] gi|315477521|gb|EFU68263.1| DNA-directed RNA polymerase subunit alpha [Aggregatibacter segnis ATCC 33393] Length = 329 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISSTQ---AKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A +I Sbjct: 58 EVEIDGVLHEYSSKEGVQEDIIEVLLNLKGLAVKVQNKDDVLLTLSKSGIGPVVAANITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D +A + M + V +G GYVPA ++ E+ PIG + +DA Y Sbjct: 118 DGDVEIVNPEHVICHLTDENASINMRIRVQRGRGYVPASARTQNQDEDRPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI +++Y VE+AR Q D DKL + ++T+G+I ED++ A+ IL +QL F++ + Sbjct: 178 SPIDRIAYNVEAARVEQRTDLDKLVIELETNGTIDPEDAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|165977221|ref|YP_001652814.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|190151139|ref|YP_001969664.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|303250037|ref|ZP_07336239.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|303253211|ref|ZP_07339360.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|165877322|gb|ABY70370.1| RNA polymerase alpha subunit [Actinobacillus pleuropneumoniae serovar 3 str. JL03] gi|189916270|gb|ACE62522.1| DNA-directed RNA polymerase alpha chain [Actinobacillus pleuropneumoniae serovar 7 str. AP76] gi|302647893|gb|EFL78100.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 2 str. 4226] gi|302651100|gb|EFL81254.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 6 str. Femo] Length = 329 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 151/334 (45%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA + Sbjct: 118 DGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|171060593|ref|YP_001792942.1| DNA-directed RNA polymerase subunit alpha [Leptothrix cholodnii SP-6] gi|238689121|sp|B1Y7M9|RPOA_LEPCP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|170778038|gb|ACB36177.1| DNA-directed RNA polymerase, alpha subunit [Leptothrix cholodnii SP-6] Length = 328 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 155/333 (46%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG +R + EP RGF HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVDPLG---GHRAKVTLEPFERGFGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ I+LN+KG+ ++ + + K G G V A DIQT Sbjct: 55 EVTIAGVLHEYSTVDGVQEDVVHIMLNLKGVVFRLHNRDEVTLVLRKEGEGPVKASDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++P I +DA +S Sbjct: 115 PHDVEIINPDHVIAHLAQGGKLDMQIKVEKGRGYVPGSMRRYADEPTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL M I+T+G+I+ E+++ +++IL +QL +F E Sbjct: 175 PLKRVSYTVESARVEQRTDLDKLVMEIETNGAISPEEAIRASAKILVEQLAVFAQLEGSD 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + E ++ F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 LAIFEAPAPRAQHFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L +WPP+ +++ Sbjct: 295 GRKSLNEIKEVLASRGLTLGARLENWPPQGLDK 327 >gi|158518607|sp|Q6MJ36|RPOA_BDEBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 343 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 160/326 (49%), Positives = 217/326 (66%), Gaps = 2/326 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 K W+E+IKP E ++ I PL RGF TLGN+LRR+L+SS+ G+AITA Sbjct: 6 YKFWREMIKPKGFEVDR-DSLRDDYAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITA 64 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+ +GVLHE ++I V ED+TDIILN+K + K + I K+GPG VTA DIQT Sbjct: 65 VKFEGVLHEFTTIPDVLEDVTDIILNLKEVRFKQYTADSLTLKISKKGPGKVTAADIQTT 124 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IEVLNPD I L +A E+ VS G GYVP +R + P+G I +DALYSPI+K Sbjct: 125 DKIEVLNPDLPIATLGANANFNAEIVVSFGRGYVPV-ENRETDLPVGFIGVDALYSPIRK 183 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y V +AR GQ DYD L++ + TDGS+ E++VAL+S+I+++QL +F+ F+E + + Sbjct: 184 VNYNVSNARVGQRTDYDALTLEVWTDGSLKPEEAVALSSKIMKEQLQIFLTFDETMEPAE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E + S N L + V++LELSVRS NCL+ NI Y+G+L+ R+EA+ML+ NFGRKS Sbjct: 244 EARELGSPTLNENLFRSVDDLELSVRSANCLKNANIRYIGELVVRSEAEMLKTKNFGRKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPES 328 L EIK +LG MGL LGM + WPP Sbjct: 304 LNEIKEILGEMGLGLGMKIEGWPPAG 329 >gi|322515610|ref|ZP_08068589.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus ureae ATCC 25976] gi|322118320|gb|EFX90595.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus ureae ATCC 25976] Length = 329 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +G+ ED+ +++LN+KG+ +K+S +T+ K G G VTA DI Sbjct: 58 EVKIDGVLHEYSSKEGIQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA H + E+ PIG + +DA + Sbjct: 118 DGDVEIVNPDHVICHLTDKNASINMCIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|317485796|ref|ZP_07944660.1| DNA-directed RNA polymerase [Bilophila wadsworthia 3_1_6] gi|316922902|gb|EFV44124.1| DNA-directed RNA polymerase [Bilophila wadsworthia 3_1_6] Length = 347 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 154/336 (45%), Positives = 215/336 (63%), Gaps = 1/336 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW +L++P I + EPL RG+ T+GNALRRVL+SSL+GAA A Sbjct: 12 SRNWAKLVRPEQI-VCDSDPNDTMYGKFTYEPLERGYGVTIGNALRRVLLSSLQGAAFVA 70 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+I GV HE ++I GV ED+TD+ILNIK + L M+ D + +T+ G VTA DI T Sbjct: 71 VKISGVQHEFTTIPGVLEDITDVILNIKQVRLGMTTDEPQHLTLSVSKKGPVTAADIMTN 130 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 ++EVLNP+ I L D + ME V G GYVPA H D IGLI +DA +SP++K Sbjct: 131 ANVEVLNPELHIATLTEDMELSMEFEVRMGKGYVPADMHEGLPDTIGLIKLDASFSPVRK 190 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YTVE AR GQ+ +YDKL + + TDGS+ ED++A +++I++DQ+ +FI+F+E Sbjct: 191 VAYTVEQARVGQMTNYDKLILEVWTDGSVLPEDAIAYSAKIIKDQISVFISFDERISGES 250 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 S N L K ++ELELSVR+TNCLR NI +G+L+QR EA+ML+ NFG+KS Sbjct: 251 GGEGGGSADINDNLFKGIDELELSVRATNCLRSANIATVGELVQRPEAEMLKTKNFGKKS 310 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 L EIK VL +MGL GM + ++ + E K++ + Sbjct: 311 LDEIKAVLESMGLDFGMKIDNFEKKYQEWKRKQHHE 346 >gi|257054498|ref|YP_003132330.1| DNA-directed RNA polymerase subunit alpha [Saccharomonospora viridis DSM 43017] gi|256584370|gb|ACU95503.1| DNA-directed RNA polymerase subunit alpha [Saccharomonospora viridis DSM 43017] Length = 358 Score = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 190/318 (59%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILN+K + + D + + K+GPG VTA DI + + V N Sbjct: 61 HEFSTVPGVKEDVTEIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPSGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I +L+ + +EL V +G GYVPA ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PDLHIASLNGKGKLEIELVVERGRGYVPALQNKQAGAEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D+VA A + L + G+ + ++ + + Sbjct: 181 TRVEQRTDFDKLVLDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 ADTIAAYAMPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + P + P Sbjct: 301 LAGLGLTLKDSPPGFDPT 318 >gi|83648827|ref|YP_437262.1| DNA-directed RNA polymerase subunit alpha [Hahella chejuensis KCTC 2396] gi|119366687|sp|Q2S937|RPOA_HAHCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|83636870|gb|ABC32837.1| DNA-directed RNA polymerase, alpha subunit [Hahella chejuensis KCTC 2396] Length = 334 Score = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 147/331 (44%), Positives = 218/331 (65%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P IE + + EPL RGF HTLG+ALRR+L+SS+ G A+ Sbjct: 1 MQRSLNEFLTPRTIEVNQI---NATHAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+++GV ED+ +I+LN+K + +KM +++ K+G G V A DIQ Sbjct: 58 EVEIDGVLHEYSTVEGVQEDVIEILLNLKNLAIKMHNRDEATLSLNKKGAGPVLASDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +D+E+ NPD VICNL+ + V+M+L V++G GY PA + +D I +D+ +S Sbjct: 118 DHDVEIANPDMVICNLNSNGDVKMKLKVARGRGYEPADQRNSADDETRAIGRLQLDSSFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +V+Y VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++F++ Sbjct: 178 PVLRVAYNVESARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLAVFVDFDQQN 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + K + + P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EPEKVEEQEEIDP---ILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPP SI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASI 325 >gi|113460233|ref|YP_718291.1| DNA-directed RNA polymerase subunit alpha [Haemophilus somnus 129PT] gi|170718274|ref|YP_001785292.1| DNA-directed RNA polymerase subunit alpha [Haemophilus somnus 2336] gi|119366686|sp|Q0I137|RPOA_HAES1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|112822276|gb|ABI24365.1| DNA-directed RNA polymerase subunit alpha [Haemophilus somnus 129PT] gi|168826403|gb|ACA31774.1| DNA-directed RNA polymerase, alpha subunit [Haemophilus somnus 2336] Length = 329 Score = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ + +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDIIEVLLNLKGLAVKVQNKDNVFLTLSKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA Y Sbjct: 118 DGDVEIVNPDHVICHLTDENASINMRIRVQRGRGYVPASSRVHSLDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y V++AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVQAARVEQRTDLDKLVIELETNGTIEPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLVSRGLSLGMRLENWPPASIAE 328 >gi|88799194|ref|ZP_01114774.1| DNA-directed RNA polymerase alpha subunit [Reinekea sp. MED297] gi|88778177|gb|EAR09372.1| DNA-directed RNA polymerase alpha subunit [Reinekea sp. MED297] Length = 333 Score = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 152/336 (45%), Positives = 221/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ + + P +I+ + NR + EPL RGF HTLGNALRR+L+SS+ GAAIT Sbjct: 1 MQRSANDFLTPRHIDVQEV---NANRAKITLEPLERGFGHTLGNALRRILLSSMPGAAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+K + +K+ +T+ K G G +TAGDIQ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVQEILLNLKDVAVKLHEREECTLTLRKSGAGTLTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 + +EV NPDHVI +L A V M L V+ G GYVPA+ +E D I +DA +S Sbjct: 118 DHGVEVANPDHVIAHLGSSADVNMTLKVALGRGYVPAEARSSEEDESKPIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +V+Y+VE+AR Q D DKL + ++T+G++ E+++ ++ ILQ Q+ F++ + Sbjct: 178 PVVRVAYSVENARVEQRTDLDKLVIELETNGTLDPEEAIRRSATILQQQVAAFVDLDHQA 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V+E +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 EAVQEKEE---DKIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S++ K Sbjct: 295 GKKSLTEIKDVLASKGLSLGMVLEAWPPASLKNDDK 330 >gi|293602598|ref|ZP_06685041.1| DNA-directed RNA polymerase subunit alpha [Achromobacter piechaudii ATCC 43553] gi|311109576|ref|YP_003982429.1| DNA-directed RNA polymerase subunit alpha [Achromobacter xylosoxidans A8] gi|292818970|gb|EFF78008.1| DNA-directed RNA polymerase subunit alpha [Achromobacter piechaudii ATCC 43553] gi|310764265|gb|ADP19714.1| DNA-directed RNA polymerase, alpha subunit [Achromobacter xylosoxidans A8] gi|317401574|gb|EFV82203.1| DNA-directed RNA polymerase subunit alpha [Achromobacter xylosoxidans C54] Length = 328 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 147/328 (44%), Positives = 205/328 (62%), Gaps = 7/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 Q +KP +IE +G + ++ EP RG+ HTLGNALRR+L+SS+ G A T VQ+ Sbjct: 4 QGFLKPRSIEVEPVGT---HHAKIVMEPFERGYGHTLGNALRRILLSSMTGYAPTEVQMT 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I GV ED+ DI+LN+KG+ K+ + + K G G V A DI+ +D+E Sbjct: 61 GVVHEYSTIPGVREDVVDILLNLKGVVFKLHNRDEVTLVLRKTGAGTVLASDIELPHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 ++NP H ICNL + M++ V KG GYVP D I +DA +SP+++V Sbjct: 121 IINPGHAICNLTDAGKLEMQIKVEKGRGYVPGNVRALSEDRTHTIGRIVLDASFSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL + I+T+G I+ E++V ++RIL DQ+ +F E + Sbjct: 181 SYAVESARVEQRTDLDKLVLDIETNGVISPEEAVRQSARILMDQISVFAALEGAGDSYEA 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 241 PV-RGTPQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP +E Sbjct: 300 NEIKEVLAARGLTLGMKLENWPPLGLER 327 >gi|138893810|ref|YP_001124263.1| DNA-directed RNA polymerase subunit alpha [Geobacillus thermodenitrificans NG80-2] gi|196250997|ref|ZP_03149679.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. G11MC16] gi|158513827|sp|A4IJL4|RPOA_GEOTN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|134265323|gb|ABO65518.1| DNA-directed RNA polymerase alpha chain [Geobacillus thermodenitrificans NG80-2] gi|196209469|gb|EDY04246.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. G11MC16] Length = 314 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 142/310 (45%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVEL-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTAIILNVKKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +RM +T +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY V Sbjct: 121 LNPDLHIATLAEGGRLRMRMTARRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQVTDYDKLTIDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E+K Sbjct: 241 EDDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLAELGLSL 310 >gi|254516935|ref|ZP_05128993.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium NOR5-3] gi|219674440|gb|EED30808.1| DNA-directed RNA polymerase, alpha subunit [gamma proteobacterium NOR5-3] Length = 334 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 156/336 (46%), Positives = 221/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +EL+ P I + ++ + R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSSVKELLTPRKIN---VAEKSKTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ L M+G + + K G G VTA DIQT Sbjct: 58 EVEIDGVLHEYSAIEGVQEDVIEILLNLKGVALIMNGKDEAELVLSKEGEGPVTAADIQT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +DIE+ NPDH+IC L+ + V M+LTV++G GY PA + I +DA +S Sbjct: 118 DHDIEICNPDHLICTLNSKSAVHMKLTVARGRGYSPADARENPEEETRSIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VE+AR Q D DKL + ++T+G+I E+++ A+ IL DQL +F++ + Sbjct: 178 PVLRVSYVVEAARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILNDQLRVFVDLQSET 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V D +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 QAVTSDAE---DEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S+ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASLRNDEK 330 >gi|304310040|ref|YP_003809638.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium HdN1] gi|301795773|emb|CBL43972.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium HdN1] Length = 334 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 143/338 (42%), Positives = 219/338 (64%), Gaps = 8/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I + + + EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQRSVSEFLTPKSIAVQQV---TATQAKVTLEPLERGFGHTLGNALRRILLSSMPGAAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ D++LN+K + +KM ++I K GPG+VTAGDI+ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVLDVLLNLKNVAVKMQDRDEAFLSISKEGPGLVTAGDIKC 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 179 ++++N H+I NL + M + V +G GY PA+ E+ IG + +DA +SP Sbjct: 118 DASVDIVNKAHIIANLSAGTKLNMRVKVVRGRGYCPAEAQLEADESKTIGRLMLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E+ Sbjct: 178 VRRVAYVVENARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATILQQQLSIFVDLEKESL 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +P LL+ V++LEL+VRS NCL+ EN+ Y+GDL+QRTE ++L+ N G Sbjct: 238 PEPVEE---REEIDPILLRPVDDLELTVRSANCLKAENVYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 +KSL EIK VL + GL LGM L +WPP S+++ + + Sbjct: 295 KKSLTEIKDVLASKGLSLGMRLENWPPASLKDDDRVLK 332 >gi|253995744|ref|YP_003047808.1| DNA-directed RNA polymerase subunit alpha [Methylotenera mobilis JLW8] gi|253982423|gb|ACT47281.1| DNA-directed RNA polymerase, alpha subunit [Methylotenera mobilis JLW8] Length = 328 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ VL R + EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVL---SPLRARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S++ GV ED+ DI+LN+KG+ LK++ S + + K GVVTA D +T Sbjct: 58 EVKIDGVVHEYSTLDGVQEDVVDILLNLKGVALKLNSKSETILKLNKSVEGVVTAADFET 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D E++NPDHVI +L + +E+ V G GY P + E+ +G I +DA +S Sbjct: 118 GHDAEIVNPDHVIAHLTKGGKLNLEVKVEIGRGYQPVPVRQKSNDEDRVLGFIMVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KVSY V+SAR Q D DKL M ++T+G I E ++ A+RIL QL +F + E Sbjct: 178 PINKVSYYVDSARVEQRTDLDKLVMDVETNGVIEPEQAIRDAARILMGQLSVFADLEGAP 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVEV---KSAPQVDPVLLRPVDDLELTVRSANCLKAENIFYIGDLIQRTENELLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL T GL LGM L +WPP +E+ Sbjct: 295 GRKSLNEIKDVLATRGLTLGMKLENWPPVGLEK 327 >gi|304405589|ref|ZP_07387248.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus curdlanolyticus YK9] gi|304345628|gb|EFM11463.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus curdlanolyticus YK9] Length = 314 Score = 368 bits (946), Expect = e-100, Method: Composition-based stats. Identities = 141/313 (45%), Positives = 208/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVELTDNG-TYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+KG++LK+ D K + I G G VTAGDI+ +D+E+ Sbjct: 61 VLHEFSTVPGVIEDVTEIILNLKGLSLKIHSDEEKVLEIDAEGEGNVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A + M + ++G GYVPA ++ E+ PIG+I +D++Y+PI +V+Y+V Sbjct: 121 LNPDLHIATLASGARLHMRVFANRGRGYVPADRNKKEDQPIGVIPVDSIYTPITRVNYSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGSIRPEEAVSLGAKILTEHLDLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +LI +TE DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELITKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L M Sbjct: 301 EKLEELGLGLRME 313 >gi|331699145|ref|YP_004335384.1| DNA-directed RNA polymerase subunit alpha [Pseudonocardia dioxanivorans CB1190] gi|326953834|gb|AEA27531.1| DNA-directed RNA polymerase subunit alpha [Pseudonocardia dioxanivorans CB1190] Length = 347 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 190/318 (59%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----DSVTETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGPVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGRLEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + + Sbjct: 181 TRVEQRTDFDKLVLDVETKPSITPRDALASAGKTLVELFGLARELNVDAEGIEIGPSPQE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +EEL+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 ADTIAAFAMPIEELDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + P + P Sbjct: 301 LVGLGLALKDSPPGFDPS 318 >gi|91205853|ref|YP_538208.1| DNA-directed RNA polymerase subunit alpha [Rickettsia bellii RML369-C] gi|119366720|sp|Q1RHP5|RPOA_RICBR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91069397|gb|ABE05119.1| DNA-directed RNA polymerase alpha chain [Rickettsia bellii RML369-C] Length = 341 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 181/338 (53%), Positives = 247/338 (73%), Gaps = 4/338 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIK + + Y + N++ +I EPL RGF TLGNA+RRVL+SSL+GAA+T Sbjct: 4 LSKNWNALIKTDKVSYESFPE-TNNKSKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAVT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I G+ HE SSI GV ED+++IILN+KGI +KM + + + GPG +TAG I+ Sbjct: 63 SIKIPGIEHEFSSIPGVKEDISEIILNVKGIEIKMHVAEKRVIRLKATGPGAITAGMIEA 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +D+E+LNPDHVICNL + MELT G GY + ++ +N+ PIG I IDAL++P+ Sbjct: 123 GHDVEILNPDHVICNLAKNKQFEMELTCKVGKGYTLSTNNNEDNNLPIGEIAIDALFNPV 182 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K V+Y VE+ R GQV DYDKL M ++T+G I E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEE--QE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGR Sbjct: 241 EDKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 301 KSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >gi|317123070|ref|YP_004103073.1| DNA-directed RNA polymerase subunit alpha [Thermaerobacter marianensis DSM 12885] gi|315593050|gb|ADU52346.1| DNA-directed RNA polymerase subunit alpha [Thermaerobacter marianensis DSM 12885] Length = 315 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 129/311 (41%), Positives = 202/311 (64%), Gaps = 2/311 (0%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP IE + + E+ + EPL RG+ TLGNALRRVL+SSL GAA+T+V+I+ Sbjct: 2 NEMEKPT-IETVEI-SEDGTYGRFVVEPLERGYGITLGNALRRVLLSSLPGAAVTSVRIE 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV ED T+IILN+K + +KM D + + + +G G V A DI ++E Sbjct: 60 GVLHEFSTIPGVVEDTTEIILNLKELAIKMHTDEPQILRVEAQGEGEVRAADIIAPPEVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N DH+I L+ D + ME+TV +G GYVPA ++ + IGLI +D++++PI+KV++ Sbjct: 120 IVNGDHLIATLEHDGRLFMEMTVQRGRGYVPADRNKGPDRSIGLIPVDSIFTPIRKVNFQ 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R G+V DYD+L++ I T+G++ +++ + A+RIL D L +F+ + + Sbjct: 180 VENTRVGKVTDYDRLTLEIWTNGTVAPDEAASQAARILTDHLALFLTLTDQTRGAGTAAE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L ++EL+LSVRS NCL+ I +G+L+++T DM+R+ N G+KSL E+ Sbjct: 240 KEDDARAKLLEMSIDELDLSVRSYNCLKRAGINTIGELVEKTPEDMMRVRNLGKKSLEEV 299 Query: 307 KGVLGTMGLFL 317 + L +GL L Sbjct: 300 EEKLAALGLSL 310 >gi|237653970|ref|YP_002890284.1| DNA-directed RNA polymerase subunit alpha [Thauera sp. MZ1T] gi|237625217|gb|ACR01907.1| DNA-directed RNA polymerase, alpha subunit [Thauera sp. MZ1T] Length = 326 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 153/333 (45%), Positives = 219/333 (65%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I+ + + + EP RGF HTLGNALRR+L+SSL G A T Sbjct: 1 MQSN--ALLKPRIID---VQSTSPVQARVTMEPFERGFGHTLGNALRRILLSSLPGHAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I+GVLHE S++ GV ED+ D++LN+KG+ K++G S V + K G GVVTA DI+ Sbjct: 56 EVTIEGVLHEYSTLDGVREDIVDLLLNLKGVVFKLNGRSEVTVRLAKAGEGVVTAADIEV 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 +D+E++NPDHVI +L + M++ V +G GYVP ++ E+ IG + +DA + P Sbjct: 116 GHDVEIINPDHVIAHLAPGGKLDMQIKVEEGRGYVPGNSRPENAESKSIGRVVLDASFGP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VSY VESAR Q D D+L + I+T+G++ E+++ A+R+L DQL +F + E Sbjct: 176 VRRVSYLVESARVEQRTDLDRLIIDIETNGAVDPEEAIRYAARVLMDQLSVFADLEGTAP 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + S +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 236 E---RVEAASPTIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 RKSL EIK VL + GL LGM L +WPP +E+L Sbjct: 293 RKSLNEIKEVLASRGLTLGMKLENWPPAGLEKL 325 >gi|113869405|ref|YP_727894.1| DNA-directed RNA polymerase subunit alpha [Ralstonia eutropha H16] gi|194290997|ref|YP_002006904.1| DNA-directed RNA polymerase subunit alpha [Cupriavidus taiwanensis LMG 19424] gi|123328832|sp|Q0K645|RPOA_RALEH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238692784|sp|B3R7E3|RPOA_CUPTR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|57506670|dbj|BAD86667.1| RNA polymerase alpha subunit [Cupriavidus necator] gi|113528181|emb|CAJ94526.1| DNA-directed RNA polymerase alpha subunit [Ralstonia eutropha H16] gi|193224832|emb|CAQ70843.1| RNA polymerase, alpha subunit; RNA polymerase alpha chain family [Cupriavidus taiwanensis LMG 19424] Length = 326 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 146/326 (44%), Positives = 212/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKDGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ + I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSAGGKLDMQIKVEQGRGYVPGNVRKFGDESGKVIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+TDG I+ E+++ ++RIL DQL +F E + + Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAALEGTESAAEAAS 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 242 SR-TPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|297537556|ref|YP_003673325.1| DNA-directed RNA polymerase subunit alpha [Methylotenera sp. 301] gi|297256903|gb|ADI28748.1| DNA-directed RNA polymerase, alpha subunit [Methylotenera sp. 301] Length = 328 Score = 368 bits (944), Expect = e-100, Method: Composition-based stats. Identities = 158/333 (47%), Positives = 217/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ VL R + EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVL---SPLRARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S++ GV ED+ DI+LN+KG+ LK++ S + + K GVVTAGD +T Sbjct: 58 EVKIDGVVHEYSTLDGVQEDVVDILLNLKGVALKLNTKSETILVLNKSVEGVVTAGDFET 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D E++NPDHVI +L + +E+ V+ G GY P + E+ +G I +DA +S Sbjct: 118 GHDAEIVNPDHVIAHLTKGGKLNLEVKVAMGRGYQPVPARQKANEEDRVLGFIMVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KVSY VESAR Q D DKL M ++T+G I E ++ A+RIL QL +F + E Sbjct: 178 PINKVSYQVESARVEQRTDLDKLVMDVETNGVIEPEQAIRDAARILMGQLSVFADLEGAP 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 SEVEV---KSAPQVDPILLRPVDDLELTVRSANCLKAENIFYIGDLIQRTENELLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL T GL LGM L +WPP +E+ Sbjct: 295 GRKSLNEIKDVLATRGLTLGMKLENWPPVGLEK 327 >gi|116624174|ref|YP_826330.1| DNA-directed RNA polymerase subunit alpha [Candidatus Solibacter usitatus Ellin6076] gi|122253110|sp|Q01WC0|RPOA_SOLUE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116227336|gb|ABJ86045.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Solibacter usitatus Ellin6076] Length = 347 Score = 368 bits (944), Expect = e-100, Method: Composition-based stats. Identities = 142/317 (44%), Positives = 205/317 (64%), Gaps = 1/317 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++ KP + E + A+P RGF T+GN+LRRVL+SS+ GAAITAV+I Sbjct: 2 FKGFQKPKRL-VANTETLTERYGMFTAQPFQRGFGTTIGNSLRRVLLSSIEGAAITAVRI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GV HE S I GV ED TDIILN+K I K+S D K V + G V +G I+T D+ Sbjct: 61 EGVEHEFSPIPGVVEDATDIILNLKQIPFKISSDGIKTVRLSVDSHGDVRSGQIETDADV 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVL+ D + + + +E+ + G GYV A + E+ +G I ID+++SP++KV++ Sbjct: 121 EVLDRDVHVATVSEGGKLNIEMRLKSGRGYVSADKNFDEDLALGYIPIDSVHSPVRKVNF 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR GQ+ DYDKL++ + T+G+++ +DS+ A+++L+D + +FINFEE ++ +E Sbjct: 181 AVEAARLGQMTDYDKLTLEVWTNGAVSPQDSIGYAAKLLKDHMTIFINFEEVPEQTEEIS 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N L + VEELELSVRS NCL+ NI +G+L+Q+TEA+MLR NFGRKSL E Sbjct: 241 ERGMDKMNEVLNRSVEELELSVRSYNCLKNANIQSIGELVQKTEAEMLRTKNFGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLP 322 IK +L MGL LGM + Sbjct: 301 IKEILANMGLSLGMRID 317 >gi|157826787|ref|YP_001495851.1| DNA-directed RNA polymerase subunit alpha [Rickettsia bellii OSU 85-389] gi|166229277|sp|A8GVD7|RPOA_RICB8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157802091|gb|ABV78814.1| DNA-directed RNA polymerase subunit alpha [Rickettsia bellii OSU 85-389] Length = 341 Score = 368 bits (944), Expect = e-100, Method: Composition-based stats. Identities = 182/338 (53%), Positives = 247/338 (73%), Gaps = 4/338 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + KNW LIK + + Y E N++ +I EPL RGF TLGNA+RRVL+SSL+GAA+T Sbjct: 4 LSKNWNALIKTDKVSYESF-HETNNKSKIIVEPLERGFGLTLGNAMRRVLLSSLQGAAVT 62 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I G+ HE SSI GV ED+++IILN+KGI +KM + + + GPG +TAG I+ Sbjct: 63 SIKIPGIEHEFSSIPGVKEDISEIILNVKGIEIKMHVAEKRVIRLKATGPGAITAGMIEA 122 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +D+E+LNPDHVICNL + MELT G GY + ++ +N+ PIG I IDAL++P+ Sbjct: 123 GHDVEILNPDHVICNLAKNKQFEMELTCKVGKGYTLSTNNNEDNNLPIGEIAIDALFNPV 182 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K V+Y VE+ R GQV DYDKL M ++T+G I E +V LA+RILQ+QL +FI+FEE +E Sbjct: 183 KSVTYKVENTRIGQVTDYDKLIMFVETNGDILPEMAVGLAARILQEQLQLFISFEE--QE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +LPF+P LLK+V+ELELSVRS NCL+ +NI+Y+GDL++RTEADMLR NFGR Sbjct: 241 EDKQVKTDALPFSPYLLKRVDELELSVRSANCLKNDNIIYIGDLVKRTEADMLRTPNFGR 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L L GM++PDWPPE+I EL+K+YED Sbjct: 301 KSLNEIKEILAKFSLRFGMDVPDWPPENIHELSKRYED 338 >gi|330432099|gb|AEC17158.1| DNA-directed RNA polymerase subunit alpha [Gallibacterium anatis UMN179] Length = 327 Score = 368 bits (944), Expect = e-100, Method: Composition-based stats. Identities = 145/332 (43%), Positives = 219/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVDIEQI---SPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVFLTLTKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA-KHHRTENDPIGLITIDALYSP 179 D+E++NPDH+IC+L D +A + M + V +G GY+PA E PIG + +DA YSP Sbjct: 118 DGDVEIVNPDHIICHLTDENASINMRIRVQRGRGYIPASSRTHDEERPIGRLLVDACYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ Sbjct: 178 VDRIAYNVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRQ 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 P---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPASIAE 326 >gi|332107893|gb|EGJ09117.1| DNA-directed RNA polymerase subunit alpha [Rubrivivax benzoatilyticus JA2] Length = 328 Score = 368 bits (944), Expect = e-100, Method: Composition-based stats. Identities = 150/326 (46%), Positives = 210/326 (64%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + R + EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPKAI---HVEPLGGYRAKAVLEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+I GV ED+ I+LN+KG+ ++ + + K G G VTA DIQT +D+E++ Sbjct: 62 LHEYSAIDGVQEDVVHIMLNLKGVVFRLHNRDEVTLVLRKEGEGAVTAADIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++ I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNLRRYGDEATKAIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR Q D DKL M I+T+G+IT E+++ +++IL +QL +F E ++ E Sbjct: 182 AVENARVEQRTDLDKLVMEIETNGAITPEEAIRQSAKILVEQLAVFAQLEGQVSDIFEPQ 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 242 PQRTPNFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTETELLKTPNLGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LG L +WPP+ +++ Sbjct: 302 IKEVLASRGLTLGARLENWPPQGLDK 327 >gi|295401893|ref|ZP_06811856.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus thermoglucosidasius C56-YS93] gi|312109288|ref|YP_003987604.1| DNA-directed RNA polymerase, subunit alpha [Geobacillus sp. Y4.1MC1] gi|294976023|gb|EFG51638.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus thermoglucosidasius C56-YS93] gi|311214389|gb|ADP72993.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. Y4.1MC1] Length = 314 Score = 368 bits (944), Expect = e-99, Method: Composition-based stats. Identities = 142/310 (45%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKPR-IETVEI-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTAIILNIKKLALKIYSDEEKTLEIDAQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +RM +T +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAEGGRLRMRMTAKRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVAYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + TDGSI ++++AL ++IL + L +F++ + + + + Sbjct: 181 ENTRVGQVTDYDKLTIDVWTDGSIGPKEAIALGAKILTEHLNIFVSLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLAELGLSL 310 >gi|251799614|ref|YP_003014345.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus sp. JDR-2] gi|247547240|gb|ACT04259.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. JDR-2] Length = 314 Score = 368 bits (944), Expect = e-99, Method: Composition-based stats. Identities = 138/313 (44%), Positives = 210/313 (67%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVDL-NEDGTYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+KG++LK+ D K + I G G+VTAGDI+ +D+E+ Sbjct: 61 VLHEFSTVPGVIEDVTEIILNLKGLSLKIHSDEEKVLEIDAEGEGIVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A + + + ++G GYV A ++ ++ PIG+I +D++Y+PI +V+Y+V Sbjct: 121 LNPDLHIATLASGARLHLRIFANRGRGYVQADRNKRDDQPIGVIPVDSIYTPITRVNYSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGSIRPEEAVSLGAKILTEHLDLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +LI ++E DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELITKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L M Sbjct: 301 EKLEELGLGLRME 313 >gi|239905884|ref|YP_002952623.1| DNA-directed RNA polymerase alpha subunit [Desulfovibrio magneticus RS-1] gi|259494168|sp|C4XLK3|RPOA_DESMR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|239795748|dbj|BAH74737.1| DNA-directed RNA polymerase alpha subunit [Desulfovibrio magneticus RS-1] Length = 347 Score = 368 bits (944), Expect = e-99, Method: Composition-based stats. Identities = 156/337 (46%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW EL+KP ++ E + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 12 SRNWTELVKPEVLD--KDPSSTETFGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVA 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +I+GV HE S+I GV ED+T+IILN+K + L M+ D +R+T+ + G V A IQ Sbjct: 70 ARIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMATDEPQRLTLLAKEKGEVRASAIQGN 129 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +++ VL+ D +I L D R++L V G GYVPA H IGLI +DA +SP+KK Sbjct: 130 HNVSVLSEDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLESEIGLILLDASFSPVKK 189 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YT+E AR GQ+ +YDKL + + TDGSI ED+++ +++IL+DQL +FINF+E + E + Sbjct: 190 VAYTIEQARVGQMTNYDKLVLEVTTDGSIAPEDAISYSAKILKDQLTVFINFDEKESEAE 249 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KS Sbjct: 250 KNRRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTEHEMLKTKNFGKKS 309 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 310 FEEIRRVLEDMGLEFGMRIENFDQKYQEWLKRKQTDE 346 >gi|124268601|ref|YP_001022605.1| DNA-directed RNA polymerase subunit alpha [Methylibium petroleiphilum PM1] gi|158512865|sp|A2SLD1|RPOA_METPP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|124261376|gb|ABM96370.1| DNA-directed RNA polymerase [Methylibium petroleiphilum PM1] Length = 333 Score = 367 bits (943), Expect = e-99, Method: Composition-based stats. Identities = 154/335 (45%), Positives = 216/335 (64%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +Q N L+KP I L + +R + EP RG+ HTLGNALRRVL+SS+ G A Sbjct: 1 MQTN---LLKPKAINVEPLSAAKGAHRAKVTLEPFERGYGHTLGNALRRVLLSSMVGYAP 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T V I GVLHE S+I GV ED+ ++LN+KG+ ++ + + K G G V AGDIQ Sbjct: 58 TEVTIAGVLHEYSAIDGVQEDVVHVMLNLKGVVFRLHNRDEVTLVLRKEGEGPVKAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALY 177 T +D+E++NPDHVI +L + M++ V KG GYVP R ++P I +DA + Sbjct: 118 TPHDVEIINPDHVITHLSQGGKLDMQIKVEKGRGYVPGTMRRFGDEPTKSIGRIVLDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++VSYTVESAR Q D DKL M I+T+G+IT E+++ +++IL +QL +F E Sbjct: 178 SPVRRVSYTVESARVEQRTDLDKLVMEIETNGAITPEEAIRASAKILVEQLAVFAQLEGQ 237 Query: 238 KKEV-KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ +S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 238 INDIFDAQPAQRSTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTETELLKTP 297 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LG L +WPP+ +++ Sbjct: 298 NLGRKSLNEIKEVLASRGLTLGGRLENWPPQGLDK 332 >gi|78357274|ref|YP_388723.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] gi|90110839|sp|Q30Z68|RPOA_DESDG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78219679|gb|ABB39028.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio desulfuricans subsp. desulfuricans str. G20] Length = 348 Score = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 148/336 (44%), Positives = 217/336 (64%), Gaps = 1/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP+ I + + EPL RG+ T+GNA+RRVL++SL+GAA AV Sbjct: 13 RNWSELVKPDQISRAS-ESADTMYGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAFVAV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TDI+LN+K + L M + + + + G V AGDI+ Sbjct: 72 KISGVQHEFTTIPGVLEDVTDIVLNLKQVRLAMDTEEPQHLELHVNKSGEVKAGDIKCNQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + VLN D + L D + EL V G GYVPA H +D IGLI +DA +SP++KV Sbjct: 132 HVMVLNADQHLMTLTEDVELTFELEVRMGKGYVPADMHEGLSDEIGLIALDASFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YDKL + + TDGSI+ ED++A +++I++DQ+ +FINF+E E + Sbjct: 192 AYTVEQARVGQMTNYDKLILEVWTDGSISPEDAIAYSAKIIKDQISVFINFDERISEQEN 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + N L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGRKSL Sbjct: 252 EGRSSASDVNENLFKGIDELELSVRATNCLKSANISLVGELVQKSEGEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI+ VLG M L GM + + + E L +K +++ Sbjct: 312 DEIRRVLGEMSLDFGMKVDGFEKKYQEWLKRKQQNE 347 >gi|301057476|ref|ZP_07198572.1| DNA-directed RNA polymerase, alpha subunit [delta proteobacterium NaphS2] gi|300448404|gb|EFK12073.1| DNA-directed RNA polymerase, alpha subunit [delta proteobacterium NaphS2] Length = 388 Score = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 160/336 (47%), Positives = 220/336 (65%), Gaps = 1/336 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW+ELIKP IE + EPL RGF T+GNALRR+L+SSL+GAAI + Sbjct: 6 SRNWRELIKPKRIEIDQ-ETNTSTYGKFVCEPLERGFGITIGNALRRILLSSLQGAAIVS 64 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+ + V+HE SS+ GV ED+TDIILN+K I LK + + + G G+VTAGDI+T Sbjct: 65 VKFEDVVHEFSSMPGVLEDVTDIILNLKEIKLKTLDVEEAVIKVNREGEGIVTAGDIETD 124 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +EVL P I L+ + + ME+ V G GYVPA+ + EN PIG+I IDA +S +KK Sbjct: 125 GSVEVLEPVQHIATLNKEGKLNMEMVVKMGKGYVPAERLKEENTPIGVIAIDATFSCVKK 184 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y V ++R GQV DYDKL++ + TDGS+ ED+VA A++IL++Q+ FINFEE + V+ Sbjct: 185 VNYVVTNSRVGQVTDYDKLTLEVWTDGSVFPEDAVAFAAKILKEQMNPFINFEEEIEPVE 244 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E+ + N L + V +LELSVRS NCL+ I +G+L+Q+T+A+ML+ NFGRKS Sbjct: 245 EEEVREDQEVNENLFRPVSDLELSVRSANCLQNAKINLIGELVQKTDAEMLKTKNFGRKS 304 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 L EIK +L MGL LGM L +PP + + D Sbjct: 305 LNEIKAILSDMGLSLGMKLDFFPPSQESDDEGEKTD 340 >gi|160896495|ref|YP_001562077.1| DNA-directed RNA polymerase subunit alpha [Delftia acidovorans SPH-1] gi|238687179|sp|A9BRX5|RPOA_DELAS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|160362079|gb|ABX33692.1| DNA-directed RNA polymerase, alpha subunit [Delftia acidovorans SPH-1] Length = 332 Score = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 162/337 (48%), Positives = 216/337 (64%), Gaps = 13/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTINVEQLGH---NRAKVVLEPFERGYGHTLGNALRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIINPDHVIANLSQGGKLDMQIKVEKGRGYVPGNVRRYGDESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSY VESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F + Sbjct: 175 PVKRVSYAVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLDGGD 234 Query: 239 KEVKEDINV----KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 D + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 IASVFDAPAGGRGAATAFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLK 294 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 TPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 331 >gi|149912289|ref|ZP_01900860.1| DNA-directed RNA polymerase alpha subunit [Moritella sp. PE36] gi|149804634|gb|EDM64693.1| DNA-directed RNA polymerase alpha subunit [Moritella sp. PE36] Length = 328 Score = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 148/333 (44%), Positives = 218/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVDIEQISS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVLEILLNLKGLAIKLEGKDEALLTLTKSGTGPVLAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E++NP+HVICNL A + M + V+KG GYVPA E PIG + +DA +S Sbjct: 118 DGDVEIINPEHVICNLTGQADISMRIRVAKGRGYVPASTRIQSDDEERPIGRLLVDAAFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VE+AR Q + DKL + ++TDG++ E+++ A+ IL +QL F++ + Sbjct: 178 PVSRIAYNVEAARVEQRTNLDKLVIDMETDGTLDPEEAIRRAATILAEQLDAFVDLRDV- 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 237 --TEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 327 >gi|121592838|ref|YP_984734.1| DNA-directed RNA polymerase subunit alpha [Acidovorax sp. JS42] gi|222109618|ref|YP_002551882.1| DNA-directed RNA polymerase subunit alpha [Acidovorax ebreus TPSY] gi|158513895|sp|A1W333|RPOA_ACISJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765252|sp|B9MBW2|RPOA_ACIET RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120604918|gb|ABM40658.1| DNA-directed RNA polymerase subunit alpha [Acidovorax sp. JS42] gi|221729062|gb|ACM31882.1| DNA-directed RNA polymerase, alpha subunit [Acidovorax ebreus TPSY] Length = 330 Score = 367 bits (943), Expect = 1e-99, Method: Composition-based stats. Identities = 159/335 (47%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVEQLG---PNRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NP+HVI L + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPEHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRYADEATKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 239 KEVKEDI--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LAAFDAPASSRGAATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 NLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >gi|319787901|ref|YP_004147376.1| DNA-directed RNA polymerase subunit alpha [Pseudoxanthomonas suwonensis 11-1] gi|317466413|gb|ADV28145.1| DNA-directed RNA polymerase, alpha subunit [Pseudoxanthomonas suwonensis 11-1] Length = 332 Score = 367 bits (942), Expect = 1e-99, Method: Composition-based stats. Identities = 143/323 (44%), Positives = 214/323 (66%), Gaps = 9/323 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P + L NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVL Sbjct: 9 LRPRGPQIERL---NGNRAKIVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVL 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++G+ ED+ +++LN+K + ++M +++ K+GPGVVTAGDI+T + +E+LN Sbjct: 66 HEYTTVEGLQEDVLEVLLNLKDVAIRMHTGESATLSLAKQGPGVVTAGDIKTDHSVEILN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYT 186 P+HVIC+L D + M L + +G GY PA R ++ I +DA +SP+++V+Y+ Sbjct: 126 PEHVICHLTKDTALNMRLKIERGFGYQPATSRRRPDEETRAIGRLMLDASFSPVRRVAYS 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 186 VEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAQ 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EI Sbjct: 246 AGVDP---VLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEI 302 Query: 307 KGVLGTMGLFLGMNLPDWPPESI 329 K VL GL LGM L +WPP + Sbjct: 303 KEVLAQRGLSLGMKLENWPPAGV 325 >gi|260579894|ref|ZP_05847724.1| DNA-directed RNA polymerase, alpha subunit [Haemophilus influenzae RdAW] gi|260093178|gb|EEW77111.1| DNA-directed RNA polymerase, alpha subunit [Haemophilus influenzae RdAW] Length = 328 Score = 367 bits (942), Expect = 1e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITY 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGDVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|68249398|ref|YP_248510.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 86-028NP] gi|145628303|ref|ZP_01784104.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 22.1-21] gi|145638396|ref|ZP_01794006.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittII] gi|148827991|ref|YP_001292744.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittGG] gi|81336175|sp|Q4QM97|RPOA_HAEI8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172048058|sp|A5UHV5|RPOA_HAEIG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|68057597|gb|AAX87850.1| DNA-directed RNA polymerase alpha chain [Haemophilus influenzae 86-028NP] gi|144980078|gb|EDJ89737.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 22.1-21] gi|145272725|gb|EDK12632.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittII] gi|148719233|gb|ABR00361.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittGG] gi|301169521|emb|CBW29122.1| RNA polymerase, alpha subunit [Haemophilus influenzae 10810] gi|309751536|gb|ADO81520.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae R2866] Length = 328 Score = 367 bits (942), Expect = 1e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGDVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|109897339|ref|YP_660594.1| DNA-directed RNA polymerase subunit alpha [Pseudoalteromonas atlantica T6c] gi|119366709|sp|Q15X48|RPOA_PSEA6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|109699620|gb|ABG39540.1| DNA-directed RNA polymerase subunit alpha [Pseudoalteromonas atlantica T6c] Length = 329 Score = 367 bits (942), Expect = 2e-99, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MSGSVTEFLKPRLVE---IDNVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ Sbjct: 58 EVEIDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVLAGDIQH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 D+E++NP HV+C L +A + M + V G GYVPA R ++ PIG + +DA +S Sbjct: 118 DGDVEIVNPSHVLCTLTGEAELSMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ ++SY VESAR Q D DKL + ++T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PVSRISYNVESARVEQRTDLDKLIIDMETNGTIDPEEAIRRSATILAEQLDAFVELRDMS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V+++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPVEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPPESI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESIAE 327 >gi|119947101|ref|YP_944781.1| DNA-directed RNA polymerase subunit alpha [Psychromonas ingrahamii 37] gi|158513126|sp|A1T0B7|RPOA2_PSYIN RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|119865705|gb|ABM05182.1| DNA-directed RNA polymerase, alpha subunit [Psychromonas ingrahamii 37] Length = 328 Score = 367 bits (942), Expect = 2e-99, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 223/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KPN + + Q R + PL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVIEFLKPNLV---GIEQINATRAKVTLGPLERGFGHTLGNALRRILLSSMPGTAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV HE S+ +GV ED+ +I+LN+KG+ +K+ G + V++ K G G VTAGDI Sbjct: 58 EVEIDGVQHEYSTKEGVQEDILEILLNLKGLAVKLEGKDNVLVSLTKSGAGPVTAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L +A + M + + G GYVPA H + PIG + +DA +S Sbjct: 118 GSDVEIVNPEHVICHLTGNAEISMRIKIESGRGYVPASSRIHTEEDERPIGRLLVDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y+VESAR Q D DKL + ++TDG++ E+++ A+ IL +QL F++ + Sbjct: 178 PVERIAYSVESARVEQRTDLDKLVIDMETDGTLDPEEAIRRAATILAEQLDAFVDLRKVS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V ++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPVAKEEK---PEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASLSE 327 >gi|56418668|ref|YP_145986.1| DNA-directed RNA polymerase subunit alpha [Geobacillus kaustophilus HTA426] gi|261417634|ref|YP_003251316.1| DNA-directed RNA polymerase subunit alpha [Geobacillus sp. Y412MC61] gi|297528509|ref|YP_003669784.1| DNA-directed RNA polymerase subunit alpha [Geobacillus sp. C56-T3] gi|319765292|ref|YP_004130793.1| DNA-directed RNA polymerase, subunit alpha [Geobacillus sp. Y412MC52] gi|61215780|sp|Q5L3R2|RPOA_GEOKA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56378510|dbj|BAD74418.1| DNA-directed RNA polymerase alpha subunit [Geobacillus kaustophilus HTA426] gi|261374091|gb|ACX76834.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. Y412MC61] gi|297251761|gb|ADI25207.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. C56-T3] gi|317110158|gb|ADU92650.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. Y412MC52] Length = 314 Score = 367 bits (942), Expect = 2e-99, Method: Composition-based stats. Identities = 143/310 (46%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVEL-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTAIILNIKKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +RM +T +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY V Sbjct: 121 LNPDLHIATLAEGGRLRMRMTAKRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQVTDYDKLTIDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E+K Sbjct: 241 EDDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLAELGLSL 310 >gi|239825720|ref|YP_002948344.1| DNA-directed RNA polymerase subunit alpha [Geobacillus sp. WCH70] gi|239806013|gb|ACS23078.1| DNA-directed RNA polymerase, alpha subunit [Geobacillus sp. WCH70] Length = 314 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 143/310 (46%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKPR-IETVEI-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTAIILNIKKLALKIYSDEEKTLEIDAQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +RM +T +G GYVPA+ ++ E+ PIG+I ID++Y+P+ +VSY V Sbjct: 121 LNPDLHIATLAEGGRLRMRMTAKRGRGYVPAEANKREDQPIGVIPIDSIYTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + TDGSI ++++AL ++IL + L +F++ + + + + Sbjct: 181 ENTRVGQVTDYDKLTIDVWTDGSIGPKEAIALGAKILTEHLNIFVSLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLAELGLSL 310 >gi|21230388|ref|NP_636305.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|21241761|ref|NP_641343.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas axonopodis pv. citri str. 306] gi|58583181|ref|YP_202197.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas oryzae pv. oryzae KACC10331] gi|66769618|ref|YP_244380.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. campestris str. 8004] gi|78046579|ref|YP_362754.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|84625020|ref|YP_452392.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|166710857|ref|ZP_02242064.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas oryzae pv. oryzicola BLS256] gi|188575514|ref|YP_001912443.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas oryzae pv. oryzae PXO99A] gi|188992830|ref|YP_001904840.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. campestris str. B100] gi|289665161|ref|ZP_06486742.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. vasculorum NCPPB702] gi|294627862|ref|ZP_06706441.1| DNA-directed RNA polymerase alpha subunit [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|294664167|ref|ZP_06729553.1| DNA-directed RNA polymerase alpha subunit [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|325916511|ref|ZP_08178780.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas vesicatoria ATCC 35937] gi|325921505|ref|ZP_08183360.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas gardneri ATCC 19865] gi|325925363|ref|ZP_08186765.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas perforans 91-118] gi|59800197|sp|P0A0Y1|RPOA_XANCP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|59800198|sp|P0A0Y2|RPOA_XANAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|75434358|sp|Q5GWV9|RPOA_XANOR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|81304427|sp|Q4URG3|RPOA_XANC8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110876|sp|Q3BWV9|RPOA_XANC5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366750|sp|Q2P009|RPOA_XANOM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|229564281|sp|B0RU58|RPOA_XANCB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238689542|sp|B2SQT4|RPOA_XANOP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|7709421|gb|AAD00325.2| RNA polymerase ALPHA subunit [Xanthomonas campestris pv. campestris] gi|21107133|gb|AAM35879.1| RNA polymerase alpha subunit [Xanthomonas axonopodis pv. citri str. 306] gi|21111945|gb|AAM40229.1| RNA polymerase alpha subunit [Xanthomonas campestris pv. campestris str. ATCC 33913] gi|58427775|gb|AAW76812.1| RNA polymerase alpha subunit [Xanthomonas oryzae pv. oryzae KACC10331] gi|66574950|gb|AAY50360.1| RNA polymerase alpha subunit [Xanthomonas campestris pv. campestris str. 8004] gi|78035009|emb|CAJ22654.1| DNA directed RNA polymerase (alpha subunit) [Xanthomonas campestris pv. vesicatoria str. 85-10] gi|84368960|dbj|BAE70118.1| RNA polymerase alpha subunit [Xanthomonas oryzae pv. oryzae MAFF 311018] gi|167734590|emb|CAP52800.1| DNA directed RNA polymerase (alpha subunit) [Xanthomonas campestris pv. campestris] gi|188519966|gb|ACD57911.1| DNA-directed RNA polymerase, alpha subunit [Xanthomonas oryzae pv. oryzae PXO99A] gi|292597776|gb|EFF41934.1| DNA-directed RNA polymerase alpha subunit [Xanthomonas fuscans subsp. aurantifolii str. ICPB 11122] gi|292606070|gb|EFF49335.1| DNA-directed RNA polymerase alpha subunit [Xanthomonas fuscans subsp. aurantifolii str. ICPB 10535] gi|325537300|gb|EGD09027.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas vesicatoria ATCC 35937] gi|325544241|gb|EGD15622.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas perforans 91-118] gi|325548052|gb|EGD19051.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas gardneri ATCC 19865] Length = 332 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 141/325 (43%), Positives = 213/325 (65%), Gaps = 9/325 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVL Sbjct: 9 LRPRGPQIERL---TDNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDGVL 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++G+ ED+ D++LN+K + ++M +++ K+GPG VTA DI+T +++E++N Sbjct: 66 HEYTTVEGLQEDVLDVLLNLKDVAIRMHSGDSATLSLSKQGPGTVTAADIRTDHNVEIIN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYT 186 DHVIC+L D + M L + +G GY PA R ++ I +DA +SP+++V+Y Sbjct: 126 GDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRVAYA 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 186 VEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAA 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EI Sbjct: 246 SGVDP---VLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEI 302 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEE 331 K VL GL LGM L +WPP + + Sbjct: 303 KEVLAQRGLALGMKLENWPPAGVAQ 327 >gi|118595310|ref|ZP_01552657.1| DNA-directed RNA polymerase subunit alpha [Methylophilales bacterium HTCC2181] gi|118441088|gb|EAV47715.1| DNA-directed RNA polymerase subunit alpha [Methylophilales bacterium HTCC2181] Length = 328 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 147/333 (44%), Positives = 210/333 (63%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP + ++ + R ++ EP+ RGF TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRIVNVDIVNSQ---RAKVVLEPMERGFGFTLGNALRRVLLSSIPGYAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S+++GV ED+ D++LN+K + LK+ + + + K G VT D Sbjct: 58 EVKIDGVVHEYSTLEGVQEDVVDVLLNLKKVALKIHEGTEATIRLSKSEEGPVTVADFDV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 +D+EV+NP+HVI +L+ + +E V G GY P R E+ IG I IDA +S Sbjct: 118 GHDVEVVNPEHVIAHLNKGGKLNIEAKVEMGRGYQPVPQRRKGPQEDSTIGYIMIDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KVSY VESAR Q D D+L + ++T+G + E ++ A+RIL QL +F N E Sbjct: 178 PINKVSYFVESARVEQRTDLDRLILDVETNGVVDAEQAIRDAARILMGQLSVFANLESEL 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV+ +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQR E+D+L+ N Sbjct: 238 TEVEVQQA---PQIDPVLLRPVDDLELTVRSANCLKAESIYYIGDLIQRNESDLLKAPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK +L T GL LGM + +WPP +E+ Sbjct: 295 GRKSLNEIKDILATKGLSLGMKVENWPPAGVEK 327 >gi|183600727|ref|ZP_02962220.1| hypothetical protein PROSTU_04323 [Providencia stuartii ATCC 25827] gi|188019707|gb|EDU57747.1| hypothetical protein PROSTU_04323 [Providencia stuartii ATCC 25827] Length = 329 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADIVH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDESASINMRIKVQRGRGYVPASARVHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|308048016|ref|YP_003911582.1| DNA-directed RNA polymerase subunit alpha [Ferrimonas balearica DSM 9799] gi|307630206|gb|ADN74508.1| DNA-directed RNA polymerase subunit alpha [Ferrimonas balearica DSM 9799] Length = 330 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 144/334 (43%), Positives = 216/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IDQVSPYRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDVLEILLNLKGLAVKLEGKDEAILTLSKSGAGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+H+IC L DA + M + V G GY+PA + PIG + +DA + Sbjct: 118 DGDVEIVNPEHLICTLTGADAEISMRIKVELGRGYIPASARAQVEEDERPIGRLLVDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + + TDG++ E+++ ++ IL +QL F++ + Sbjct: 178 SPVVRIAYNVEAARVEQRTDLDKLIIDMHTDGTLDPEEAIRRSATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 SEPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 328 >gi|320108368|ref|YP_004183958.1| DNA-directed RNA polymerase subunit alpha [Terriglobus saanensis SP1PR4] gi|319926889|gb|ADV83964.1| DNA-directed RNA polymerase, alpha subunit [Terriglobus saanensis SP1PR4] Length = 366 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 141/318 (44%), Positives = 206/318 (64%), Gaps = 1/318 (0%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 W+ KP + E A+P RGF T+GN LRR L+SS+ GAA+TAV++ Sbjct: 3 WRGFQKPKRLAV-EGETLTEKYGKFSAQPFERGFGTTIGNGLRRTLLSSIEGAAVTAVRL 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE SI GV ED TDIILN+K I K++G+ K + + PGVVT+G I+ D+ Sbjct: 62 EGVLHEFQSITGVVEDATDIILNLKQIPFKLNGEGPKALYLRVDQPGVVTSGMIEADGDV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+L+ D I + + ME+ + +G GYV A + + IG I +D+++SP++KV+Y Sbjct: 122 EILDKDVYIATVSEGGKMDMEMRLKRGRGYVSADKNFDPDLGIGFIPVDSVHSPVRKVNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TV++AR GQ+ DYDKL++ I T+G++ D++ L++++L+D + +FINFEE + + Sbjct: 182 TVDAARLGQITDYDKLTIEIWTNGTVLPADALGLSAKLLKDHMTIFINFEEEMEAGLDGS 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + N L + VEELELSVRS NCL+ NI +G+LIQ+TEA+ML+ NFGRKSL E Sbjct: 242 HDGPAMRNDNLNRSVEELELSVRSYNCLKNANIATIGELIQKTEAEMLKTKNFGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPD 323 IK +L MGL LGM + + Sbjct: 302 IKEILAQMGLSLGMKIDE 319 >gi|16272744|ref|NP_438962.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae Rd KW20] gi|1173145|sp|P43737|RPOA_HAEIN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|1573813|gb|AAC22461.1| DNA-directed RNA polymerase, alpha chain (rpoA) [Haemophilus influenzae Rd KW20] Length = 328 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITY 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGDVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFXPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|134096296|ref|YP_001101371.1| DNA-directed RNA polymerase subunit alpha [Herminiimonas arsenicoxydans] gi|158513574|sp|A4G9R3|RPOA_HERAR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|133740199|emb|CAL63250.1| RNA polymerase, alpha subunit [Herminiimonas arsenicoxydans] Length = 325 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 153/333 (45%), Positives = 212/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVEVLGAG---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI+ Sbjct: 55 EVTIAGVVHEYSSLDGVQEDVVDLLLNLKGVVFKLHNRDDVTLTLKKEGEGAVLASDIEL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R D I +DA +S Sbjct: 115 PHDVELVNPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VESAR Q D DKL + I+T+G IT E+++ ++R+L DQL +F E Sbjct: 175 PVRRVSYAVESARVEQRTDLDKLVINIETNGVITPEEAIRQSARVLVDQLNVFAALE--G 232 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E D ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 233 TEAPADAPSRAPAVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >gi|134103231|ref|YP_001108892.1| DNA-directed RNA polymerase subunit alpha [Saccharopolyspora erythraea NRRL 2338] gi|291007977|ref|ZP_06565950.1| DNA-directed RNA polymerase subunit alpha [Saccharopolyspora erythraea NRRL 2338] gi|158513554|sp|A4FPJ2|RPOA_SACEN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|133915854|emb|CAM05967.1| DNA-directed RNA polymerase, alpha subunit [Saccharopolyspora erythraea NRRL 2338] Length = 359 Score = 366 bits (941), Expect = 2e-99, Method: Composition-based stats. Identities = 125/307 (40%), Positives = 185/307 (60%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV E Sbjct: 12 EAVAETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTTIPGVKE 71 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+TD+ILN+K + + D + + K+GPG VTA DI + V NPD I L+ Sbjct: 72 DVTDVILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIATLNGK 131 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DK Sbjct: 132 GKLEIELVVERGRGYVPAVQNKQTGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDK 191 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T SIT D+VA A R L + G+ + ++ + A + Sbjct: 192 LILDVETKPSITPRDAVASAGRTLVELFGLARELNVDAEGIEIGPSPAEADTIAAYAMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + Sbjct: 252 EDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLSLKDS 311 Query: 321 LPDWPPE 327 P + P Sbjct: 312 PPGFDPS 318 >gi|241763535|ref|ZP_04761587.1| DNA-directed RNA polymerase, alpha subunit [Acidovorax delafieldii 2AN] gi|241367266|gb|EER61606.1| DNA-directed RNA polymerase, alpha subunit [Acidovorax delafieldii 2AN] Length = 330 Score = 366 bits (940), Expect = 2e-99, Method: Composition-based stats. Identities = 161/335 (48%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVEQLGH---NRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPDHVIANLSAGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 239 KEVKEDI--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LAAFDAPAGPRGNATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 NLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >gi|158317764|ref|YP_001510272.1| DNA-directed RNA polymerase subunit alpha [Frankia sp. EAN1pec] gi|158113169|gb|ABW15366.1| DNA-directed RNA polymerase, alpha subunit [Frankia sp. EAN1pec] Length = 375 Score = 366 bits (940), Expect = 2e-99, Method: Composition-based stats. Identities = 124/308 (40%), Positives = 186/308 (60%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVLHE S++ GV E Sbjct: 38 DPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVLHEFSTVPGVKE 97 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+TD+ILN+K + + D + + K+GPG VTA DI +EV NPD + L+ Sbjct: 98 DVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHNPDLHLATLNDK 157 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ R Q D+D+ Sbjct: 158 GKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEATRVEQRTDFDR 217 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T SI+ D++A A + L G+ + V + L + Sbjct: 218 LIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAADAALAADLALPI 277 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K LG MGL L + Sbjct: 278 EEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTKLGAMGLQLKDS 337 Query: 321 LPDWPPES 328 P + P Sbjct: 338 PPGFDPRQ 345 >gi|221133740|ref|ZP_03560045.1| DNA-directed RNA polymerase subunit alpha [Glaciecola sp. HTCC2999] Length = 326 Score = 366 bits (940), Expect = 2e-99, Method: Composition-based stats. Identities = 145/330 (43%), Positives = 222/330 (67%), Gaps = 9/330 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E +KP ++ + R ++ EPL RGF HTLGNALRR+L+SS+ G A+T V+ Sbjct: 3 SVTEFLKPRLVD---IENVSPTRAKVVLEPLERGFGHTLGNALRRILLSSMPGVAVTEVE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ D Sbjct: 60 IDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGAVVAGDIQHDGD 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIK 181 +E++NP+HVIC L +A V M + V G GYVPA + ++ PIG + +DA +SP++ Sbjct: 120 VEIINPEHVICTLTGEAEVSMRIKVETGRGYVPASVRRSSEEDDRPIGRLLVDASFSPVE 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +++Y+VESAR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + Sbjct: 180 RIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSQPE 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ F+P LL+ V++LEL+VRS NCL+ E + Y+GDL+QRTE ++L+ N G+K Sbjct: 240 AKEEK---PEFDPILLRPVDDLELTVRSANCLKAEAVQYIGDLVQRTEVELLKTPNLGKK 296 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPPESI + Sbjct: 297 SLTEIKDVLASRGLSLGMRLENWPPESIAD 326 >gi|89902964|ref|YP_525435.1| DNA-directed RNA polymerase subunit alpha [Rhodoferax ferrireducens T118] gi|119366714|sp|Q21QP9|RPOA_RHOFD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|89347701|gb|ABD71904.1| DNA-directed RNA polymerase, alpha subunit [Rhodoferax ferrireducens T118] Length = 329 Score = 366 bits (940), Expect = 2e-99, Method: Composition-based stats. Identities = 159/334 (47%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP I +G NR + EP RG+ HTLGNALRRVL++S+ G A T Sbjct: 1 MQNS---LLKPKAINVEQMG---GNRAKVALEPFERGYGHTLGNALRRVLLASMPGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G+VTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGLVTASDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++P I +DA +S Sbjct: 115 PHDVEIINPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTMRRHGDEPTKSIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+I+ ED+V +++IL +QL +F E + Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVDIETNGAISAEDAVRASAKILVEQLAVFAQLEGSE 234 Query: 239 KEVKEDINVK-SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 LAAFDTPSPRGSTQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L WPP ++E+ Sbjct: 295 LGRKSLNEIKEVLASRGLTLGMKLESWPPAALEK 328 >gi|88704351|ref|ZP_01102065.1| DNA-directed RNA polymerase alpha chain [Congregibacter litoralis KT71] gi|88701402|gb|EAQ98507.1| DNA-directed RNA polymerase alpha chain [Congregibacter litoralis KT71] Length = 334 Score = 366 bits (940), Expect = 2e-99, Method: Composition-based stats. Identities = 153/336 (45%), Positives = 221/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + ++L+ P I + ++ + R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSSVKDLLTPRKIN---VAEKSKTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ L M+G + + K G G VTA DIQT Sbjct: 58 EVEIDGVLHEYSAIEGVQEDVIEILLNLKGVALIMNGKDEAELVLSKEGEGPVTAADIQT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +DIE+ NP+H+IC L+ + V M+LT+++G GY PA + I +DA +S Sbjct: 118 DHDIEICNPEHLICTLNSKSAVHMKLTIARGRGYSPADARENPEEETRSIGRLQLDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VE+AR Q D DKL + ++T+G+I E+++ A+ IL DQL +F++ + Sbjct: 178 PVMRVSYVVEAARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILNDQLRVFVDLQSET 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V D +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 QAVTSDAE---DEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L WPP S+ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLESWPPASLRNDEK 330 >gi|212709004|ref|ZP_03317132.1| hypothetical protein PROVALCAL_00036 [Providencia alcalifaciens DSM 30120] gi|212688370|gb|EEB47898.1| hypothetical protein PROVALCAL_00036 [Providencia alcalifaciens DSM 30120] Length = 329 Score = 366 bits (940), Expect = 3e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDESASINMRIKVQRGRGYVPASARVHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|260581619|ref|ZP_05849416.1| DNA-directed RNA polymerase, alpha subunit [Haemophilus influenzae NT127] gi|260095212|gb|EEW79103.1| DNA-directed RNA polymerase, alpha subunit [Haemophilus influenzae NT127] Length = 328 Score = 366 bits (940), Expect = 3e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGDVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERITYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|332175074|gb|AEE24328.1| DNA-directed RNA polymerase, alpha subunit [Glaciecola agarilytica 4H-3-7+YE-5] Length = 329 Score = 366 bits (940), Expect = 3e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 219/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MSGSVTEFLKPRLVE---IDNVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ Sbjct: 58 EVEIDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVLAGDIQH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYS 178 D+E++NP HV+C L +A + M + V G GYVPA R ++ PIG + +DA +S Sbjct: 118 DGDVEIVNPSHVLCTLTGEAELSMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI ++SY VESAR Q D DKL + ++T+G+I E+++ ++ IL +QL F+ + Sbjct: 178 PISRISYNVESARVEQRTDLDKLIIDMETNGTIDPEEAIRRSATILAEQLDAFVELRDMS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + V+++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 EPVEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPPESI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESIAE 327 >gi|120609326|ref|YP_969004.1| DNA-directed RNA polymerase subunit alpha [Acidovorax citrulli AAC00-1] gi|326315415|ref|YP_004233087.1| DNA-directed RNA polymerase subunit alpha [Acidovorax avenae subsp. avenae ATCC 19860] gi|158513025|sp|A1TJU2|RPOA_ACIAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120587790|gb|ABM31230.1| DNA-directed RNA polymerase subunit alpha [Acidovorax citrulli AAC00-1] gi|323372251|gb|ADX44520.1| DNA-directed RNA polymerase subunit alpha [Acidovorax avenae subsp. avenae ATCC 19860] Length = 330 Score = 366 bits (940), Expect = 3e-99, Method: Composition-based stats. Identities = 161/335 (48%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTINVEQLGH---NRAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPDHVIAHLSQGGKLDMQIKVEKGRGYVPGNLRRYADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 239 KEVKEDI--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LAAFDTPAGPRGSATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 NLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >gi|261346910|ref|ZP_05974554.1| DNA-directed RNA polymerase, alpha subunit [Providencia rustigianii DSM 4541] gi|282564976|gb|EFB70511.1| DNA-directed RNA polymerase, alpha subunit [Providencia rustigianii DSM 4541] Length = 329 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A V M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASVNMRIKVQRGRGYVPASARVHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|261867279|ref|YP_003255201.1| DNA-directed RNA polymerase subunit alpha [Aggregatibacter actinomycetemcomitans D11S-1] gi|261412611|gb|ACX81982.1| DNA-directed RNA polymerase, alpha subunit [Aggregatibacter actinomycetemcomitans D11S-1] Length = 329 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVDIEQISSTQ---AKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVLLTLSKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+EV+NP+HVIC+L D +A + M + V +G GYVPA + E PIG + +DA Y Sbjct: 118 DGDVEVINPEHVICHLTDENASISMRIRVRRGRGYVPASVRAQIQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPIERIAYNVEAARVEQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLLPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|145632161|ref|ZP_01787896.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 3655] gi|145634786|ref|ZP_01790494.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittAA] gi|145636639|ref|ZP_01792306.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittHH] gi|145640901|ref|ZP_01796483.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae R3021] gi|229844670|ref|ZP_04464809.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 6P18H1] gi|229845853|ref|ZP_04465965.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 7P49H1] gi|144987068|gb|EDJ93598.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 3655] gi|145267952|gb|EDK07948.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittAA] gi|145270165|gb|EDK10101.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittHH] gi|145274415|gb|EDK14279.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 22.4-21] gi|229810857|gb|EEP46574.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 7P49H1] gi|229812384|gb|EEP48074.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae 6P18H1] gi|309973706|gb|ADO96907.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae R2846] Length = 328 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 221/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 ++E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGNVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|290477168|ref|YP_003470083.1| RNA polymerase subunit alpha [Xenorhabdus bovienii SS-2004] gi|289176516|emb|CBJ83325.1| RNA polymerase, alpha subunit [Xenorhabdus bovienii SS-2004] Length = 329 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDGSASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|89076299|ref|ZP_01162640.1| DNA-directed RNA polymerase alpha subunit [Photobacterium sp. SKA34] gi|89048003|gb|EAR53592.1| DNA-directed RNA polymerase alpha subunit [Photobacterium sp. SKA34] Length = 329 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA+Y Sbjct: 118 DGDVEIANPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAIY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|53803448|ref|YP_114763.1| DNA-directed RNA polymerase subunit alpha [Methylococcus capsulatus str. Bath] gi|61215838|sp|Q605D7|RPOA_METCA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|53757209|gb|AAU91500.1| DNA-directed RNA polymerase, alpha subunit [Methylococcus capsulatus str. Bath] Length = 328 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 153/334 (45%), Positives = 221/334 (66%), Gaps = 7/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + ELIKP +E + G ++ EPL RGF HTLGNALRRVL+S++ GAA+T Sbjct: 1 MHNSLAELIKPRTVEVVPHGSHS---ARVVIEPLERGFGHTLGNALRRVLLSAIPGAAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGVLHE S+I+GV ED+ D++LN+K + ++++G + + K GPG V AGDI+ Sbjct: 58 DVVIDGVLHEYSTIEGVQEDVIDVLLNLKNLAIRLNGPHDVYLNVDKHGPGPVLAGDIEA 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPI 180 +D+EVLNP+ +I +++ + +RM L V KG GY P + E + IG + +DA +SPI Sbjct: 118 SHDVEVLNPELLIAHINGNGRLRMTLHVQKGRGYQPVANRAIEGDSAIGTLHLDASFSPI 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSY VESAR Q D D+L + + T+G++ E++V A+ IL L + ++ + Sbjct: 178 KKVSYVVESARVEQRTDLDRLVIELQTNGTVQPEEAVKHAANILNQHLAILVDLKGEDLP 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + F+P LL V++LEL+VRS NCL+ ENI Y+GDLIQR+EAD+L+ N G+ Sbjct: 238 LFGED---GPQFDPLLLHPVDDLELTVRSANCLKAENIFYIGDLIQRSEADLLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK VL T GL LGM L +WPPE +++L + Sbjct: 295 KSLTEIKDVLATKGLSLGMRLENWPPEGLKKLNQ 328 >gi|293390660|ref|ZP_06634994.1| DNA-directed RNA polymerase, alpha subunit [Aggregatibacter actinomycetemcomitans D7S-1] gi|290951194|gb|EFE01313.1| DNA-directed RNA polymerase, alpha subunit [Aggregatibacter actinomycetemcomitans D7S-1] Length = 329 Score = 366 bits (939), Expect = 3e-99, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E +KP ++ + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGAVTEFLKPRLVDIEQVSSTQ---AKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVLLTLSKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+EV+NP+HVIC+L D + + M + V +G GYVPA + E PIG + +DA Y Sbjct: 118 DGDVEVINPEHVICHLTDESSSISMRIRVRRGRGYVPASVRAQIQDEERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPIERIAYNVEAARVEQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|284992846|ref|YP_003411400.1| DNA-directed RNA polymerase subunit alpha [Geodermatophilus obscurus DSM 43160] gi|284066091|gb|ADB77029.1| DNA-directed RNA polymerase, alpha subunit [Geodermatophilus obscurus DSM 43160] Length = 358 Score = 366 bits (939), Expect = 4e-99, Method: Composition-based stats. Identities = 123/328 (37%), Positives = 192/328 (58%), Gaps = 4/328 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+G L Sbjct: 5 QRPTLTE----ETISEQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGTL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILN+KG+ + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEIILNLKGLVVSSDSDEPVTMYLRKQGPGEVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNGKGRLEIELVVERGRGYVPAPQNKQPGQEIGRIPVDSIYSPVLKVTYAVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI D++A A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLVVDVETKPSIAPRDAIASAGSTLVELFGLLRELNIDAEGIEVGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +E+++L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AADIANFSMPIEDMDLTVRSYNCLKREGVHTVGELVTRSEADLLDIRNFGAKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYE 337 L MGL L + P + P S+E + YE Sbjct: 301 LAAMGLALKDSPPGFIPTSVESYDEGYE 328 >gi|126209248|ref|YP_001054473.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae L20] gi|158513517|sp|A3N382|RPOA_ACTP2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|126098040|gb|ABN74868.1| DNA-directed RNA polymerase alpha chain [Actinobacillus pleuropneumoniae serovar 5b str. L20] Length = 329 Score = 366 bits (939), Expect = 4e-99, Method: Composition-based stats. Identities = 151/334 (45%), Positives = 222/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPHLVNIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA + Sbjct: 118 DGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VESAR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVESARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+ DL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSHNCLKAETIHYICDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|253998041|ref|YP_003050104.1| DNA-directed RNA polymerase subunit alpha [Methylovorus sp. SIP3-4] gi|313200106|ref|YP_004038764.1| DNA-directed RNA polymerase subunit alpha [Methylovorus sp. MP688] gi|253984720|gb|ACT49577.1| DNA-directed RNA polymerase, alpha subunit [Methylovorus sp. SIP3-4] gi|312439422|gb|ADQ83528.1| DNA-directed RNA polymerase, alpha subunit [Methylovorus sp. MP688] Length = 327 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 156/332 (46%), Positives = 215/332 (64%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ V+ R + EP+ RGF +TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRVVDVEVI---SPVRARVTLEPMERGFGYTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S++ GV ED+ DI+LN+KG+ LK++ S +T+ K GVVTAGD T Sbjct: 58 EVKIDGVVHEYSTLDGVQEDVVDILLNLKGVALKLNSKSETTLTLKKSVEGVVTAGDFDT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSP 179 +D E+ NP HVI +L + +E+ V G GY VPA+ E+ +G I +DA +SP Sbjct: 118 GHDAEIANPGHVIAHLTKGGKIDLEVKVEMGRGYQPVPARQKTDEDRVLGFIMVDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KVSY VESAR Q D DKL M ++T+G + E ++ A+RIL QL +F + E Sbjct: 178 INKVSYHVESARVEQRTDLDKLIMDVETNGVVEPEQAIRDAARILMGQLSVFADLEGAPT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV+ + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR E ++L+ N G Sbjct: 238 EVEV---KHTPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRGENELLKAPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 295 RKSLNEIKDVLASKGLTLGMKLENWPPVGLEK 326 >gi|319948695|ref|ZP_08022816.1| DNA-directed RNA polymerase subunit alpha [Dietzia cinnamea P4] gi|319437597|gb|EFV92596.1| DNA-directed RNA polymerase subunit alpha [Dietzia cinnamea P4] Length = 344 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 126/320 (39%), Positives = 197/320 (61%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVL Sbjct: 5 QRPTLTEEVV----SENRSRFVLEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI +EV N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSVEDEPVTMYLKKQGPGAVTAGDIVPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNEKGRLEIELVVERGRGYVPAGLNKDAGHEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+T D++A A + L + G+ E + ++ + Sbjct: 181 TRVHQRTDFDRLVLDVETKNSMTARDALASAGKTLVELFGLARELNEEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +++L+LSVRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K Sbjct: 241 ADHIAAYGMPIDDLDLSVRSYNCLKREGVHTVGELVARSESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L P + P S+ Sbjct: 301 LVELGLSLKDAPPGFDPASV 320 >gi|269104037|ref|ZP_06156734.1| DNA-directed RNA polymerase alpha subunit [Photobacterium damselae subsp. damselae CIP 102761] gi|268163935|gb|EEZ42431.1| DNA-directed RNA polymerase alpha subunit [Photobacterium damselae subsp. damselae CIP 102761] Length = 329 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 217/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVNS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA + Sbjct: 118 DGDVEIANPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ ++SY VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRISYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|296137039|ref|YP_003644281.1| DNA-directed RNA polymerase, alpha subunit [Thiomonas intermedia K12] gi|295797161|gb|ADG31951.1| DNA-directed RNA polymerase, alpha subunit [Thiomonas intermedia K12] Length = 328 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 214/326 (65%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L++P +I+ LG NR+ ++ EP RG+ HTLGNALRRV++SSL G A T V I+GV Sbjct: 5 LLRPKSIQVESLGH---NRSKVVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S + G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSVVDGLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + Sbjct: 182 AVESARVEQRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAETTEAAEA 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 242 AAGGQTYDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL GL LGM L +WPP +++ Sbjct: 302 IKEVLAARGLTLGMKLDNWPPSGLDK 327 >gi|152980446|ref|YP_001355075.1| DNA-directed RNA polymerase subunit alpha [Janthinobacterium sp. Marseille] gi|166229272|sp|A6T3H8|RPOA_JANMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|151280523|gb|ABR88933.1| DNA-directed RNA polymerase subunit alpha [Janthinobacterium sp. Marseille] Length = 325 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 152/333 (45%), Positives = 212/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE VLG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVEVLGAG---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI+ Sbjct: 55 EVTIAGVVHEYSSLDGVQEDVVDLLLNLKGVVFKLHNRDDVTLTLKKDGEGAVLASDIEL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R D I +DA +S Sbjct: 115 PHDVELVNPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VESAR Q D DKL + I+T+G I+ E+++ ++R+L DQL +F E Sbjct: 175 PVRRVSYAVESARVEQRTDLDKLVINIETNGVISPEEAIRQSARVLVDQLNVFAALE--G 232 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E D ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 233 TEAPADAPSRAPAVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >gi|254483442|ref|ZP_05096671.1| DNA-directed RNA polymerase, alpha subunit [marine gamma proteobacterium HTCC2148] gi|214036316|gb|EEB76994.1| DNA-directed RNA polymerase, alpha subunit [marine gamma proteobacterium HTCC2148] Length = 334 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 153/336 (45%), Positives = 220/336 (65%), Gaps = 9/336 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P I + ++ R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSAVNEFLTPR---VINVDEKNSTRAQVTLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ L M+G +T+ K+G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSAIEGVQEDVIEILLNLKGVALVMNGKEEAELTLSKKGSGAVTAADIQV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +DIE+ NPDHVIC+L+ + + M+LTV++G GY PA + I +DA ++ Sbjct: 118 DHDIEIRNPDHVICHLNGASEINMKLTVARGRGYSPADSRENPEEETRSIGRLQLDATFA 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VESAR Q D DKL + ++T+G+I E+++ A+ ILQ QL +F++ E Sbjct: 178 PVHRVSYVVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRAATILQQQLAVFVDLESES 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N Sbjct: 238 ESESVEEEDEVDP---ILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLDNWPPASLKNDDR 330 >gi|238797219|ref|ZP_04640720.1| DNA-directed RNA polymerase subunit alpha [Yersinia mollaretii ATCC 43969] gi|238718856|gb|EEQ10671.1| DNA-directed RNA polymerase subunit alpha [Yersinia mollaretii ATCC 43969] Length = 329 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRVKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|90414981|ref|ZP_01222943.1| DNA-directed RNA polymerase alpha subunit [Photobacterium profundum 3TCK] gi|90323920|gb|EAS40520.1| DNA-directed RNA polymerase alpha subunit [Photobacterium profundum 3TCK] Length = 329 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDHAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|156932260|ref|YP_001436176.1| DNA-directed RNA polymerase subunit alpha [Cronobacter sakazakii ATCC BAA-894] gi|260599615|ref|YP_003212186.1| DNA-directed RNA polymerase subunit alpha [Cronobacter turicensis z3032] gi|171769808|sp|A7MPF8|RPOA_ENTS8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|156530514|gb|ABU75340.1| hypothetical protein ESA_00031 [Cronobacter sakazakii ATCC BAA-894] gi|260218792|emb|CBA34140.1| DNA-directed RNA polymerase subunit alpha [Cronobacter turicensis z3032] Length = 329 Score = 365 bits (938), Expect = 4e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVVLTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|291619150|ref|YP_003521892.1| RpoA [Pantoea ananatis LMG 20103] gi|317049815|ref|YP_004117463.1| DNA-directed RNA polymerase subunit alpha [Pantoea sp. At-9b] gi|291154180|gb|ADD78764.1| RpoA [Pantoea ananatis LMG 20103] gi|316951432|gb|ADU70907.1| DNA-directed RNA polymerase, alpha subunit [Pantoea sp. At-9b] gi|327395479|dbj|BAK12901.1| DNA-directed RNA polymerase alpha chain RpoA [Pantoea ananatis AJ13355] Length = 329 Score = 365 bits (938), Expect = 5e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|239996312|ref|ZP_04716836.1| DNA-directed RNA polymerase subunit alpha [Alteromonas macleodii ATCC 27126] gi|332142181|ref|YP_004427919.1| DNA-directed RNA polymerase subunit alpha [Alteromonas macleodii str. 'Deep ecotype'] gi|327552203|gb|AEA98921.1| DNA-directed RNA polymerase subunit alpha [Alteromonas macleodii str. 'Deep ecotype'] Length = 328 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 149/330 (45%), Positives = 219/330 (66%), Gaps = 9/330 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E +KP +E + R + EPL RGF HTLGNALRR+L+SS+ G A+T V+ Sbjct: 3 SVTEFLKPRLVE---IENVSPTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G + +T+ K G G V AGDIQ D Sbjct: 60 IDGVLHEYSTKEGVQEDVIEILLNLKGLAVRLEGKTEATLTLVKSGAGPVVAGDIQHDGD 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIK 181 +E+ NPDHVIC L +A + M + V G GYVPA R ++ PIG + +DA YSP++ Sbjct: 120 VEITNPDHVICTLTGEAEISMRIKVEMGRGYVPASTRRSSEEDDRPIGRLLVDASYSPVE 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +++Y+VESAR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + Sbjct: 180 RIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDVSEPE 239 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 240 AKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRTEVELLKTPNLGKK 296 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPPESI E Sbjct: 297 SLTEIKDVLASRGLSLGMRLENWPPESIAE 326 >gi|251787996|ref|YP_003002717.1| DNA-directed RNA polymerase subunit alpha [Dickeya zeae Ech1591] gi|271502221|ref|YP_003335247.1| DNA-directed RNA polymerase subunit alpha [Dickeya dadantii Ech586] gi|307132814|ref|YP_003884830.1| DNA-directed RNA polymerase subunit alpha [Dickeya dadantii 3937] gi|247536617|gb|ACT05238.1| DNA-directed RNA polymerase, alpha subunit [Dickeya zeae Ech1591] gi|270345776|gb|ACZ78541.1| DNA-directed RNA polymerase, alpha subunit [Dickeya dadantii Ech586] gi|306530343|gb|ADN00274.1| DNA-directed RNA polymerase alpha subunit [Dickeya dadantii 3937] Length = 329 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASINMRIKVQRGRGYVPASARIHTEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|22127885|ref|NP_671308.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis KIM 10] gi|45440092|ref|NP_991631.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis biovar Microtus str. 91001] gi|51597963|ref|YP_072154.1| DNA-directed RNA polymerase subunit alpha [Yersinia pseudotuberculosis IP 32953] gi|108809230|ref|YP_653146.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis Antiqua] gi|108813995|ref|YP_649762.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis Nepal516] gi|145597475|ref|YP_001161550.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis Pestoides F] gi|150260718|ref|ZP_01917446.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis CA88-4125] gi|153948087|ref|YP_001402838.1| DNA-directed RNA polymerase subunit alpha [Yersinia pseudotuberculosis IP 31758] gi|162420536|ref|YP_001605197.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis Angola] gi|165927880|ref|ZP_02223712.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. F1991016] gi|165936419|ref|ZP_02224987.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. IP275] gi|166010435|ref|ZP_02231333.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. E1979001] gi|166213170|ref|ZP_02239205.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. B42003004] gi|167398622|ref|ZP_02304146.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167419336|ref|ZP_02311089.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167425603|ref|ZP_02317356.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Mediaevalis str. K1973002] gi|170022569|ref|YP_001719074.1| DNA-directed RNA polymerase subunit alpha [Yersinia pseudotuberculosis YPIII] gi|186897159|ref|YP_001874271.1| DNA-directed RNA polymerase subunit alpha [Yersinia pseudotuberculosis PB1/+] gi|218927440|ref|YP_002345315.1| DNA-directed RNA polymerase subunit alpha [Yersinia pestis CO92] gi|229836284|ref|ZP_04456451.1| RNA polymerase, alpha subunit [Yersinia pestis Pestoides A] gi|229840092|ref|ZP_04460251.1| RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. PEXU2] gi|229842174|ref|ZP_04462329.1| RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. India 195] gi|229904526|ref|ZP_04519637.1| RNA polymerase, alpha subunit [Yersinia pestis Nepal516] gi|270488256|ref|ZP_06205330.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis KIM D27] gi|294502309|ref|YP_003566371.1| DNA-directed RNA polymerase alpha subunit [Yersinia pestis Z176003] gi|311277750|ref|YP_003939981.1| DNA-directed RNA polymerase, alpha subunit [Enterobacter cloacae SCF1] gi|20139507|sp|Q8ZJ87|RPOA_YERPE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215876|sp|Q664U6|RPOA_YERPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366751|sp|Q1C2X1|RPOA_YERPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366752|sp|Q1CCW8|RPOA_YERPN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158514063|sp|A4TH15|RPOA_YERPP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171769159|sp|A7FNL0|RPOA_YERP3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21961021|gb|AAM87559.1|AE014003_17 RNA polymerase, alpha subunit [Yersinia pestis KIM 10] gi|45434947|gb|AAS60508.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis biovar Microtus str. 91001] gi|51591245|emb|CAH22911.1| DNA-directed RNA polymerase alpha chain [Yersinia pseudotuberculosis IP 32953] gi|108777643|gb|ABG20162.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis Nepal516] gi|108781143|gb|ABG15201.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis Antiqua] gi|115346051|emb|CAL18917.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis CO92] gi|145209171|gb|ABP38578.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis Pestoides F] gi|149290126|gb|EDM40203.1| DNA-directed RNA polymerase alpha chain [Yersinia pestis CA88-4125] gi|152959582|gb|ABS47043.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pseudotuberculosis IP 31758] gi|162353351|gb|ABX87299.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis Angola] gi|165915535|gb|EDR34144.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. IP275] gi|165920156|gb|EDR37457.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. F1991016] gi|165990525|gb|EDR42826.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. E1979001] gi|166205468|gb|EDR49948.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. B42003004] gi|166963330|gb|EDR59351.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. MG05-1020] gi|167051126|gb|EDR62534.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Antiqua str. UG05-0454] gi|167055293|gb|EDR65087.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis biovar Mediaevalis str. K1973002] gi|169749103|gb|ACA66621.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pseudotuberculosis YPIII] gi|186700185|gb|ACC90814.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pseudotuberculosis PB1/+] gi|229678644|gb|EEO74749.1| RNA polymerase, alpha subunit [Yersinia pestis Nepal516] gi|229690484|gb|EEO82538.1| RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. India 195] gi|229696458|gb|EEO86505.1| RNA polymerase, alpha subunit [Yersinia pestis biovar Orientalis str. PEXU2] gi|229706352|gb|EEO92359.1| RNA polymerase, alpha subunit [Yersinia pestis Pestoides A] gi|262360389|gb|ACY57110.1| DNA-directed RNA polymerase alpha subunit [Yersinia pestis D106004] gi|262364339|gb|ACY60896.1| DNA-directed RNA polymerase alpha subunit [Yersinia pestis D182038] gi|270336760|gb|EFA47537.1| DNA-directed RNA polymerase, alpha subunit [Yersinia pestis KIM D27] gi|294352768|gb|ADE63109.1| DNA-directed RNA polymerase alpha subunit [Yersinia pestis Z176003] gi|308746945|gb|ADO46697.1| DNA-directed RNA polymerase, alpha subunit [Enterobacter cloacae SCF1] gi|320013367|gb|ADV96938.1| RNA polymerase, alpha subunit [Yersinia pestis biovar Medievalis str. Harbin 35] Length = 329 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|90581703|ref|ZP_01237491.1| DNA-directed RNA polymerase alpha subunit [Vibrio angustum S14] gi|330447012|ref|ZP_08310662.1| DNA-directed RNA polymerase, alpha subunit [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] gi|90437118|gb|EAS62321.1| DNA-directed RNA polymerase alpha subunit [Vibrio angustum S14] gi|328491203|dbj|GAA05159.1| DNA-directed RNA polymerase, alpha subunit [Photobacterium leiognathi subsp. mandapamensis svers.1.1.] Length = 329 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|190572968|ref|YP_001970813.1| DNA-directed RNA polymerase subunit alpha [Stenotrophomonas maltophilia K279a] gi|229564258|sp|B2FQK8|RPOA_STRMK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|190010890|emb|CAQ44499.1| putative DNA-directed RNA polymerase alpha chain [Stenotrophomonas maltophilia K279a] Length = 332 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 141/328 (42%), Positives = 214/328 (65%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L + R ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERL---TDTRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE ++++G+ ED+ +++LN+K + ++M +++ K+GPGVVTA DI+ +++E Sbjct: 63 GVLHEYTTVEGLQEDVLEVLLNLKDVAIRMHSGDSATLSLSKQGPGVVTAADIKVDHNVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKV 183 +LN DHVIC+L D + M L + +G GY PA R ++ I +DA +SP+++V Sbjct: 123 ILNGDHVICHLTKDTAINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 183 AYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAK 242 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 N P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 243 PANNGVDP---VLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGVAS 327 >gi|114319644|ref|YP_741327.1| DNA-directed RNA polymerase subunit alpha [Alkalilimnicola ehrlichii MLHE-1] gi|119366660|sp|Q0ABF0|RPOA_ALHEH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114226038|gb|ABI55837.1| DNA-directed RNA polymerase subunit alpha [Alkalilimnicola ehrlichii MLHE-1] Length = 331 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 144/331 (43%), Positives = 219/331 (66%), Gaps = 6/331 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +++ +KP ++ + ++ E R ++ EPL RGF HTLGNALRRVL+SS+ G+A+ Sbjct: 1 MQGTFRDFLKPRTVD---IQEQGERRAKIVLEPLERGFGHTLGNALRRVLLSSMPGSAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GV HE SS++GV ED+ DI+LN+K + ++M +T+ +GPG VTAGDIQT Sbjct: 58 QAEIEGVEHEYSSMEGVQEDVVDILLNLKSLAVRMHDRDEAELTVSVQGPGPVTAGDIQT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPI 180 +D+EV NP+ +IC L +L V++G GY A E+ IG + +DA YSP+ Sbjct: 118 AHDVEVKNPELLICTLTKAVAFNAKLMVARGRGYEAATQRDGDEDRVIGRLQLDASYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+YTVESAR Q + DKL + ++T+G + E++V A+ +L+DQL +F+ + E Sbjct: 178 KRVAYTVESARVEQRTNLDKLVLDVETNGVLEPEEAVRFAAGLLRDQLSVFV--DLEGGE 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + + +P LL+ ++ELEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+ Sbjct: 236 FEAEQEEQEPDVDPILLRPIDELELTVRSANCLKAESIHYVGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK L + GL LGM L +WPP + E Sbjct: 296 KSLTEIKETLASHGLSLGMRLENWPPAGLGE 326 >gi|303247018|ref|ZP_07333294.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio fructosovorans JJ] gi|302491725|gb|EFL51608.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio fructosovorans JJ] Length = 347 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 156/337 (46%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW EL+KP +E + + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 12 SRNWTELVKPETLE--RDSASTDTHGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVA 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +I+GV HE S+I GV ED+T++ILN+K + L M+ + +R+T+F G V A IQ Sbjct: 70 ARIEGVQHEFSTIPGVIEDVTEVILNLKQVRLAMATEDPQRLTLFANKKGEVLASAIQGN 129 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 ++ VL+ D +I L D R+EL V G GYV A H + IGLI +D+ +SP+KK Sbjct: 130 QNVTVLSEDVLIATLSEDRDFRIELEVRMGKGYVTADMHEGLDSEIGLILLDSSFSPVKK 189 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YT+E AR GQ+ +YDKL + +DTDGSI+ ED+++ +++IL+DQL +FINF+E + E Sbjct: 190 VAYTIEQARVGQMTNYDKLVLEVDTDGSISPEDAISYSAKILKDQLTVFINFDEKESEAD 249 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KS Sbjct: 250 KARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKS 309 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 310 LEEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDE 346 >gi|319775263|ref|YP_004137751.1| RNA polymerase subunit alpha [Haemophilus influenzae F3047] gi|319897703|ref|YP_004135900.1| RNA polymerase, alpha subunit [Haemophilus influenzae F3031] gi|317433209|emb|CBY81584.1| RNA polymerase, alpha subunit [Haemophilus influenzae F3031] gi|317449854|emb|CBY86065.1| RNA polymerase, alpha subunit [Haemophilus influenzae F3047] Length = 328 Score = 365 bits (937), Expect = 5e-99, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 ++E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGNVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAGQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|242237884|ref|YP_002986065.1| DNA-directed RNA polymerase subunit alpha [Dickeya dadantii Ech703] gi|242129941|gb|ACS84243.1| DNA-directed RNA polymerase, alpha subunit [Dickeya dadantii Ech703] Length = 329 Score = 365 bits (937), Expect = 6e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASINMRIKVQRGRGYVPASARIHTEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|258591343|emb|CBE67642.1| DNA-directed RNA polymerase alpha chain [NC10 bacterium 'Dutch sediment'] Length = 342 Score = 365 bits (937), Expect = 6e-99, Method: Composition-based stats. Identities = 150/325 (46%), Positives = 209/325 (64%), Gaps = 2/325 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQK ++ + KP +E L AEP RGF T+GNALRR L+S++ GAA+ Sbjct: 1 MIQK-FKGIQKPKRLEC-ELESLTSTYGKFFAEPFERGFGLTIGNALRRTLLSAIEGAAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAV+I G LHE S+I GV ED+TDIILN+KG+ L++ D K + + G V A I Sbjct: 59 TAVRITGALHEFSTIPGVKEDVTDIILNLKGLRLRLHVDHPKTLYLKAFSEGEVRAEHIV 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 + D+EVLNPD I L+ D + +EL V G GYVPA+ ++ E P+ +I ID+++SPI Sbjct: 119 SDPDVEVLNPDLRIATLEQDGKLELELEVRLGRGYVPAERNKREGQPVDVIAIDSIFSPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +KV++ VE R GQV DY+KL++ + TDGS+ D++A A++IL+D L +F NFEE + Sbjct: 179 RKVNFRVEDTRVGQVTDYNKLTLEVWTDGSVLPRDAIAYAAKILKDHLSIFTNFEEEPEG 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ L + V+ELELSVRS NCL+ +I Y+ +L+ R+EA+ML+ NFGR Sbjct: 239 EGVVVDEARKQLLDNLNRSVDELELSVRSANCLKHSDIRYIYELVVRSEAEMLKTKNFGR 298 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK +L MGL LGM L P Sbjct: 299 KSLNEIKEILTGMGLTLGMKLEGLP 323 >gi|254776830|ref|ZP_05218346.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium avium subsp. avium ATCC 25291] Length = 347 Score = 365 bits (937), Expect = 6e-99, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 193/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVL----TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T IILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTAIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ Sbjct: 121 PELHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPPE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + P + P + Sbjct: 301 LHQLGLSLKDSPPSFDPSQV 320 >gi|289669368|ref|ZP_06490443.1| DNA-directed RNA polymerase subunit alpha [Xanthomonas campestris pv. musacearum NCPPB4381] Length = 332 Score = 365 bits (937), Expect = 6e-99, Method: Composition-based stats. Identities = 141/325 (43%), Positives = 213/325 (65%), Gaps = 9/325 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+IDGVL Sbjct: 9 LRPRGPQIERL---TDNRAKVVIEPLKRGYGHTLGNALRRVLLSSIPGFAITEVEIDGVL 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++G+ ED+ D++LN+K + ++M +++ K+GPG VTA DI+T +++E++N Sbjct: 66 HEYTTVEGLQEDVLDVLLNLKDVAIRMHSGDSATLSLSKQGPGTVTAADIRTDHNVEIIN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYT 186 DHVIC+L D + M L + +G GY PA R ++ I +DA +SP+++V+Y Sbjct: 126 GDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLMLDASFSPVRRVAYA 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 186 VEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPAA 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EI Sbjct: 246 SGVDP---VLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEI 302 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEE 331 K VL GL LGM L +WPP + + Sbjct: 303 KEVLAQRGLALGMKLENWPPAGVAQ 327 >gi|186477561|ref|YP_001859031.1| DNA-directed RNA polymerase subunit alpha [Burkholderia phymatum STM815] gi|209521360|ref|ZP_03270073.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. H160] gi|238691303|sp|B2JI39|RPOA_BURP8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|184194020|gb|ACC71985.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia phymatum STM815] gi|209498180|gb|EDZ98322.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. H160] Length = 325 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTEAAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|238754197|ref|ZP_04615555.1| DNA-directed RNA polymerase subunit alpha [Yersinia ruckeri ATCC 29473] gi|238758785|ref|ZP_04619959.1| DNA-directed RNA polymerase subunit alpha [Yersinia aldovae ATCC 35236] gi|238783188|ref|ZP_04627214.1| DNA-directed RNA polymerase subunit alpha [Yersinia bercovieri ATCC 43970] gi|238792960|ref|ZP_04636590.1| DNA-directed RNA polymerase subunit alpha [Yersinia intermedia ATCC 29909] gi|238703082|gb|EEP95625.1| DNA-directed RNA polymerase subunit alpha [Yersinia aldovae ATCC 35236] gi|238707693|gb|EEQ00053.1| DNA-directed RNA polymerase subunit alpha [Yersinia ruckeri ATCC 29473] gi|238715984|gb|EEQ07970.1| DNA-directed RNA polymerase subunit alpha [Yersinia bercovieri ATCC 43970] gi|238727814|gb|EEQ19338.1| DNA-directed RNA polymerase subunit alpha [Yersinia intermedia ATCC 29909] Length = 329 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|161523455|ref|YP_001578467.1| DNA-directed RNA polymerase subunit alpha [Burkholderia multivorans ATCC 17616] gi|189351772|ref|YP_001947400.1| DNA-directed RNA polymerase subunit alpha [Burkholderia multivorans ATCC 17616] gi|221201591|ref|ZP_03574629.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD2M] gi|221207334|ref|ZP_03580344.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD2] gi|221213472|ref|ZP_03586447.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD1] gi|238687015|sp|A9ADL9|RPOA_BURM1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|160340884|gb|ABX13970.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans ATCC 17616] gi|189335794|dbj|BAG44864.1| DNA-directed RNA polymerase subunit alpha [Burkholderia multivorans ATCC 17616] gi|221166924|gb|EED99395.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD1] gi|221172922|gb|EEE05359.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD2] gi|221178407|gb|EEE10816.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia multivorans CGD2M] Length = 325 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 152/328 (46%), Positives = 210/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R D + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETTGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|268593566|ref|ZP_06127787.1| DNA-directed RNA polymerase, alpha subunit [Providencia rettgeri DSM 1131] gi|291310843|gb|EFE51296.1| DNA-directed RNA polymerase, alpha subunit [Providencia rettgeri DSM 1131] Length = 329 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P H+IC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHIICHLTDESASINMRIKVQRGRGYVPASARVHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|121609260|ref|YP_997067.1| DNA-directed RNA polymerase subunit alpha [Verminephrobacter eiseniae EF01-2] gi|158514002|sp|A1WK92|RPOA_VEREI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|121553900|gb|ABM58049.1| DNA-directed RNA polymerase, alpha subunit [Verminephrobacter eiseniae EF01-2] Length = 330 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 158/335 (47%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG + + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVEQLGH---HHAKVALEPFERGYGHTLGNAIRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G+VTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGMVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GY+P R + IG I +DA +S Sbjct: 115 PHDVEIVNPDHVIANLSQGGKLDMQIKVEKGRGYMPGNLRRYADEVTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSYTVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E + Sbjct: 175 PVRRVSYTVESARVEQRTDLDKLVVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGE 234 Query: 239 KEVKEDI--NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LAAFDAPTGPRGNASFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 NLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 329 >gi|304399265|ref|ZP_07381131.1| DNA-directed RNA polymerase, alpha subunit [Pantoea sp. aB] gi|308188331|ref|YP_003932462.1| DNA-directed RNA polymerase alpha chain [Pantoea vagans C9-1] gi|304353191|gb|EFM17572.1| DNA-directed RNA polymerase, alpha subunit [Pantoea sp. aB] gi|308058841|gb|ADO11013.1| DNA-directed RNA polymerase alpha chain [Pantoea vagans C9-1] Length = 329 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|238921419|ref|YP_002934934.1| DNA-directed RNA polymerase subunit alpha [Edwardsiella ictaluri 93-146] gi|269140549|ref|YP_003297250.1| DNA-directed RNA polymerase subunit alpha [Edwardsiella tarda EIB202] gi|294638029|ref|ZP_06716289.1| DNA-directed RNA polymerase, alpha subunit [Edwardsiella tarda ATCC 23685] gi|238870988|gb|ACR70699.1| DNA-directed RNA polymerase subunit alpha, putative [Edwardsiella ictaluri 93-146] gi|267986210|gb|ACY86039.1| DNA-directed RNA polymerase subunit alpha [Edwardsiella tarda EIB202] gi|291088821|gb|EFE21382.1| DNA-directed RNA polymerase, alpha subunit [Edwardsiella tarda ATCC 23685] gi|304560334|gb|ADM42998.1| DNA-directed RNA polymerase alpha subunit [Edwardsiella tarda FL6-60] Length = 329 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQLSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPHHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+S+ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEESIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|145630549|ref|ZP_01786329.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae R3021] gi|144983939|gb|EDJ91381.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae R3021] Length = 328 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 150/333 (45%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 D+E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGDVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G + E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGELEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|194364558|ref|YP_002027168.1| DNA-directed RNA polymerase subunit alpha [Stenotrophomonas maltophilia R551-3] gi|254523842|ref|ZP_05135897.1| DNA-directed RNA polymerase, alpha subunit [Stenotrophomonas sp. SKA14] gi|238693448|sp|B4SLH5|RPOA_STRM5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|194347362|gb|ACF50485.1| DNA-directed RNA polymerase, alpha subunit [Stenotrophomonas maltophilia R551-3] gi|219721433|gb|EED39958.1| DNA-directed RNA polymerase, alpha subunit [Stenotrophomonas sp. SKA14] Length = 332 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 142/328 (43%), Positives = 214/328 (65%), Gaps = 9/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++++P + L + R ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID Sbjct: 6 NQVLRPRGPQIERL---TDTRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEID 62 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE ++++G+ ED+ +++LN+K + ++M +++ K+GPGVVTA DI+ +++E Sbjct: 63 GVLHEYTTVEGLQEDVLEVLLNLKDVAIRMHSGDSATLSLSKQGPGVVTAADIKVDHNVE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKV 183 +LN DHVIC+L D V M L + +G GY PA R ++ I +DA +SP+++V Sbjct: 123 ILNGDHVICHLTKDTAVNMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 183 AYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAK 242 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 N P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL Sbjct: 243 PANNGVDP---VLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL GL LGM L +WPP + Sbjct: 300 TEIKEVLAQRGLSLGMKLENWPPAGVAS 327 >gi|85858173|ref|YP_460375.1| DNA-directed RNA polymerase subunit alpha [Syntrophus aciditrophicus SB] gi|119366739|sp|Q2LQC9|RPOA_SYNAS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|85721264|gb|ABC76207.1| DNA-directed RNA polymerase alpha chain [Syntrophus aciditrophicus SB] Length = 345 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 162/345 (46%), Positives = 220/345 (63%), Gaps = 9/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW LI+P IE + +PL RGF TLGNALRRVL+SS++GAAI Sbjct: 1 MVRNWCSLIRPRRIEIDE-STHTRFYGEFVCQPLERGFGITLGNALRRVLLSSIQGAAIV 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+ID VLHE S++ GV ED+TDIILN+KG+ LK+ D + + I + GV+TA DI T Sbjct: 60 SVKIDNVLHEFSTVPGVKEDITDIILNLKGVRLKLLSDGPRVIRIDTKKEGVITAADIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EVLN DH I +L D RME+ V+ G GYV AK + + P G I IDALYSPIK Sbjct: 120 DGTVEVLNEDHYIASLSGDMPFRMEMVVNSGRGYVQAKKEKDVDQPEGTINIDALYSPIK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE----- 236 KV+YTV AR GQ+ DYDKLS+ + TDG++ ED+VA A++IL+ QL +F+ Sbjct: 180 KVNYTVTHARVGQIADYDKLSLEVWTDGNVLPEDAVAFAAKILKKQLQVFVGLHTVIGTE 239 Query: 237 -PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 ++E + + + N LL+ VE+LELSVRS NCL+ I +G+L+Q++EA+ML+ Sbjct: 240 EVEEEEEGEAVSEKENLNDILLRHVEDLELSVRSANCLKNAGINLIGELVQKSEAEMLKT 299 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLP--DWPPESIEELAKKYED 338 NFGRKSL EIK +L GL GM L W + EE+ + E+ Sbjct: 300 KNFGRKSLSEIKEILAEYGLTFGMKLEFTPWNKDVREEMGEIQEE 344 >gi|41410331|ref|NP_963167.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium avium subsp. paratuberculosis K-10] gi|118463576|ref|YP_883533.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium avium 104] gi|61215987|sp|Q73S43|RPOA_MYCPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512444|sp|A0QKU5|RPOA_MYCA1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41399165|gb|AAS06783.1| RpoA [Mycobacterium avium subsp. paratuberculosis K-10] gi|118164863|gb|ABK65760.1| DNA-directed RNA polymerase, alpha subunit [Mycobacterium avium 104] Length = 347 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 193/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVL----TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T IILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTAIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ Sbjct: 121 PELHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + P + P + Sbjct: 301 LHQLGLSLKDSPPSFDPSQV 320 >gi|315127931|ref|YP_004069934.1| DNA-directed RNA polymerase subunit alpha [Pseudoalteromonas sp. SM9913] gi|315016445|gb|ADT69783.1| DNA-directed RNA polymerase subunit alpha [Pseudoalteromonas sp. SM9913] Length = 328 Score = 365 bits (936), Expect = 7e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAI---NPTRSKVVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSAKEGVQEDIIEILLNLKGLAVTLEGKDEVFLTLTKSGVGPVTAADIQH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + PIG + +DA + Sbjct: 118 DGDVTIANPDHVICNLTTNNSEISMRIRVERGRGYVPASSRLSSDDDERPIGRLLLDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS IL +QL F++ + Sbjct: 178 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 ---TEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >gi|294341216|emb|CAZ89617.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Thiomonas sp. 3As] Length = 328 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 214/326 (65%), Gaps = 6/326 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L++P +I+ LG NR+ ++ EP RG+ HTLGNALRRV++SSL G A T V I+GV Sbjct: 5 LLRPKSIQVESLGH---NRSKVVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S + G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++ Sbjct: 62 LHEYSVVDGLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP IG I +DA +SP+++VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + Sbjct: 182 AVESARVEQRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAETTEAAEA 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 242 AAGGQTYDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRKSLNE 301 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL GL LGM L +WPP +++ Sbjct: 302 IKEVLAARGLTLGMKLDNWPPSGLDK 327 >gi|82778591|ref|YP_404940.1| DNA-directed RNA polymerase subunit alpha [Shigella dysenteriae Sd197] gi|90110866|sp|Q32B56|RPOA_SHIDS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|81242739|gb|ABB63449.1| RNA polymerase, alpha subunit [Shigella dysenteriae Sd197] Length = 329 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVRRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|123444073|ref|YP_001008043.1| DNA-directed RNA polymerase subunit alpha [Yersinia enterocolitica subsp. enterocolitica 8081] gi|238752666|ref|ZP_04614137.1| DNA-directed RNA polymerase subunit alpha [Yersinia rohdei ATCC 43380] gi|238788887|ref|ZP_04632677.1| DNA-directed RNA polymerase subunit alpha [Yersinia frederiksenii ATCC 33641] gi|332163236|ref|YP_004299813.1| DNA-directed RNA polymerase subunit alpha [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|158512898|sp|A1JS01|RPOA_YERE8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122091034|emb|CAL13917.1| DNA-directed RNA polymerase alpha chain [Yersinia enterocolitica subsp. enterocolitica 8081] gi|238709093|gb|EEQ01340.1| DNA-directed RNA polymerase subunit alpha [Yersinia rohdei ATCC 43380] gi|238722914|gb|EEQ14564.1| DNA-directed RNA polymerase subunit alpha [Yersinia frederiksenii ATCC 33641] gi|318607720|emb|CBY29218.1| DNA-directed RNA polymerase alpha subunit [Yersinia enterocolitica subsp. palearctica Y11] gi|325667466|gb|ADZ44110.1| DNA-directed RNA polymerase subunit alpha [Yersinia enterocolitica subsp. palearctica 105.5R(r)] gi|330861829|emb|CBX72000.1| DNA-directed RNA polymerase subunit alpha [Yersinia enterocolitica W22703] Length = 330 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|283853179|ref|ZP_06370432.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio sp. FW1012B] gi|283571437|gb|EFC19444.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio sp. FW1012B] Length = 347 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 155/337 (45%), Positives = 224/337 (66%), Gaps = 2/337 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW EL+KP +E + + EPL RGF TLGNALRRVL+SSL+GAAI A Sbjct: 12 SRNWTELVKPEKLE--KDPGATDTFGRFVCEPLERGFGTTLGNALRRVLLSSLQGAAIVA 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +I+GV HE S+I GV ED+T+IILN+K + L M+ + +R+T+F G V A IQ Sbjct: 70 ARIEGVQHEFSTIPGVIEDVTEIILNLKQVRLAMTTEDPQRLTLFANQKGEVLASAIQGN 129 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 ++ VL+ D +I L D R++L V G GYVPA H + IGLI +D+ +SP+KK Sbjct: 130 QNVTVLSDDVLIATLSEDRDFRIDLEVRMGKGYVPADMHEGLDSEIGLILLDSSFSPVKK 189 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YT+E AR GQ+ +YDKL + + TDGSI+ +D+++ +++IL+DQL +FINF+E + E Sbjct: 190 VAYTIEQARVGQMTNYDKLVLEVGTDGSISPDDAISYSAKILKDQLTVFINFDEKESEAD 249 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + NP+L K ++ELELSVR+TNCL+ NI +G+L+Q+TE +ML+ NFG+KS Sbjct: 250 KARRRDDIELNPSLFKSIDELELSVRATNCLKSANIQTVGELMQKTENEMLKTKNFGKKS 309 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L EI+ VL MGL GM + ++ + E L +K D+ Sbjct: 310 LEEIRRVLEDMGLEFGMRIENFEQKYQEWLKRKQVDE 346 >gi|237728630|ref|ZP_04559111.1| RNA polymerase [Citrobacter sp. 30_2] gi|283835712|ref|ZP_06355453.1| hypothetical protein CIT292_10105 [Citrobacter youngae ATCC 29220] gi|226909252|gb|EEH95170.1| RNA polymerase [Citrobacter sp. 30_2] gi|291068392|gb|EFE06501.1| DNA-directed RNA polymerase, alpha subunit [Citrobacter youngae ATCC 29220] Length = 329 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDDVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|319764614|ref|YP_004128551.1| DNA-directed RNA polymerase, alpha subunit [Alicycliphilus denitrificans BC] gi|330826871|ref|YP_004390174.1| DNA-directed RNA polymerase subunit alpha [Alicycliphilus denitrificans K601] gi|317119175|gb|ADV01664.1| DNA-directed RNA polymerase, alpha subunit [Alicycliphilus denitrificans BC] gi|329312243|gb|AEB86658.1| DNA-directed RNA polymerase, alpha subunit [Alicycliphilus denitrificans K601] Length = 331 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 158/336 (47%), Positives = 215/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNA+RRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKAINVEQLGH---NRAKVELEPFERGYGHTLGNAIRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI L + M++ V KG GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPDHVIATLSAGGKLDMQIKVEKGRGYVPGNLRRFADESTKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---FE 235 P+K+VSYTVESAR Q D DKL + I+T+G+I+ E++V +++IL +QL +F E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVLEIETNGAISAEEAVRASAKILVEQLAVFAQLDGGE 234 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 IFESQATGARAASGATFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 PNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 330 >gi|146313360|ref|YP_001178434.1| DNA-directed RNA polymerase subunit alpha [Enterobacter sp. 638] gi|152972203|ref|YP_001337349.1| DNA-directed RNA polymerase subunit alpha [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|157372752|ref|YP_001480741.1| DNA-directed RNA polymerase subunit alpha [Serratia proteamaculans 568] gi|206579035|ref|YP_002236303.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella pneumoniae 342] gi|238896792|ref|YP_002921537.1| DNA-directed RNA polymerase subunit alpha [Klebsiella pneumoniae NTUH-K2044] gi|259909975|ref|YP_002650331.1| DNA-directed RNA polymerase subunit alpha [Erwinia pyrifoliae Ep1/96] gi|261342765|ref|ZP_05970623.1| DNA-directed RNA polymerase, alpha subunit [Enterobacter cancerogenus ATCC 35316] gi|262045154|ref|ZP_06018181.1| DNA-directed RNA polymerase subunit alpha [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|270264348|ref|ZP_06192614.1| DNA-directed RNA polymerase subunit alpha [Serratia odorifera 4Rx13] gi|288933291|ref|YP_003437350.1| DNA-directed RNA polymerase, subunit alpha [Klebsiella variicola At-22] gi|290512093|ref|ZP_06551461.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella sp. 1_1_55] gi|292489824|ref|YP_003532714.1| DNA-directed RNA polymerase subunit alpha [Erwinia amylovora CFBP1430] gi|292900866|ref|YP_003540235.1| DNA-directed RNA polymerase subunit alpha [Erwinia amylovora ATCC 49946] gi|296105003|ref|YP_003615149.1| DNA-directed RNA polymerase subunit alpha [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|322831097|ref|YP_004211124.1| DNA-directed RNA polymerase, subunit alpha [Rahnella sp. Y9602] gi|330002270|ref|ZP_08304264.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella sp. MS 92-3] gi|172046001|sp|A4WFA3|RPOA_ENT38 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172047787|sp|A8GKH3|RPOA_SERP5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172052443|sp|A6TEU8|RPOA_KLEP7 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145320236|gb|ABP62383.1| DNA-directed RNA polymerase subunit alpha [Enterobacter sp. 638] gi|150957052|gb|ABR79082.1| DNA-directed RNA polymerase alpha subunit [Klebsiella pneumoniae subsp. pneumoniae MGH 78578] gi|157324516|gb|ABV43613.1| DNA-directed RNA polymerase, alpha subunit [Serratia proteamaculans 568] gi|190341369|gb|ACE74761.1| RpoA [Enterobacter sp. 638] gi|206568093|gb|ACI09869.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella pneumoniae 342] gi|224965597|emb|CAX57129.1| DNA-directed RNA polymerase subunit alpha [Erwinia pyrifoliae Ep1/96] gi|238549119|dbj|BAH65470.1| DNA-directed RNA polymerase alpha subunit [Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044] gi|259037474|gb|EEW38718.1| DNA-directed RNA polymerase subunit alpha [Klebsiella pneumoniae subsp. rhinoscleromatis ATCC 13884] gi|270041484|gb|EFA14582.1| DNA-directed RNA polymerase subunit alpha [Serratia odorifera 4Rx13] gi|283480074|emb|CAY75990.1| DNA-directed RNA polymerase alpha chain [Erwinia pyrifoliae DSM 12163] gi|288314944|gb|EFC53882.1| DNA-directed RNA polymerase, alpha subunit [Enterobacter cancerogenus ATCC 35316] gi|288888020|gb|ADC56338.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella variicola At-22] gi|289775883|gb|EFD83883.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella sp. 1_1_55] gi|291200714|emb|CBJ47847.1| DNA-directed RNA polymerase alpha chain [Erwinia amylovora ATCC 49946] gi|291555261|emb|CBA23539.1| DNA-directed RNA polymerase alpha chain [Erwinia amylovora CFBP1430] gi|295059462|gb|ADF64200.1| DNA-directed RNA polymerase subunit alpha [Enterobacter cloacae subsp. cloacae ATCC 13047] gi|295096939|emb|CBK86029.1| DNA-directed RNA polymerase subunit alpha [Enterobacter cloacae subsp. cloacae NCTC 9394] gi|310765573|gb|ADP10523.1| DNA-directed RNA polymerase subunit alpha [Erwinia sp. Ejp617] gi|312174006|emb|CBX82259.1| DNA-directed RNA polymerase alpha chain [Erwinia amylovora ATCC BAA-2158] gi|321166298|gb|ADW71997.1| DNA-directed RNA polymerase, alpha subunit [Rahnella sp. Y9602] gi|328537343|gb|EGF63593.1| DNA-directed RNA polymerase, alpha subunit [Klebsiella sp. MS 92-3] Length = 329 Score = 365 bits (936), Expect = 8e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|332037268|gb|EGI73723.1| DNA-directed RNA polymerase alpha subunit [Pseudoalteromonas haloplanktis ANT/505] Length = 328 Score = 364 bits (935), Expect = 8e-99, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAI---NPTRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSAKEGVQEDIIEILLNLKGLAVTLEGKDEVFLTLTKSGVGPVTAADIQH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + PIG + +DA + Sbjct: 118 DGDVTIANPDHVICNLTTNNSEISMRIRVERGRGYVPASSRLSSDDDERPIGRLLLDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS IL +QL F++ + Sbjct: 178 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 ---TEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >gi|329122808|ref|ZP_08251380.1| DNA-directed RNA polymerase subunit alpha [Haemophilus aegyptius ATCC 11116] gi|327472072|gb|EGF17510.1| DNA-directed RNA polymerase subunit alpha [Haemophilus aegyptius ATCC 11116] Length = 328 Score = 364 bits (935), Expect = 8e-99, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKGGVQEDILEVLLNLKGLAVKVQNKDDVILTLNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 ++E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGNVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|322381101|ref|ZP_08055104.1| DNA-directed RNA polymerase subunit alpha-like protein [Paenibacillus larvae subsp. larvae B-3650] gi|321154677|gb|EFX46948.1| DNA-directed RNA polymerase subunit alpha-like protein [Paenibacillus larvae subsp. larvae B-3650] Length = 314 Score = 364 bits (935), Expect = 8e-99, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 209/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVSV-NEDGSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IILN+KG++LK+ D K + I G G V AGDI+ +D+E+ Sbjct: 61 VLHEFSTIPGVIEDVTEIILNLKGLSLKIHSDEEKILEIDVEGEGRVVAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA + M + +G GYV A +++E+ PIG+I +D++Y+PI +V+Y+V Sbjct: 121 LNPDLHIATLSSDARLHMRIHAGRGRGYVQADKNKSEDQPIGVIPVDSIYTPITRVNYSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGSIRPEEAVSLGAKILTEHLMLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +LI +TE DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELITKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLEELGLGL 310 >gi|170769532|ref|ZP_02903985.1| DNA-directed RNA polymerase, alpha subunit [Escherichia albertii TW07627] gi|170121589|gb|EDS90520.1| DNA-directed RNA polymerase, alpha subunit [Escherichia albertii TW07627] Length = 329 Score = 364 bits (935), Expect = 9e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASSRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|312795804|ref|YP_004028726.1| DNA-directed RNA polymerase alpha chain [Burkholderia rhizoxinica HKI 454] gi|312167579|emb|CBW74582.1| DNA-directed RNA polymerase alpha chain (EC 2.7.7.6) [Burkholderia rhizoxinica HKI 454] Length = 325 Score = 364 bits (935), Expect = 9e-99, Method: Composition-based stats. Identities = 147/328 (44%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + +N ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVDSLGDNHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVV AGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVIAGDIEVPHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ + I +DA +SP+++V Sbjct: 120 VINPEHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDESAKVIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTETTAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|15803822|ref|NP_289856.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 EDL933] gi|15833414|ref|NP_312187.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 str. Sakai] gi|16131174|ref|NP_417754.1| RNA polymerase, alpha subunit [Escherichia coli str. K-12 substr. MG1655] gi|16762868|ref|NP_458485.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. CT18] gi|16766704|ref|NP_462319.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|24114573|ref|NP_709083.1| DNA-directed RNA polymerase subunit alpha [Shigella flexneri 2a str. 301] gi|26249880|ref|NP_755920.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli CFT073] gi|29144355|ref|NP_807697.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|30065404|ref|NP_839575.1| DNA-directed RNA polymerase subunit alpha [Shigella flexneri 2a str. 2457T] gi|56415334|ref|YP_152409.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|74313814|ref|YP_312233.1| DNA-directed RNA polymerase subunit alpha [Shigella sonnei Ss046] gi|82545658|ref|YP_409605.1| DNA-directed RNA polymerase subunit alpha [Shigella boydii Sb227] gi|89110715|ref|AP_004495.1| RNA polymerase, alpha subunit [Escherichia coli str. K-12 substr. W3110] gi|91212722|ref|YP_542708.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli UTI89] gi|110643534|ref|YP_671264.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli 536] gi|110807143|ref|YP_690663.1| DNA-directed RNA polymerase subunit alpha [Shigella flexneri 5 str. 8401] gi|117625577|ref|YP_858900.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli APEC O1] gi|157148870|ref|YP_001456189.1| DNA-directed RNA polymerase subunit alpha [Citrobacter koseri ATCC BAA-895] gi|157157450|ref|YP_001464763.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli E24377A] gi|157162769|ref|YP_001460087.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli HS] gi|161506032|ref|YP_001573144.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. arizonae serovar 62:z4,z23:-- str. RSK2980] gi|161616440|ref|YP_001590405.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|168264704|ref|ZP_02686677.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|168468028|ref|ZP_02701865.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|168752256|ref|ZP_02777278.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4113] gi|168758523|ref|ZP_02783530.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4401] gi|168764978|ref|ZP_02789985.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4501] gi|168769157|ref|ZP_02794164.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4486] gi|168777847|ref|ZP_02802854.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4196] gi|168786185|ref|ZP_02811192.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC869] gi|168802724|ref|ZP_02827731.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC508] gi|170018469|ref|YP_001723423.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli ATCC 8739] gi|170082815|ref|YP_001732135.1| RNA polymerase, alpha subunit [Escherichia coli str. K-12 substr. DH10B] gi|170683426|ref|YP_001745557.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli SMS-3-5] gi|187731728|ref|YP_001881980.1| DNA-directed RNA polymerase subunit alpha [Shigella boydii CDC 3083-94] gi|188495000|ref|ZP_03002270.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 53638] gi|191169307|ref|ZP_03031056.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli B7A] gi|193066493|ref|ZP_03047537.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E22] gi|193071560|ref|ZP_03052469.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E110019] gi|194430287|ref|ZP_03062782.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli B171] gi|194440020|ref|ZP_03072078.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 101-1] gi|194442652|ref|YP_002042666.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194447380|ref|YP_002047439.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194469288|ref|ZP_03075272.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194735121|ref|YP_002116358.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195939843|ref|ZP_03085225.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 str. EC4024] gi|197248562|ref|YP_002148335.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197262940|ref|ZP_03163014.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197364264|ref|YP_002143901.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|198244932|ref|YP_002217378.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|200387689|ref|ZP_03214301.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204931405|ref|ZP_03222074.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205354957|ref|YP_002228758.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|207858657|ref|YP_002245308.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|208806531|ref|ZP_03248868.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4206] gi|208813497|ref|ZP_03254826.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4045] gi|208818909|ref|ZP_03259229.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4042] gi|209396788|ref|YP_002272751.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4115] gi|209920761|ref|YP_002294845.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli SE11] gi|213027592|ref|ZP_03342039.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. 404ty] gi|213052883|ref|ZP_03345761.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E00-7866] gi|213425776|ref|ZP_03358526.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E02-1180] gi|213647329|ref|ZP_03377382.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. J185] gi|213859911|ref|ZP_03385615.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. M223] gi|215488595|ref|YP_002331026.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O127:H6 str. E2348/69] gi|217324841|ref|ZP_03440925.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. TW14588] gi|218550571|ref|YP_002384362.1| DNA-directed RNA polymerase subunit alpha [Escherichia fergusonii ATCC 35469] gi|218555853|ref|YP_002388766.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli IAI1] gi|218560357|ref|YP_002393270.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli S88] gi|218691582|ref|YP_002399794.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli ED1a] gi|218696988|ref|YP_002404655.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli 55989] gi|218702058|ref|YP_002409687.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli IAI39] gi|218706903|ref|YP_002414422.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli UMN026] gi|237703025|ref|ZP_04533506.1| RNA polymerase [Escherichia sp. 3_2_53FAA] gi|238902386|ref|YP_002928182.1| RNA polymerase, alpha subunit [Escherichia coli BW2952] gi|238913870|ref|ZP_04657707.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Tennessee str. CDC07-0191] gi|253771881|ref|YP_003034712.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|254038456|ref|ZP_04872512.1| DNA-directed RNA polymerase [Escherichia sp. 1_1_43] gi|254163223|ref|YP_003046331.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli B str. REL606] gi|254795232|ref|YP_003080069.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 str. TW14359] gi|256020654|ref|ZP_05434519.1| DNA-directed RNA polymerase subunit alpha [Shigella sp. D9] gi|256025977|ref|ZP_05439842.1| DNA-directed RNA polymerase subunit alpha [Escherichia sp. 4_1_40B] gi|260846093|ref|YP_003223871.1| RNA polymerase, alpha subunit [Escherichia coli O103:H2 str. 12009] gi|260857416|ref|YP_003231307.1| RNA polymerase, alpha subunit [Escherichia coli O26:H11 str. 11368] gi|260870038|ref|YP_003236440.1| RNA polymerase, alpha subunit [Escherichia coli O111:H- str. 11128] gi|261224600|ref|ZP_05938881.1| RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. FRIK2000] gi|261254506|ref|ZP_05947039.1| RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. FRIK966] gi|283788069|ref|YP_003367934.1| DNA-directed RNA polymerase alpha chain [Citrobacter rodentium ICC168] gi|289824200|ref|ZP_06543795.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-3139] gi|291284653|ref|YP_003501471.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O55:H7 str. CB9615] gi|293406892|ref|ZP_06650816.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli FVEC1412] gi|293412714|ref|ZP_06655382.1| DNA-directed RNA polymerase [Escherichia coli B354] gi|293416714|ref|ZP_06659351.1| DNA-directed RNA polymerase [Escherichia coli B185] gi|293453614|ref|ZP_06664033.1| DNA-directed RNA polymerase [Escherichia coli B088] gi|297517819|ref|ZP_06936205.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli OP50] gi|298382633|ref|ZP_06992228.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli FVEC1302] gi|300815494|ref|ZP_07095719.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 107-1] gi|300822901|ref|ZP_07103037.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 119-7] gi|300896644|ref|ZP_07115160.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 198-1] gi|300903544|ref|ZP_07121466.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 84-1] gi|300918270|ref|ZP_07134874.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 115-1] gi|300921895|ref|ZP_07138051.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 182-1] gi|300932189|ref|ZP_07147468.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 187-1] gi|300935294|ref|ZP_07150304.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 21-1] gi|300946518|ref|ZP_07160783.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 116-1] gi|300954830|ref|ZP_07167256.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 175-1] gi|300973975|ref|ZP_07172382.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 200-1] gi|300979868|ref|ZP_07174744.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 45-1] gi|301018839|ref|ZP_07183083.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 69-1] gi|301021165|ref|ZP_07185203.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 196-1] gi|301046067|ref|ZP_07193245.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 185-1] gi|301305505|ref|ZP_07211597.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 124-1] gi|301325137|ref|ZP_07218671.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 78-1] gi|301643884|ref|ZP_07243915.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 146-1] gi|306816362|ref|ZP_07450500.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli NC101] gi|307139978|ref|ZP_07499334.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli H736] gi|307315126|ref|ZP_07594709.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli W] gi|309794571|ref|ZP_07688993.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 145-7] gi|312972444|ref|ZP_07786618.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 1827-70] gi|331643991|ref|ZP_08345120.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H736] gi|331649092|ref|ZP_08350178.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli M605] gi|331659585|ref|ZP_08360523.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA206] gi|331664908|ref|ZP_08365809.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA143] gi|331670124|ref|ZP_08370963.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA271] gi|331674801|ref|ZP_08375558.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA280] gi|331679364|ref|ZP_08380034.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H591] gi|331684937|ref|ZP_08385523.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H299] gi|62287386|sp|Q5PK10|RPOA_SALPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288914|sp|P0A7Z4|RPOA_ECOLI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288915|sp|P0A7Z5|RPOA_ECOL6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288916|sp|P0A7Z6|RPOA_ECO57 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288917|sp|P0A7Z7|RPOA_SALTY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288918|sp|P0A7Z8|RPOA_SALTI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62288919|sp|P0A7Z9|RPOA_SHIFL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110865|sp|Q31VY1|RPOA_SHIBS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110867|sp|Q3YWW4|RPOA_SHISS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366680|sp|Q0TCG6|RPOA_ECOL5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366681|sp|Q1R637|RPOA_ECOUT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|123342435|sp|Q0T007|RPOA_SHIF8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512617|sp|A1AGI6|RPOA_ECOK1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171855221|sp|A7ZSI4|RPOA_ECO24 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172044360|sp|A8A5A0|RPOA_ECOHS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172045613|sp|A8AQJ0|RPOA_CITK8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|25288369|pir||AB1009 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain [imported] - Salmonella enterica subsp. enterica serovar Typhi (strain CT18) gi|266618715|pdb|3IYD|A Chain A, Three-Dimensional Em Structure Of An Intact Activator- Dependent Transcription Initiation Complex gi|266618716|pdb|3IYD|B Chain B, Three-Dimensional Em Structure Of An Intact Activator- Dependent Transcription Initiation Complex gi|307776495|pdb|3LU0|A Chain A, Molecular Model Of Escherichia Coli Core Rna Polymerase gi|307776496|pdb|3LU0|B Chain B, Molecular Model Of Escherichia Coli Core Rna Polymerase gi|12517924|gb|AAG58416.1|AE005556_9 RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EDL933] gi|26110308|gb|AAN82494.1|AE016767_254 DNA-directed RNA polymerase alpha chain [Escherichia coli CFT073] gi|42807|emb|CAA25337.1| unnamed protein product [Escherichia coli] gi|147715|gb|AAA24577.1| RNA polymerase alpha subunit [Escherichia coli] gi|154353|gb|AAA27214.1| RNA polymerase alpha-subunit [Salmonella enterica subsp. enterica serovar Typhimurium] gi|606229|gb|AAA58092.1| CG Site No. 234 [Escherichia coli str. K-12 substr. MG1655] gi|1789690|gb|AAC76320.1| RNA polymerase, alpha subunit [Escherichia coli str. K-12 substr. MG1655] gi|13363633|dbj|BAB37583.1| RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. Sakai] gi|16421971|gb|AAL22278.1| RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] gi|16505175|emb|CAD09171.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Typhi] gi|22774035|gb|AAN07185.1| RNA polymerase alpha subunit [Cloning vector pIA423] gi|24053769|gb|AAN44790.1| RNA polymerase, alpha subunit [Shigella flexneri 2a str. 301] gi|29139993|gb|AAO71557.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Typhi str. Ty2] gi|30043666|gb|AAP19386.1| RNA polymerase, alpha subunit [Shigella flexneri 2a str. 2457T] gi|56129591|gb|AAV79097.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150] gi|73857291|gb|AAZ89998.1| RNA polymerase, alpha subunit [Shigella sonnei Ss046] gi|81247069|gb|ABB67777.1| RNA polymerase alpha subunit [Shigella boydii Sb227] gi|85676746|dbj|BAE77996.1| RNA polymerase, alpha subunit [Escherichia coli str. K12 substr. W3110] gi|91074296|gb|ABE09177.1| RNA polymerase, alpha subunit [Escherichia coli UTI89] gi|110345126|gb|ABG71363.1| DNA-directed RNA polymerase alpha chain [Escherichia coli 536] gi|110616691|gb|ABF05358.1| RNA polymerase, alpha subunit [Shigella flexneri 5 str. 8401] gi|115514701|gb|ABJ02776.1| RNA polymerase, alpha subunit [Escherichia coli APEC O1] gi|157068449|gb|ABV07704.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli HS] gi|157079480|gb|ABV19188.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E24377A] gi|157086075|gb|ABV15753.1| hypothetical protein CKO_04708 [Citrobacter koseri ATCC BAA-895] gi|160867379|gb|ABX24002.1| hypothetical protein SARI_04213 [Salmonella enterica subsp. arizonae serovar 62:z4,z23:--] gi|161365804|gb|ABX69572.1| hypothetical protein SPAB_04255 [Salmonella enterica subsp. enterica serovar Paratyphi B str. SPB7] gi|169753397|gb|ACA76096.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli ATCC 8739] gi|169890650|gb|ACB04357.1| RNA polymerase, alpha subunit [Escherichia coli str. K-12 substr. DH10B] gi|170521144|gb|ACB19322.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli SMS-3-5] gi|187428720|gb|ACD07994.1| DNA-directed RNA polymerase, alpha subunit [Shigella boydii CDC 3083-94] gi|187766995|gb|EDU30839.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4196] gi|188013845|gb|EDU51967.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4113] gi|188490199|gb|EDU65302.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 53638] gi|189354678|gb|EDU73097.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4401] gi|189361767|gb|EDU80186.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4486] gi|189365126|gb|EDU83542.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4501] gi|189374058|gb|EDU92474.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC869] gi|189375355|gb|EDU93771.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC508] gi|190900662|gb|EDV60462.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli B7A] gi|192925874|gb|EDV80524.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E22] gi|192955148|gb|EDV85642.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E110019] gi|194401315|gb|ACF61537.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Newport str. SL254] gi|194405684|gb|ACF65903.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Heidelberg str. SL476] gi|194411676|gb|EDX28003.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli B171] gi|194421072|gb|EDX37101.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 101-1] gi|194455652|gb|EDX44491.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Kentucky str. CVM29188] gi|194710623|gb|ACF89844.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Schwarzengrund str. CVM19633] gi|195628904|gb|EDX48314.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Newport str. SL317] gi|197095741|emb|CAR61311.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601] gi|197212265|gb|ACH49662.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Agona str. SL483] gi|197241195|gb|EDY23815.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Saintpaul str. SARA23] gi|197939448|gb|ACH76781.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Dublin str. CT_02021853] gi|199604787|gb|EDZ03332.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Virchow str. SL491] gi|204319833|gb|EDZ05043.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Javiana str. GA_MM04042433] gi|205274738|emb|CAR39794.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91] gi|205346884|gb|EDZ33515.1| DNA-directed RNA polymerase, alpha subunit [Salmonella enterica subsp. enterica serovar Hadar str. RI_05P066] gi|206710460|emb|CAR34818.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Enteritidis str. P125109] gi|208726332|gb|EDZ75933.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4206] gi|208734774|gb|EDZ83461.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4045] gi|208739032|gb|EDZ86714.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4042] gi|209158188|gb|ACI35621.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. EC4115] gi|209757288|gb|ACI76956.1| RNA polymerase, alpha subunit [Escherichia coli] gi|209757290|gb|ACI76957.1| RNA polymerase, alpha subunit [Escherichia coli] gi|209757292|gb|ACI76958.1| RNA polymerase, alpha subunit [Escherichia coli] gi|209757294|gb|ACI76959.1| RNA polymerase, alpha subunit [Escherichia coli] gi|209757296|gb|ACI76960.1| RNA polymerase, alpha subunit [Escherichia coli] gi|209914020|dbj|BAG79094.1| RNA polymerase alpha subunit [Escherichia coli SE11] gi|215266667|emb|CAS11106.1| RNA polymerase, alpha subunit [Escherichia coli O127:H6 str. E2348/69] gi|217321062|gb|EEC29486.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. TW14588] gi|218353720|emb|CAU99996.1| RNA polymerase, alpha subunit [Escherichia coli 55989] gi|218358112|emb|CAQ90759.1| RNA polymerase, alpha subunit [Escherichia fergusonii ATCC 35469] gi|218362621|emb|CAR00247.1| RNA polymerase, alpha subunit [Escherichia coli IAI1] gi|218367126|emb|CAR04900.1| RNA polymerase, alpha subunit [Escherichia coli S88] gi|218372044|emb|CAR19904.1| RNA polymerase, alpha subunit [Escherichia coli IAI39] gi|218429146|emb|CAR10098.2| RNA polymerase, alpha subunit [Escherichia coli ED1a] gi|218434000|emb|CAR14917.1| RNA polymerase, alpha subunit [Escherichia coli UMN026] gi|222035004|emb|CAP77747.1| DNA-directed RNA polymerase alpha chain [Escherichia coli LF82] gi|226838962|gb|EEH70985.1| DNA-directed RNA polymerase [Escherichia sp. 1_1_43] gi|226902289|gb|EEH88548.1| RNA polymerase [Escherichia sp. 3_2_53FAA] gi|238863493|gb|ACR65491.1| RNA polymerase, alpha subunit [Escherichia coli BW2952] gi|242378822|emb|CAQ33614.1| RNA polymerase, alpha subunit, subunit of RNA polymerase, core enzyme, RNA polymerase sigma 70, RNA polymerase sigma 54, RNA polymerase sigma 32, RNA polymerase sigma 38, RNA polymerase sigma 28, RNA polymerase sigma 19 and RNA polymerase sigma 24 [Escherichia coli BL21(DE3)] gi|253322925|gb|ACT27527.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 'BL21-Gold(DE3)pLysS AG'] gi|253975124|gb|ACT40795.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli B str. REL606] gi|253979280|gb|ACT44950.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli BL21(DE3)] gi|254594632|gb|ACT73993.1| RNA polymerase, alpha subunit [Escherichia coli O157:H7 str. TW14359] gi|257756065|dbj|BAI27567.1| RNA polymerase, alpha subunit [Escherichia coli O26:H11 str. 11368] gi|257761240|dbj|BAI32737.1| RNA polymerase, alpha subunit [Escherichia coli O103:H2 str. 12009] gi|257766394|dbj|BAI37889.1| RNA polymerase, alpha subunit [Escherichia coli O111:H- str. 11128] gi|260447686|gb|ACX38108.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli DH1] gi|261248572|emb|CBG26410.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Typhimurium str. D23580] gi|267995624|gb|ACY90509.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S] gi|281180330|dbj|BAI56660.1| RNA polymerase alpha subunit [Escherichia coli SE15] gi|281602660|gb|ADA75644.1| DNA-directed RNA polymerase subunit alpha [Shigella flexneri 2002017] gi|282951523|emb|CBG91222.1| DNA-directed RNA polymerase alpha chain [Citrobacter rodentium ICC168] gi|284923301|emb|CBG36395.1| DNA-directed RNA polymerase alpha chain [Escherichia coli 042] gi|290764526|gb|ADD58487.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O55:H7 str. CB9615] gi|291321740|gb|EFE61171.1| DNA-directed RNA polymerase [Escherichia coli B088] gi|291425703|gb|EFE98737.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli FVEC1412] gi|291431290|gb|EFF04275.1| DNA-directed RNA polymerase [Escherichia coli B185] gi|291468361|gb|EFF10854.1| DNA-directed RNA polymerase [Escherichia coli B354] gi|294490097|gb|ADE88853.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli IHE3034] gi|298276469|gb|EFI17987.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli FVEC1302] gi|299881641|gb|EFI89852.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 196-1] gi|300301893|gb|EFJ58278.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 185-1] gi|300308985|gb|EFJ63505.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 200-1] gi|300318230|gb|EFJ68014.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 175-1] gi|300359475|gb|EFJ75345.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 198-1] gi|300399549|gb|EFJ83087.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 69-1] gi|300404417|gb|EFJ87955.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 84-1] gi|300409379|gb|EFJ92917.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 45-1] gi|300414531|gb|EFJ97841.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 115-1] gi|300421743|gb|EFK05054.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 182-1] gi|300453764|gb|EFK17384.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 116-1] gi|300459450|gb|EFK22943.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 21-1] gi|300460013|gb|EFK23506.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 187-1] gi|300524667|gb|EFK45736.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 119-7] gi|300532386|gb|EFK53448.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 107-1] gi|300839200|gb|EFK66960.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 124-1] gi|300848016|gb|EFK75776.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 78-1] gi|301077787|gb|EFK92593.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 146-1] gi|301159958|emb|CBW19477.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344] gi|305850758|gb|EFM51215.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli NC101] gi|306905475|gb|EFN36010.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli W] gi|307555383|gb|ADN48158.1| DNA-directed RNA polymerase alpha chain [Escherichia coli ABU 83972] gi|307628330|gb|ADN72634.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli UM146] gi|308121621|gb|EFO58883.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 145-7] gi|309703707|emb|CBJ03048.1| DNA-directed RNA polymerase alpha chain [Escherichia coli ETEC H10407] gi|310334821|gb|EFQ01026.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 1827-70] gi|312914438|dbj|BAJ38412.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhimurium str. T000240] gi|312947846|gb|ADR28673.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O83:H1 str. NRG 857C] gi|313647395|gb|EFS11847.1| DNA-directed RNA polymerase, alpha subunit [Shigella flexneri 2a str. 2457T] gi|315062587|gb|ADT76914.1| RNA polymerase, alpha subunit [Escherichia coli W] gi|315137870|dbj|BAJ45029.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli DH1] gi|315255879|gb|EFU35847.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 85-1] gi|315284629|gb|EFU44074.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 110-3] gi|315292387|gb|EFU51739.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 153-1] gi|315298594|gb|EFU57849.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 16-3] gi|315617097|gb|EFU97707.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 3431] gi|320087860|emb|CBY97623.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Weltevreden str. 2007-60-3289-1] gi|320173939|gb|EFW49115.1| DNA-directed RNA polymerase alpha subunit [Shigella dysenteriae CDC 74-1112] gi|320182707|gb|EFW57593.1| DNA-directed RNA polymerase alpha subunit [Shigella boydii ATCC 9905] gi|320187016|gb|EFW61728.1| DNA-directed RNA polymerase alpha subunit [Shigella flexneri CDC 796-83] gi|320191671|gb|EFW66321.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli O157:H7 str. EC1212] gi|320195387|gb|EFW70014.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli WV_060327] gi|320199482|gb|EFW74072.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli EC4100B] gi|320639600|gb|EFX09194.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 str. G5101] gi|320645098|gb|EFX14114.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H- str. 493-89] gi|320650409|gb|EFX18875.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H- str. H 2687] gi|320655934|gb|EFX23854.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O55:H7 str. 3256-97 TW 07815] gi|320661386|gb|EFX28801.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O55:H7 str. USDA 5905] gi|320666408|gb|EFX33391.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 str. LSU-61] gi|321226466|gb|EFX51516.1| DNA-directed RNA polymerase alpha subunit [Salmonella enterica subsp. enterica serovar Typhimurium str. TN061786] gi|322615044|gb|EFY11968.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 315996572] gi|322617331|gb|EFY14232.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-1] gi|322625553|gb|EFY22378.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-3] gi|322626395|gb|EFY23204.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 495297-4] gi|322632093|gb|EFY28846.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-1] gi|322635028|gb|EFY31751.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 515920-2] gi|322643271|gb|EFY39838.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 531954] gi|322646645|gb|EFY43152.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. NC_MB110209-0054] gi|322649991|gb|EFY46410.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. OH_2009072675] gi|322652708|gb|EFY49048.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. CASC_09SCPH15965] gi|322665523|gb|EFY61710.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 81038-01] gi|322670417|gb|EFY66556.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. MD_MDA09249507] gi|322670490|gb|EFY66624.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 414877] gi|322675066|gb|EFY71149.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 366867] gi|322681603|gb|EFY77632.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 413180] gi|322685947|gb|EFY81936.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 446600] gi|323131773|gb|ADX19203.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhimurium str. 4/74] gi|323154133|gb|EFZ40336.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli EPECa14] gi|323162974|gb|EFZ48809.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli E128010] gi|323164859|gb|EFZ50650.1| DNA-directed RNA polymerase, alpha subunit [Shigella sonnei 53G] gi|323173931|gb|EFZ59559.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli LT-68] gi|323179169|gb|EFZ64743.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 1180] gi|323182773|gb|EFZ68174.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 1357] gi|323189100|gb|EFZ74384.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli RN587/1] gi|323195817|gb|EFZ80990.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 609458-1] gi|323196427|gb|EFZ81578.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 556150-1] gi|323202334|gb|EFZ87379.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 609460] gi|323207317|gb|EFZ92267.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 507440-20] gi|323211247|gb|EFZ96092.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 556152] gi|323216044|gb|EGA00775.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. MB101509-0077] gi|323223465|gb|EGA07793.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. MB102109-0047] gi|323226805|gb|EGA10995.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. MB110209-0055] gi|323231833|gb|EGA15943.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. MB111609-0052] gi|323233214|gb|EGA17309.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 2009083312] gi|323237281|gb|EGA21346.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 2009085258] gi|323245516|gb|EGA29515.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 315731156] gi|323249022|gb|EGA32944.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2009159199] gi|323250645|gb|EGA34526.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008282] gi|323256874|gb|EGA40588.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008283] gi|323263023|gb|EGA46570.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008284] gi|323266023|gb|EGA49518.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008285] gi|323272780|gb|EGA56183.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. IA_2010008287] gi|323376826|gb|ADX49094.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli KO11] gi|323934506|gb|EGB30914.1| DNA-directed RNA polymerase [Escherichia coli E1520] gi|323939283|gb|EGB35495.1| DNA-directed RNA polymerase [Escherichia coli E482] gi|323944284|gb|EGB40360.1| DNA-directed RNA polymerase [Escherichia coli H120] gi|323950209|gb|EGB46091.1| DNA-directed RNA polymerase [Escherichia coli H252] gi|323954582|gb|EGB50365.1| DNA-directed RNA polymerase [Escherichia coli H263] gi|323959554|gb|EGB55207.1| DNA-directed RNA polymerase [Escherichia coli H489] gi|323966257|gb|EGB61692.1| DNA-directed RNA polymerase [Escherichia coli M863] gi|323970099|gb|EGB65373.1| DNA-directed RNA polymerase [Escherichia coli TA007] gi|323974752|gb|EGB69865.1| DNA-directed RNA polymerase [Escherichia coli TW10509] gi|324009030|gb|EGB78249.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 57-2] gi|324014912|gb|EGB84131.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 60-1] gi|324017886|gb|EGB87105.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli MS 117-3] gi|324111974|gb|EGC05953.1| DNA-directed RNA polymerase [Escherichia fergusonii B253] gi|324116315|gb|EGC10235.1| DNA-directed RNA polymerase [Escherichia coli E1167] gi|325498864|gb|EGC96723.1| DNA-directed RNA polymerase subunit alpha [Escherichia fergusonii ECD227] gi|326342543|gb|EGD66317.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli O157:H7 str. 1044] gi|326344530|gb|EGD68279.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli O157:H7 str. 1125] gi|326625159|gb|EGE31504.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Dublin str. 3246] gi|326630106|gb|EGE36449.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Gallinarum str. 9] gi|330909339|gb|EGH37853.1| DNA-directed RNA polymerase alpha subunit [Escherichia coli AA86] gi|331036285|gb|EGI08511.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H736] gi|331041590|gb|EGI13734.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli M605] gi|331052800|gb|EGI24833.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA206] gi|331057418|gb|EGI29404.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA143] gi|331062186|gb|EGI34106.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA271] gi|331067710|gb|EGI39108.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli TA280] gi|331072536|gb|EGI43861.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H591] gi|331077308|gb|EGI48520.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli H299] gi|332085444|gb|EGI90610.1| DNA-directed RNA polymerase, alpha subunit [Shigella boydii 5216-82] gi|332104202|gb|EGJ07548.1| RNA polymerase alpha subunit [Shigella sp. D9] Length = 329 Score = 364 bits (935), Expect = 9e-99, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|94987424|ref|YP_595357.1| DNA-directed RNA polymerase subunit alpha [Lawsonia intracellularis PHE/MN1-00] gi|119366693|sp|Q1MPP1|RPOA_LAWIP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|94731673|emb|CAJ55036.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Lawsonia intracellularis PHE/MN1-00] Length = 347 Score = 364 bits (935), Expect = 9e-99, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 218/336 (64%), Gaps = 1/336 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW +L++P + + EPL RG+ T+GNALRRVL+SSL+GAA + Sbjct: 12 SRNWAKLVRPEAV-INNMESNTTTYGRFEYEPLERGYGITIGNALRRVLLSSLQGAAFVS 70 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+I GV HE ++I G+ ED+TDIILN+K + L M D + +++F G+VTA DIQT Sbjct: 71 VKILGVQHEFTTIPGILEDVTDIILNLKQVRLAMDTDEPQHLSLFVSKKGIVTAADIQTN 130 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +EVLNP+ I L D +RME V G GYVPA+ H ++ IGLI +D+ +SPI+ Sbjct: 131 QHVEVLNPEQHIATLTEDIELRMEFEVRMGKGYVPAEMHEDLHEEIGLIKLDSSFSPIRN 190 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE AR GQ+ +YDKL + + TDGS++ ED++A +++I++DQ+ +FINF+E Sbjct: 191 VTYVVEQARVGQMTNYDKLVLEVWTDGSVSPEDAIAYSAKIIKDQISVFINFDERISGSG 250 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + S N L K ++ELELSVR+TNCLR NI +G+L+Q+ EADML+ NFG+KS Sbjct: 251 GNEGSGSSDLNDNLFKGIDELELSVRATNCLRSANISTVGELVQKAEADMLKTKNFGKKS 310 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 L EIK +L +MGL GM + + + E K++ + Sbjct: 311 LDEIKALLTSMGLDFGMKIDGFEKKYQEWKRKQHHE 346 >gi|205372042|ref|ZP_03224859.1| DNA-directed RNA polymerase subunit alpha [Bacillus coahuilensis m4-4] Length = 314 Score = 364 bits (935), Expect = 9e-99, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEV-SDDATYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T +ILNIK + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTSMILNIKKLALKIYSDEEKTLEIDIKGNGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L D+ +RM L +G GY PA ++ E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLSGDSHLRMRLNAQRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKLS+ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQLTNYDKLSLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLDELGLGL 310 >gi|54307566|ref|YP_128586.1| DNA-directed RNA polymerase subunit alpha [Photobacterium profundum SS9] gi|61215937|sp|Q6LV91|RPOA_PHOPR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|46911986|emb|CAG18784.1| putative DNA-directed RNA polymerase, alpha subunit [Photobacterium profundum SS9] Length = 329 Score = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 149/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GVHED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSTKEGVHEDILEILLNLKGLAIKVEGKDEVILTLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDHAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|331654888|ref|ZP_08355887.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli M718] gi|331046903|gb|EGI18981.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli M718] Length = 329 Score = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDAYY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|148826553|ref|YP_001291306.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittEE] gi|172048050|sp|A5UDS2|RPOA_HAEIE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148716713|gb|ABQ98923.1| DNA-directed RNA polymerase subunit alpha [Haemophilus influenzae PittEE] Length = 328 Score = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 148/333 (44%), Positives = 220/333 (66%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+ + + K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVQNKDDVILILNKSGIGPVVAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYS 178 ++E++NPDHVIC+L D +A + M + V +G GYVPA H E PIG + +DA YS Sbjct: 118 DGNVEIVNPDHVICHLTDENASISMRIRVQRGRGYVPASSRTHTQEERPIGRLLVDACYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVERIAYNVEAARVEQRTDLDKLVIELETNGALEPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 QP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 327 >gi|77361710|ref|YP_341285.1| DNA-directed RNA polymerase subunit alpha [Pseudoalteromonas haloplanktis TAC125] gi|90110860|sp|Q3IJI6|RPOA_PSEHT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|76876621|emb|CAI87843.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Pseudoalteromonas haloplanktis TAC125] Length = 328 Score = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + R+ ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIDAI---NPTRSKIVLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ + + G +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSAKEGVQEDIIEILLNLKGLAVTLEGKDEVFLTLAKSGVGPVTASDIQH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALY 177 D+ + NPDHVICNL ++ + M + V +G GYVPA + PIG + +DA + Sbjct: 118 DGDVTIANPDHVICNLTTNNSEISMRIRVERGRGYVPASSRLSSDDDERPIGRLLLDASF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS IL +QL F++ + Sbjct: 178 SPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDPEEAIRRASTILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 ---TEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 328 >gi|238763709|ref|ZP_04624668.1| DNA-directed RNA polymerase subunit alpha [Yersinia kristensenii ATCC 33638] gi|238698011|gb|EEP90769.1| DNA-directed RNA polymerase subunit alpha [Yersinia kristensenii ATCC 33638] Length = 330 Score = 364 bits (935), Expect = 1e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQPEVKEEKPEFVP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|301628933|ref|XP_002943603.1| PREDICTED: DNA-directed RNA polymerase subunit alpha-like [Xenopus (Silurana) tropicalis] Length = 332 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 162/337 (48%), Positives = 219/337 (64%), Gaps = 13/337 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I+ LG NR + EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTIQVEQLGH---NRAKVELEPFERGYGHTLGNALRRVLLSSMVGYAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G GVVTA DIQT Sbjct: 55 EVTIVGVLHEYSSIDGVQEDVVNILLNLKGVVFKLYNRDEVTLSLRKDGEGVVTARDIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI +L A + M++ V KG GYVP R ++P I +DA +S Sbjct: 115 PHDVEIINPDHVIAHLSQGAKLDMQIKVEKGRGYVPGNVRRYGDEPTKTIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+VSYTVESAR Q D DKL + I+T+G+IT E++V +++IL +QL +F E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVVEIETNGAITAEEAVRASAKILVEQLAVFAQLEGGD 234 Query: 239 KE----VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 IDGMLIGSGASRSSATTFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLK 294 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L +WPP +++ Sbjct: 295 TPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLDK 331 >gi|62181920|ref|YP_218337.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|75480371|sp|Q57J56|RPOA_SALCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62129553|gb|AAX67256.1| DNA-directed RNA polymerase alpha chain [Salmonella enterica subsp. enterica serovar Choleraesuis str. SC-B67] gi|322716406|gb|EFZ07977.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Choleraesuis str. A50] Length = 329 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L DWPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLEDWPPASIAD 328 >gi|37528519|ref|NP_931864.1| DNA-directed RNA polymerase subunit alpha [Photorhabdus luminescens subsp. laumondii TTO1] gi|253991664|ref|YP_003043020.1| DNA-directed RNA polymerase subunit alpha [Photorhabdus asymbiotica subsp. asymbiotica ATCC 43949] gi|41688627|sp|Q7MYH5|RPOA_PHOLL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|36787957|emb|CAE17074.1| RNA polymerase alpha subunit [Photorhabdus luminescens subsp. laumondii TTO1] gi|253783114|emb|CAQ86279.1| DNA-directed RNA polymerase alpha chain [Photorhabdus asymbiotica] Length = 329 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L + A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDETASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|46579740|ref|YP_010548.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio vulgaris str. Hildenborough] gi|120602783|ref|YP_967183.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio vulgaris DP4] gi|61215968|sp|Q72CF4|RPOA_DESVH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513912|sp|A1VE90|RPOA_DESVV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|46449155|gb|AAS95807.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio vulgaris str. Hildenborough] gi|120563012|gb|ABM28756.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio vulgaris DP4] gi|311233531|gb|ADP86385.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio vulgaris RCH1] Length = 347 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 149/335 (44%), Positives = 217/335 (64%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP I + + EPL RG+A T+GNA+RRVL+SSL+GAA AV Sbjct: 13 RNWSELVKPEQISRDGEVSDT-MYGKFVCEPLERGYATTIGNAMRRVLLSSLQGAAFVAV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TD++LN+K + L M + + + + G +TAGD++T Sbjct: 72 KISGVQHEFTTIPGVLEDVTDVVLNLKQVRLAMDTEEPQYLELKVDKRGAITAGDVRTNQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + VLNPD I L D + EL V G GYVPA H ++ IGLI +DA +SP++KV Sbjct: 132 HVMVLNPDQHIATLTEDIELTFELEVRMGKGYVPADMHEGLSEEIGLIKLDASFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YDKL + + TDGS++ ED++A +++I++DQ+ +FINF+E Sbjct: 192 AYTVEQARVGQMTNYDKLILEVWTDGSVSPEDAIAYSAKIIKDQISVFINFDERISGENS 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + S FN L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGRKSL Sbjct: 252 NGSADSGEFNEHLFKSIDELELSVRATNCLKSANIALVGELVQKSENEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EI+ VLG MGL G + + + E K+ + Sbjct: 312 DEIRRVLGDMGLDFGTKVDGFEKKYQEWKRKQQHE 346 >gi|295677906|ref|YP_003606430.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. CCGE1002] gi|295437749|gb|ADG16919.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. CCGE1002] Length = 325 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGESHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESSKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTEAAAET 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 240 P--SRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|300718680|ref|YP_003743483.1| DNA-directed RNA polymerase subunit alpha [Erwinia billingiae Eb661] gi|299064516|emb|CAX61636.1| DNA-directed RNA polymerase subunit alpha [Erwinia billingiae Eb661] Length = 329 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+EV+ P HVIC+L D +A + M + + +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEVVKPQHVICHLTDENAAISMRIKIQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|237806900|ref|YP_002891340.1| DNA-directed RNA polymerase subunit alpha [Tolumonas auensis DSM 9187] gi|259494173|sp|C4L7V5|RPOA_TOLAT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|237499161|gb|ACQ91754.1| DNA-directed RNA polymerase, alpha subunit [Tolumonas auensis DSM 9187] Length = 329 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + + +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MLGSVTDFLKPRLVD---IEQLSPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVA 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KGI +K+ G +++ K G G VTAGDI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGIAVKLEGKDEVILSLTKSGAGPVTAGDIIH 117 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 +D+ ++NP+HVIC+L +A + M L V +G GYVPA H E+ PIG + +DA + Sbjct: 118 GDDVVIVNPEHVICHLTGANAEISMRLRVQRGRGYVPASARLHTDDEDRPIGRLLLDAAF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVVRIAYNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 SVPEKKEDK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP S+ + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASLAD 328 >gi|261400077|ref|ZP_05986202.1| DNA-directed RNA polymerase, alpha subunit [Neisseria lactamica ATCC 23970] gi|313667466|ref|YP_004047750.1| DNA-directed RNA polymerase alpha chain [Neisseria lactamica ST-640] gi|269210302|gb|EEZ76757.1| DNA-directed RNA polymerase, alpha subunit [Neisseria lactamica ATCC 23970] gi|309379134|emb|CBX22265.1| DNA-directed RNA polymerase, alpha subunit [Neisseria lactamica Y92-1009] gi|313004928|emb|CBN86354.1| DNA-directed RNA polymerase alpha chain [Neisseria lactamica 020-06] Length = 328 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 160/333 (48%), Positives = 217/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTAEFLKPRQIDVNTF---SATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LNIKGI K+ G S ++ + K G GVV+AGDI+ Sbjct: 58 EVAIAGVLHEYSTVDGVQEDVVDILLNIKGIVFKLHGRSQVQLVLKKTGSGVVSAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E+LNPDHVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEILNPDHVICHLADNGQIEMEIKVEQGRGYQSVSGRQAVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F N + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFANLQGTP 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E ++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 238 VE---EVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 327 >gi|329907624|ref|ZP_08274694.1| DNA-directed RNA polymerase alpha subunit [Oxalobacteraceae bacterium IMCC9480] gi|327546929|gb|EGF31838.1| DNA-directed RNA polymerase alpha subunit [Oxalobacteraceae bacterium IMCC9480] Length = 325 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 211/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE LG ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNS---LLKPRIIEVETLGAG---HAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE SS+ GV ED+ D++LN+KG+ K+ +T+ K G G V A DI Sbjct: 55 EVTIAGVVHEYSSLDGVQEDVVDMLLNLKGVVFKLHNRDEVTLTLKKDGEGAVLASDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP R D I +DA +S Sbjct: 115 PHDVELINPDHVIAHLTAGGKLDMQIKVEKGRGYVPGNVRRLAEDANKTIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY+VESAR Q D DKL + I+T+G I+ E+++ ++R+L DQL +F E + Sbjct: 175 PVRRVSYSVESARVEQRTDLDKLVINIETNGVISPEEAIRQSARVLVDQLNVFAALEGTE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 235 AAAE--APSRAPSVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >gi|90416841|ref|ZP_01224770.1| DNA-directed RNA polymerase alpha chain [marine gamma proteobacterium HTCC2207] gi|90331188|gb|EAS46432.1| DNA-directed RNA polymerase alpha chain [marine gamma proteobacterium HTCC2207] Length = 331 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 150/335 (44%), Positives = 217/335 (64%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P NI+ ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQNSANEFLTPRNIDVT---SYSPTHAKVVLEPLERGFGHTLGNALRRILLSSMSGCAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+I+GVHED+ I+LN+KG+ + M G V++ +GP VVTAGDI+ Sbjct: 58 EVEIEGVEHEYSAIEGVHEDVMGILLNLKGVAVVMEGRDETTVSLSVKGPCVVTAGDIEV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP--AKHHRTENDPIGLITIDALYSP 179 + +EV+NPDHVI + + ++L + +G GY P A+ +N IG + +DA +SP Sbjct: 118 DSHVEVINPDHVIATISDKCTLNIQLRIERGRGYQPSDARISDEDNRTIGRLQLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KVSY+VE+AR D DKL + ++T+G+I E+S+ A+ ILQ Q+ +F+N E Sbjct: 178 IHKVSYSVENARVENRTDLDKLVLELETNGTIDPEESIRRAATILQQQMAVFVNLE---G 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + K +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 235 ETAAEPEEKEEEIDPILLRPVDDLELTVRSANCLKAESIYYIGDLIQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 +KSL EIK VL + GL LGM L +WPP S++ + Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPASLKSERE 329 >gi|269128485|ref|YP_003301855.1| DNA-directed RNA polymerase subunit alpha [Thermomonospora curvata DSM 43183] gi|268313443|gb|ACY99817.1| DNA-directed RNA polymerase, alpha subunit [Thermomonospora curvata DSM 43183] Length = 337 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 129/317 (40%), Positives = 188/317 (59%), Gaps = 4/317 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E Q +E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVL Sbjct: 5 QRPTLTE----EQIDEYRSRFIIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+TDIILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFSTIPGVKEDVTDIILNLKELVVSSEHDEPVVMYLRKQGPGQVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNSKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T ++ D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLILDVETKPAMLPRDAVASAGKTLVELFGLARELNVEAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFGAKSIEEVKQK 300 Query: 310 LGTMGLFLGMNLPDWPP 326 L MGL L + P + P Sbjct: 301 LADMGLSLKDSPPGFDP 317 >gi|78064950|ref|YP_367719.1| DNA-directed RNA polymerase subunit alpha [Burkholderia sp. 383] gi|107024277|ref|YP_622604.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia AU 1054] gi|115350348|ref|YP_772187.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ambifaria AMMD] gi|116688398|ref|YP_834021.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia HI2424] gi|134294469|ref|YP_001118204.1| DNA-directed RNA polymerase subunit alpha [Burkholderia vietnamiensis G4] gi|170700720|ref|ZP_02891715.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia ambifaria IOP40-10] gi|170731708|ref|YP_001763655.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia MC0-3] gi|171318374|ref|ZP_02907532.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia ambifaria MEX-5] gi|172059367|ref|YP_001807019.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ambifaria MC40-6] gi|206558667|ref|YP_002229427.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia J2315] gi|254246577|ref|ZP_04939898.1| DNA-directed RNA polymerase [Burkholderia cenocepacia PC184] gi|90101525|sp|Q39KE1|RPOA_BURS3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366669|sp|Q1BRX4|RPOA_BURCA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122324240|sp|Q0BJ20|RPOA_BURCM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512278|sp|A0K3Q1|RPOA_BURCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229265|sp|A4JAR6|RPOA_BURVG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238688546|sp|B1JU48|RPOA_BURCC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238689152|sp|B1YRQ5|RPOA_BURA4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238693061|sp|B4E5E6|RPOA_BURCJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|77965695|gb|ABB07075.1| DNA-directed RNA polymerase subunit alpha [Burkholderia sp. 383] gi|105894466|gb|ABF77631.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia AU 1054] gi|115280336|gb|ABI85853.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ambifaria AMMD] gi|116646487|gb|ABK07128.1| DNA-directed RNA polymerase subunit alpha [Burkholderia cenocepacia HI2424] gi|124871353|gb|EAY63069.1| DNA-directed RNA polymerase [Burkholderia cenocepacia PC184] gi|134137626|gb|ABO53369.1| DNA-directed RNA polymerase subunit alpha [Burkholderia vietnamiensis G4] gi|169814950|gb|ACA89533.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia cenocepacia MC0-3] gi|170134390|gb|EDT02723.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia ambifaria IOP40-10] gi|171096452|gb|EDT41351.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia ambifaria MEX-5] gi|171991884|gb|ACB62803.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia ambifaria MC40-6] gi|198034704|emb|CAR50571.1| DNA-directed RNA polymerase alpha chain [Burkholderia cenocepacia J2315] Length = 325 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 150/328 (45%), Positives = 210/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHARVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D + I +DA +SP+++V Sbjct: 120 VINPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|83591247|ref|YP_431256.1| DNA-directed RNA polymerase subunit alpha [Moorella thermoacetica ATCC 39073] gi|119366698|sp|Q2RFS6|RPOA_MOOTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|83574161|gb|ABC20713.1| DNA-directed RNA polymerase subunit alpha [Moorella thermoacetica ATCC 39073] Length = 313 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 203/310 (65%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKPK----IECQHLDDKYGRFVVEPLERGYGITLGNSLRRMLLSSLPGAAVTSVKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED TDIILNIK + LK+ D + + I GVVTAGDI T D+E+ Sbjct: 59 VLHEFSTIPGVVEDTTDIILNIKSLALKLHSDEPRVIRIEADDEGVVTAGDIITGADVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI ++ + ME+TV KG GYV A ++ E+ PIG+I +D+L+SPI KV+YTV Sbjct: 119 LNPEQVIATVEKGGRLYMEMTVEKGRGYVSADKNKKEDQPIGIIPVDSLFSPIHKVNYTV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGSI +++V+ A++IL + + +F+ E + + Sbjct: 179 ENTRVGQITDYDKLTLEVWTDGSIAPDEAVSSAAKILIEHMRLFLGLTERVSDEVTMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + + +EEL+LSVRS NCL+ I + +L+QR+E DM+++ N G+KSL E+ Sbjct: 239 EEETRDRLMDMSIEELDLSVRSYNCLKRAGINTVAELLQRSEEDMMKVRNLGKKSLEEVT 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 QKLSELGLSL 308 >gi|220903960|ref|YP_002479272.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] gi|254765250|sp|B8IYL7|RPOA_DESDA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|219868259|gb|ACL48594.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774] Length = 347 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 157/335 (46%), Positives = 220/335 (65%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP+ I + EPL RG+ T+GNA+RRVL++SL+GAA +V Sbjct: 13 RNWSELVKPDQI-LREEETASGTHGKFVCEPLERGYGTTIGNAMRRVLLASLQGAAFVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TD+ILNIK + L+M + +R+T+ G VTA DI Sbjct: 72 KIIGVQHEFTTIHGVLEDITDVILNIKQVRLRMDTEEPQRLTLRVERKGPVTAADIVANQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVLNPD I L D V+ MEL V G GYVPA H D IGLI +D+ +SP++KV Sbjct: 132 HVEVLNPDLHIATLTEDVVLEMELEVRMGKGYVPADMHEGLADEIGLIKLDSSFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 192 AYTVEQARVGQMTNYDRLLLEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDERVSGDMR 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + +S N L K +++LELSVR+TNCLR NI +G+L+QRTEA+ML+ NFGRKSL Sbjct: 252 NGSGESGEVNEHLFKSIDDLELSVRATNCLRSANIGLVGELVQRTEAEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIKGVL MGL GM + + + E K+ + Sbjct: 312 DEIKGVLLGMGLDFGMKVDSFDKKYQEWKRKQQNE 346 >gi|53720795|ref|YP_109781.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei K96243] gi|53723828|ref|YP_104140.1| DNA-directed RNA polymerase subunit alpha [Burkholderia mallei ATCC 23344] gi|76808919|ref|YP_335114.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 1710b] gi|121599305|ref|YP_994430.1| DNA-directed RNA polymerase subunit alpha [Burkholderia mallei SAVP1] gi|124385479|ref|YP_001027921.1| DNA-directed RNA polymerase subunit alpha [Burkholderia mallei NCTC 10229] gi|126440174|ref|YP_001060724.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 668] gi|126450024|ref|YP_001083016.1| DNA-directed RNA polymerase subunit alpha [Burkholderia mallei NCTC 10247] gi|126453965|ref|YP_001068008.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 1106a] gi|134283239|ref|ZP_01769940.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 305] gi|167001673|ref|ZP_02267465.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei PRL-20] gi|167721551|ref|ZP_02404787.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei DM98] gi|167740525|ref|ZP_02413299.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 14] gi|167817730|ref|ZP_02449410.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 91] gi|167826127|ref|ZP_02457598.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 9] gi|167847639|ref|ZP_02473147.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei B7210] gi|167896211|ref|ZP_02483613.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 7894] gi|167904593|ref|ZP_02491798.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei NCTC 13177] gi|167912858|ref|ZP_02499949.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei 112] gi|167920817|ref|ZP_02507908.1| DNA-directed RNA polymerase subunit alpha [Burkholderia pseudomallei BCC215] gi|217424731|ref|ZP_03456228.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 576] gi|226198177|ref|ZP_03793748.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei Pakistan 9] gi|237814119|ref|YP_002898570.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei MSHR346] gi|238562959|ref|ZP_00439640.2| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei GB8 horse 4] gi|242316674|ref|ZP_04815690.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1106b] gi|254174996|ref|ZP_04881657.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei ATCC 10399] gi|254180365|ref|ZP_04886963.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1655] gi|254190328|ref|ZP_04896836.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei Pasteur 52237] gi|254198455|ref|ZP_04904876.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei S13] gi|254201213|ref|ZP_04907577.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei FMH] gi|254206554|ref|ZP_04912905.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei JHU] gi|254260470|ref|ZP_04951524.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1710a] gi|254300602|ref|ZP_04968047.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 406e] gi|254357093|ref|ZP_04973367.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei 2002721280] gi|61215842|sp|Q62GN1|RPOA_BURMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215856|sp|Q63Q37|RPOA_BURPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90101574|sp|Q3JMT9|RPOA_BURP1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513536|sp|A3P087|RPOA_BURP0 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229261|sp|A3MRY0|RPOA_BURM7 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229262|sp|A2S7K2|RPOA_BURM9 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229263|sp|A1V877|RPOA_BURMS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229264|sp|A3NEF3|RPOA_BURP6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52211209|emb|CAH37198.1| DNA-directed RNA polymerase alpha chain [Burkholderia pseudomallei K96243] gi|52427251|gb|AAU47844.1| dna-directed rna polymerase alpha chain [Burkholderia mallei ATCC 23344] gi|76578372|gb|ABA47847.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1710b] gi|121228115|gb|ABM50633.1| DNA-directed rna polymerase, alpha subunit [Burkholderia mallei SAVP1] gi|124293499|gb|ABN02768.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei NCTC 10229] gi|126219667|gb|ABN83173.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 668] gi|126227607|gb|ABN91147.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1106a] gi|126242894|gb|ABO05987.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei NCTC 10247] gi|134245434|gb|EBA45527.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 305] gi|147747107|gb|EDK54183.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei FMH] gi|147752096|gb|EDK59162.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei JHU] gi|148026157|gb|EDK84242.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei 2002721280] gi|157810631|gb|EDO87801.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 406e] gi|157938004|gb|EDO93674.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei Pasteur 52237] gi|160696041|gb|EDP86011.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei ATCC 10399] gi|169655195|gb|EDS87888.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei S13] gi|184210904|gb|EDU07947.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1655] gi|217392187|gb|EEC32212.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 576] gi|225929697|gb|EEH25713.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei Pakistan 9] gi|237503877|gb|ACQ96195.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei MSHR346] gi|238521642|gb|EEP85092.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei GB8 horse 4] gi|242139913|gb|EES26315.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1106b] gi|243062570|gb|EES44756.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia mallei PRL-20] gi|254219159|gb|EET08543.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia pseudomallei 1710a] Length = 325 Score = 364 bits (934), Expect = 1e-98, Method: Composition-based stats. Identities = 151/328 (46%), Positives = 212/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ + I +DA +SP+++V Sbjct: 120 VINPNHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDETAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SYTVESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYTVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|197287093|ref|YP_002152965.1| DNA-directed RNA polymerase subunit alpha [Proteus mirabilis HI4320] gi|227354911|ref|ZP_03839325.1| DNA-directed RNA polymerase alpha chain [Proteus mirabilis ATCC 29906] gi|194684580|emb|CAR46430.1| DNA-directed RNA polymerase alpha chain [Proteus mirabilis HI4320] gi|227164993|gb|EEI49832.1| DNA-directed RNA polymerase alpha chain [Proteus mirabilis ATCC 29906] Length = 329 Score = 363 bits (933), Expect = 1e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVHGKDEVILTLSKSGIGPVIAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++YTVE+AR Q D DKL + ++T+G+I E+S+ A+ IL +QL F++ + Sbjct: 178 SPVERIAYTVEAARVEQRTDLDKLVIEMETNGTIDPEESIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|317494317|ref|ZP_07952731.1| DNA-directed RNA polymerase [Enterobacteriaceae bacterium 9_2_54FAA] gi|316917567|gb|EFV38912.1| DNA-directed RNA polymerase [Enterobacteriaceae bacterium 9_2_54FAA] Length = 329 Score = 363 bits (933), Expect = 1e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQLSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + + +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKIQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+S+ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEESIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|329298509|ref|ZP_08255845.1| DNA-directed RNA polymerase subunit alpha [Plautia stali symbiont] Length = 329 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ L++ G +T+ + G G VTAGDI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLALRVQGKDEVILTLNQSGIGPVTAGDITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ AS IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRASTILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|83720584|ref|YP_443546.1| DNA-directed RNA polymerase subunit alpha [Burkholderia thailandensis E264] gi|167564390|ref|ZP_02357306.1| DNA-directed RNA polymerase subunit alpha [Burkholderia oklahomensis EO147] gi|167571537|ref|ZP_02364411.1| DNA-directed RNA polymerase subunit alpha [Burkholderia oklahomensis C6786] gi|167582597|ref|ZP_02375471.1| DNA-directed RNA polymerase subunit alpha [Burkholderia thailandensis TXDOH] gi|167620711|ref|ZP_02389342.1| DNA-directed RNA polymerase subunit alpha [Burkholderia thailandensis Bt4] gi|167838186|ref|ZP_02465045.1| DNA-directed RNA polymerase subunit alpha [Burkholderia thailandensis MSMB43] gi|257137668|ref|ZP_05585930.1| DNA-directed RNA polymerase subunit alpha [Burkholderia thailandensis E264] gi|119366670|sp|Q2SU53|RPOA_BURTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|83654409|gb|ABC38472.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia thailandensis E264] Length = 325 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 150/328 (45%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ V KG GYVP R ++ + I +DA +SP+++V Sbjct: 120 VINPNHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGDETAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|300721391|ref|YP_003710662.1| RNA polymerase subunit alpha [Xenorhabdus nematophila ATCC 19061] gi|297627879|emb|CBJ88425.1| RNA polymerase, alpha subunit [Xenorhabdus nematophila ATCC 19061] Length = 329 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDEVILTVNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDESASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|300782639|ref|YP_003762930.1| DNA-directed RNA polymerase subunit alpha [Amycolatopsis mediterranei U32] gi|299792153|gb|ADJ42528.1| DNA-directed RNA polymerase subunit alpha [Amycolatopsis mediterranei U32] Length = 356 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 124/307 (40%), Positives = 186/307 (60%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV E Sbjct: 12 ETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKE 71 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+TDIILN+K + + D + + K+GPG VTA DI + V NPD I +L+ Sbjct: 72 DVTDIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIASLNGK 131 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DK Sbjct: 132 GKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDK 191 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T SIT D+VA A + L + G+ + ++ + + A + Sbjct: 192 LILDVETKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + Sbjct: 252 EDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLALKDS 311 Query: 321 LPDWPPE 327 P + P Sbjct: 312 PPGFDPT 318 >gi|91785439|ref|YP_560645.1| DNA-directed RNA polymerase subunit alpha [Burkholderia xenovorans LB400] gi|170695707|ref|ZP_02886849.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia graminis C4D1M] gi|187925590|ref|YP_001897232.1| DNA-directed RNA polymerase subunit alpha [Burkholderia phytofirmans PsJN] gi|296163295|ref|ZP_06846056.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. Ch1-1] gi|323527576|ref|YP_004229729.1| DNA-directed RNA polymerase subunit alpha [Burkholderia sp. CCGE1001] gi|119366671|sp|Q13TJ6|RPOA_BURXL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238689619|sp|B2T725|RPOA_BURPP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91689393|gb|ABE32593.1| DNA-directed RNA polymerase subunit alpha [Burkholderia xenovorans LB400] gi|170139312|gb|EDT07498.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia graminis C4D1M] gi|187716784|gb|ACD18008.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia phytofirmans PsJN] gi|295886434|gb|EFG66291.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. Ch1-1] gi|323384578|gb|ADX56669.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. CCGE1001] Length = 325 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTEATAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|218289978|ref|ZP_03494155.1| DNA-directed RNA polymerase, alpha subunit [Alicyclobacillus acidocaldarius LAA1] gi|258512642|ref|YP_003186076.1| DNA-directed RNA polymerase, alpha subunit [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] gi|218239963|gb|EED07150.1| DNA-directed RNA polymerase, alpha subunit [Alicyclobacillus acidocaldarius LAA1] gi|257479368|gb|ACV59687.1| DNA-directed RNA polymerase, alpha subunit [Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446] Length = 312 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 205/310 (66%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + ++ + + EPL RG+ TLGN+LRR+L+SS+ GAA+ +V+I+G Sbjct: 3 EIEKPR----IEIVEQTGDYGKFVCEPLERGYGTTLGNSLRRILLSSIPGAAVRSVKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IILN+K ++LK+ D K + I GPGVVTAGDI+ +D+++ Sbjct: 59 VLHEFSTIPGVVEDVTEIILNLKRLSLKIHSDEEKTLIIDAVGPGVVTAGDIRADSDVDI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L A + ME+ +G GYVPA ++ E IGLI ID+LYSPI +V+++V Sbjct: 119 MNPDLHIATLTEGARIYMEMRAGRGRGYVPAHRNKPEEQEIGLIPIDSLYSPISRVNFSV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGS+ +++V++ ++IL + L +F+ + ++ + Sbjct: 179 ENTRVGQITDYDKLTLEVWTDGSVAPDEAVSIGAKILTEHLMLFVGLTDRARDTDLMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+ Sbjct: 239 ENAHNDKILDMPIEELDLSVRSYNCLKRAGINTVAELCAKSEEEMMKVRNLGRKSLEEVV 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 EKLHALGLSL 308 >gi|50122926|ref|YP_052093.1| DNA-directed RNA polymerase subunit alpha [Pectobacterium atrosepticum SCRI1043] gi|227115247|ref|ZP_03828903.1| DNA-directed RNA polymerase subunit alpha [Pectobacterium carotovorum subsp. brasiliensis PBR1692] gi|227328924|ref|ZP_03832948.1| DNA-directed RNA polymerase subunit alpha [Pectobacterium carotovorum subsp. carotovorum WPP14] gi|253690158|ref|YP_003019348.1| DNA-directed RNA polymerase, alpha subunit [Pectobacterium carotovorum subsp. carotovorum PC1] gi|261823207|ref|YP_003261313.1| DNA-directed RNA polymerase subunit alpha [Pectobacterium wasabiae WPP163] gi|61215910|sp|Q6CZZ5|RPOA_ERWCT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|49613452|emb|CAG76903.1| DNA-directed RNA polymerase alpha chain [Pectobacterium atrosepticum SCRI1043] gi|251756736|gb|ACT14812.1| DNA-directed RNA polymerase, alpha subunit [Pectobacterium carotovorum subsp. carotovorum PC1] gi|261607220|gb|ACX89706.1| DNA-directed RNA polymerase, alpha subunit [Pectobacterium wasabiae WPP163] Length = 329 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 220/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P H+IC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHLICHLTDENASISMRIKVQRGRGYVPASARIHTEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|188535253|ref|YP_001909050.1| DNA-directed RNA polymerase subunit alpha [Erwinia tasmaniensis Et1/99] gi|188030295|emb|CAO98184.1| DNA-directed RNA polymerase alpha chain [Erwinia tasmaniensis Et1/99] Length = 329 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P H IC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHAICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|94312222|ref|YP_585432.1| DNA-directed RNA polymerase subunit alpha [Cupriavidus metallidurans CH34] gi|119366711|sp|Q1LI63|RPOA_RALME RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|93356074|gb|ABF10163.1| RNA polymerase, alpha subunit [Cupriavidus metallidurans CH34] Length = 326 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 147/326 (45%), Positives = 212/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKDGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ + I +DA +SP+++VSY Sbjct: 122 NPGHVIAHLSAGGKLDMQIKVEQGRGYVPGNVRKFGDEASKVIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+TDG I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 SSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|312127254|ref|YP_003992128.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor hydrothermalis 108] gi|312793911|ref|YP_004026834.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor kristjanssonii 177R1B] gi|312877393|ref|ZP_07737358.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor lactoaceticus 6A] gi|311777273|gb|ADQ06759.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor hydrothermalis 108] gi|311795867|gb|EFR12231.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor lactoaceticus 6A] gi|312181051|gb|ADQ41221.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor kristjanssonii 177R1B] Length = 324 Score = 363 bits (933), Expect = 2e-98, Method: Composition-based stats. Identities = 140/324 (43%), Positives = 205/324 (63%), Gaps = 3/324 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKPTI--RCEELSPDNKYGRYVIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDH I L+ DA + ME+TV++G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPDHHIATLNSDARLFMEITVNQGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L + P E EE Sbjct: 301 QKLHSLGLSLKKS-DSTPKEEEEE 323 >gi|295694866|ref|YP_003588104.1| DNA-directed RNA polymerase, alpha subunit [Bacillus tusciae DSM 2912] gi|295410468|gb|ADG04960.1| DNA-directed RNA polymerase, alpha subunit [Bacillus tusciae DSM 2912] Length = 314 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 196/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP +E + + E + EPL RG+ TLGNALRR+L+SSL GAA T+V+IDG Sbjct: 3 EMEKPR-LETVEI-NESGTYGKFVIEPLERGYGTTLGNALRRILLSSLPGAACTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED T+IILN+K + L++ D K + I G G + AGDIQ +D+++ Sbjct: 61 VLHEFSTIPGVVEDTTEIILNLKHLALRIHSDEEKTLIIDAEGEGEIKAGDIQADSDVDI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L A + E+ ++G GYVPA ++ E PIG+I +D++++PI +V+Y++ Sbjct: 121 LNPELHIATLAEGARLYAEIKAARGRGYVPADRNKNEEQPIGVIPMDSIFTPISRVNYSI 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+ + TDGSI +++V+ +RIL + L +F+ + + + Sbjct: 181 ENTRVGQVTDYDKLTFEVWTDGSIRPDEAVSYGARILTEHLTLFLGLTDQPRAGDVLVER 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LSVRS NCL+ I + +L +TE +M+++ N GRKSL E++ Sbjct: 241 DEQRREKVLDMTIEELDLSVRSYNCLKRAGINTVAELCSKTEEEMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAELGLAL 310 >gi|322659535|gb|EFY55779.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Montevideo str. 19N] Length = 329 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICRLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|254253494|ref|ZP_04946812.1| DNA-directed RNA polymerase [Burkholderia dolosa AUO158] gi|124896103|gb|EAY69983.1| DNA-directed RNA polymerase [Burkholderia dolosa AUO158] gi|325529704|gb|EGD06567.1| DNA-directed RNA polymerase subunit alpha [Burkholderia sp. TJI49] Length = 325 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 150/328 (45%), Positives = 210/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D + I +DA +SP+++V Sbjct: 120 VINPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|312622073|ref|YP_004023686.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor kronotskyensis 2002] gi|312202540|gb|ADQ45867.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor kronotskyensis 2002] Length = 324 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 141/324 (43%), Positives = 205/324 (63%), Gaps = 3/324 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKPTI--RCEELSPDNKYGRYVIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDH I L+ DA + ME+TVS+G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPDHHIATLNSDARLFMEITVSQGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L + P E EE Sbjct: 301 QKLHSLGLSLKKS-DSTPKEEEEE 323 >gi|285017344|ref|YP_003375055.1| DNA-directed RNA polymerase alpha chain (RNA polymerase alpha subunit) protein [Xanthomonas albilineans GPE PC73] gi|283472562|emb|CBA15067.1| probable dna-directed rna polymerase alpha chain (rna polymerase alpha subunit) protein [Xanthomonas albilineans] Length = 332 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 142/325 (43%), Positives = 214/325 (65%), Gaps = 9/325 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P + L +NR ++ EPL RG+ HTLGNALRRVL+SS+ G AIT V+ID VL Sbjct: 9 LRPRGPQIERL---TDNRAKVVIEPLERGYGHTLGNALRRVLLSSIPGFAITEVEIDNVL 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++G+ ED+ +++LN+K + ++M +++ K+GPG VTA DI+T +++E+LN Sbjct: 66 HEYTTVEGLQEDVLEVLLNLKDVAIRMHTGDSATLSLSKQGPGTVTATDIKTDHNVEILN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYT 186 DHVIC+L D + M L + +G GY PA R ++ I +DA +SP+++V+Y Sbjct: 126 SDHVICHLTKDTALNMRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRVAYA 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VESAR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 186 VESARVEQRTDLDKLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGA---VK 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EI Sbjct: 243 PASNGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEI 302 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEE 331 K VL GL LGM L +WPP + + Sbjct: 303 KEVLAQRGLSLGMKLENWPPAGVAQ 327 >gi|118469556|ref|YP_885906.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium smegmatis str. MC2 155] gi|158512464|sp|A0QSL8|RPOA_MYCS2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118170843|gb|ABK71739.1| DNA-directed RNA polymerase, alpha subunit [Mycobacterium smegmatis str. MC2 155] Length = 350 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 124/320 (38%), Positives = 192/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ETVAENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPGVVTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSDDDEPVTMYLRKQGPGVVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDMHIATLNDKGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI+ D++A A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIIDVETKNSISPRDALASAGGTLVELFGLARELNADSEHIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHQLGLSLKDSPATFDPSEV 320 >gi|302524022|ref|ZP_07276364.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. AA4] gi|302432917|gb|EFL04733.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. AA4] Length = 357 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 124/307 (40%), Positives = 186/307 (60%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV E Sbjct: 12 ETVNETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKE 71 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+TDIILN+K + + D + + K+GPG VTA DI + V NPD I +L+ Sbjct: 72 DVTDIILNLKELVVSSEEDEPVTMYLRKQGPGEVTAADIVPPAGVTVHNPDLHIASLNGK 131 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DK Sbjct: 132 GKLEIELVVERGRGYVPALQNKQAGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDK 191 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T SIT D+VA A + L + G+ + ++ + + A + Sbjct: 192 LILDVETKPSITARDAVASAGKTLVELFGLARELNVDAEGIEIGPSPQEADTIAAYAMPI 251 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + Sbjct: 252 EDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKLKLVGLGLALKDS 311 Query: 321 LPDWPPE 327 P + P Sbjct: 312 PPGFDPS 318 >gi|261854974|ref|YP_003262257.1| DNA-directed RNA polymerase, subunit alpha [Halothiobacillus neapolitanus c2] gi|261835443|gb|ACX95210.1| DNA-directed RNA polymerase, alpha subunit [Halothiobacillus neapolitanus c2] Length = 331 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 219/334 (65%), Gaps = 7/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q EL+KP ++ VL R ++ EPL RGF +TLGNALRR+L+SS+ G A+T Sbjct: 1 MQLGSTELLKPRLVDVQVLD---ATRARVVLEPLERGFGYTLGNALRRILLSSIPGVAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GV+HE ++I+GVHED+ +I+LN+KG+++ + G ++I K G G +TA DI+ Sbjct: 58 EAEIEGVVHEYTTIEGVHEDVLEILLNLKGLSVMLHGRDEAMLSIKKTGAGAITAADIKA 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPI 180 + +E++NP+H I L+ + M V++G GYVPA R E IG + +DA +SP+ Sbjct: 118 DHAVEIINPEHHIATLNDQGSLVMTFKVTRGKGYVPASARREEAGGQIGRLLVDASFSPL 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY+VE AR Q D D L + I+T+GSI+ ED++ A+ IL DQL +F++ + K E Sbjct: 178 RRVSYSVERARVEQRTDLDSLVLDIETNGSISAEDAIRQAAGILVDQLSVFVDLKAEKVE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+ Sbjct: 238 PVVEQA---PAVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEIELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK VL GL LG L +WPP + LA+ Sbjct: 295 KSLTEIKDVLAKQGLSLGQRLENWPPAELLNLAE 328 >gi|71905987|ref|YP_283574.1| DNA-directed RNA polymerase subunit alpha [Dechloromonas aromatica RCB] gi|90110836|sp|Q47J77|RPOA_DECAR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71845608|gb|AAZ45104.1| DNA-directed RNA polymerase subunit alpha [Dechloromonas aromatica RCB] Length = 324 Score = 363 bits (932), Expect = 2e-98, Method: Composition-based stats. Identities = 147/331 (44%), Positives = 210/331 (63%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP I+ + + ++ EP RG+ HTLGNALRR+L+SS+ G A T Sbjct: 1 MQSS--GLLKPRIIDVQSV---SPVQAKVVMEPFERGYGHTLGNALRRILLSSMVGYAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGVLHE S++ GV ED+ DI+LN+KG+ K+ + + K G G V AGDI+ Sbjct: 56 EVGIDGVLHEYSTVDGVQEDVVDILLNLKGVVFKLHNRDVVNLKLVKEGEGAVRAGDIEL 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN-DPIGLITIDALYSPI 180 +D+E++NP+HVI +L + ME+ V KG GYVP + IG + +DA +SPI Sbjct: 116 PHDVEIINPEHVIAHLSPGGKLAMEIKVEKGRGYVPGNVRNLGDAKTIGKLVLDASFSPI 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y VESAR Q D DKL + I+T+G + E+++ A+R+L +QL +F + E Sbjct: 176 RRVAYAVESARVEQRTDLDKLIVDIETNGVVEPEEAIRYAARVLMEQLSVFADLEGTAPV 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GR Sbjct: 236 AE---ASKPAQVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGR 292 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL GL LGM L +WPP +E+ Sbjct: 293 KSLNEIKEVLAARGLTLGMKLENWPPAGLEK 323 >gi|226329506|ref|ZP_03805024.1| hypothetical protein PROPEN_03415 [Proteus penneri ATCC 35198] gi|225202692|gb|EEG85046.1| hypothetical protein PROPEN_03415 [Proteus penneri ATCC 35198] Length = 329 Score = 363 bits (931), Expect = 2e-98, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVHGKDEVILTLSKSGIGPVIAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+S+ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEESIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|261409493|ref|YP_003245734.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus sp. Y412MC10] gi|315649671|ref|ZP_07902755.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus vortex V453] gi|329922053|ref|ZP_08277846.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. HGF5] gi|261285956|gb|ACX67927.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. Y412MC10] gi|315274859|gb|EFU38235.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus vortex V453] gi|328942436|gb|EGG38700.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. HGF5] Length = 314 Score = 363 bits (931), Expect = 2e-98, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + +E + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVDVNEEG-TYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T++ILN+K ++LK+ D K I G GVVTAGDI+ +D+E+ Sbjct: 61 VLHEFSTIPGVMEDVTEVILNLKALSLKIHSDEEKVFEIDAEGEGVVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A + M + S+G GYV A ++ ++ PIG+I +D++Y+PI +V+Y V Sbjct: 121 LNPDLHIATLGPGARLHMRIFASRGRGYVQADRNKRDDQPIGVIPVDSIYTPISRVNYGV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ I TDGSI E++V+L ++IL + L +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEIWTDGSIRPEEAVSLGAKILTEHLFLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTTKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLEELGLGL 310 >gi|126654446|ref|ZP_01726183.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. B14905] gi|169830005|ref|YP_001700163.1| DNA-directed RNA polymerase subunit alpha [Lysinibacillus sphaericus C3-41] gi|299541958|ref|ZP_07052281.1| DNA-directed RNA polymerase subunit alpha [Lysinibacillus fusiformis ZC1] gi|126589096|gb|EAZ83300.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. B14905] gi|168994493|gb|ACA42033.1| DNA-directed RNA polymerase alpha chain [Lysinibacillus sphaericus C3-41] gi|298725696|gb|EFI66337.1| DNA-directed RNA polymerase subunit alpha [Lysinibacillus fusiformis ZC1] Length = 314 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + + EPL RG+ +TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISEDSK-YGKFVVEPLERGYGNTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+ IILN+K + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVASIILNVKKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + + +RM + +G GY PA ++ E+ PIG+I ID++Y+P+ +V++ V Sbjct: 121 LNPDLYIATIAKNGHLRMRMYAQRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNFQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKLS+ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQSSDYDKLSLDVWTDGSIGPKEAISLGAKILTEHLNIFVGMTDEAQTAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVLELANKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|85060231|ref|YP_455933.1| DNA-directed RNA polymerase subunit alpha [Sodalis glossinidius str. 'morsitans'] gi|119366730|sp|Q2NQP7|RPOA_SODGM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|84780751|dbj|BAE75528.1| RNA polymerase alpha chain [Sodalis glossinidius str. 'morsitans'] Length = 329 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVQGKDDVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HV+C+L D +A + M + V +G GYVPA H PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVLCHLTDENAAISMRIKVQRGRGYVPASARIHSEEYERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|307246714|ref|ZP_07528784.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|307248855|ref|ZP_07530868.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|307251083|ref|ZP_07533007.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|307253469|ref|ZP_07535340.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|307255699|ref|ZP_07537503.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|307257883|ref|ZP_07539639.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|307260151|ref|ZP_07541861.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|307262279|ref|ZP_07543928.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|307264488|ref|ZP_07546073.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 13 str. N273] gi|306852414|gb|EFM84649.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 1 str. 4074] gi|306854782|gb|EFM86972.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|306856913|gb|EFM89045.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|306859148|gb|EFM91190.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 6 str. Femo] gi|306861376|gb|EFM93366.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 9 str. CVJ13261] gi|306863613|gb|EFM95540.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 10 str. D13039] gi|306865797|gb|EFM97675.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 11 str. 56153] gi|306868042|gb|EFM99869.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 12 str. 1096] gi|306870185|gb|EFN01944.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus pleuropneumoniae serovar 13 str. N273] Length = 325 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 150/329 (45%), Positives = 220/329 (66%), Gaps = 10/329 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+T V+ID Sbjct: 2 TEFLKPHLVNIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEID 58 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E Sbjct: 59 GVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVE 118 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 ++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ + Sbjct: 119 IVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDR 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 179 IAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP-- 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 237 -EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKS 295 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L EIK VL + GL LGM L +WPP SI E Sbjct: 296 LTEIKDVLASRGLSLGMRLENWPPASIAE 324 >gi|300309482|ref|YP_003773574.1| DNA-directed RNA polymerase subunit alpha [Herbaspirillum seropedicae SmR1] gi|124483590|emb|CAM32668.1| probable DNA-directed RNA polymerase (alpha chain) protein [Herbaspirillum seropedicae] gi|300072267|gb|ADJ61666.1| DNA-directed RNA polymerase alpha chain protein [Herbaspirillum seropedicae SmR1] Length = 325 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 151/333 (45%), Positives = 209/333 (62%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP IE L ++ EP RG+ HTLGNALRRVL+S++ G A T Sbjct: 1 MQNS---LLKPRIIEVETL---APGHAKVVMEPFERGYGHTLGNALRRVLLSTMSGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE SS+ GV ED+ DI+LN+KG+ K+ +T+ K G G V A DI Sbjct: 55 EVTIAGVVHEYSSLDGVQEDVVDILLNLKGVVFKLHNRDEVTLTLKKEGEGAVLASDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI NL + M++ V KG GYVP R D I +DA +S Sbjct: 115 PHDVELINPDHVIANLTGGGKLDMQIKVEKGRGYVPGNVRRLSEDTNKTIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VESAR Q D DKL M I+T+G IT E+++ ++R+L DQL +F E + Sbjct: 175 PVRRVSYAVESARVEQRTDLDKLVMNIETNGVITPEEAIRQSARVLVDQLNVFAALEGTE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 235 ATAE--APSRAPQVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 325 >gi|294497011|ref|YP_003560711.1| DNA-directed RNA polymerase subunit alpha [Bacillus megaterium QM B1551] gi|295702376|ref|YP_003595451.1| DNA-directed RNA polymerase subunit alpha [Bacillus megaterium DSM 319] gi|294346948|gb|ADE67277.1| DNA-directed RNA polymerase, alpha subunit [Bacillus megaterium QM B1551] gi|294800035|gb|ADF37101.1| DNA-directed RNA polymerase, alpha subunit [Bacillus megaterium DSM 319] Length = 314 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 142/310 (45%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QI+G Sbjct: 3 EIEKP-KIETVEISDDRK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+K + LK+ D K + I +GPG VTA DIQ +DIEV Sbjct: 61 VLHEFSTVPGVVEDVTNIILNVKKLALKIYSDEEKTLEIDVKGPGTVTAADIQADSDIEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ DA RM LT G GY PA ++ E+ PIG++ ID++Y+P+ +VSY V Sbjct: 121 LNPDLHIATLESDAHFRMRLTARTGRGYNPADANKREDQPIGVLPIDSIYTPVTRVSYYV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + TDGSI E +VAL ++IL + L +F+N + ++ + + Sbjct: 181 ENTRVGQMTNYDKLTLDVWTDGSIEPEKAVALGAKILTEHLNIFVNLTDEAQKAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|238928128|ref|ZP_04659888.1| DNA-directed RNA polymerase [Selenomonas flueggei ATCC 43531] gi|238884088|gb|EEQ47726.1| DNA-directed RNA polymerase [Selenomonas flueggei ATCC 43531] Length = 319 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 131/315 (41%), Positives = 197/315 (62%), Gaps = 6/315 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IE + E+ I EPL G+ T GN+LRR+L+SSL GAA+T++QID Sbjct: 2 TDIEKP-KIEIAEI-SEDGRYGRFICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV +D+T I+L +K + ++M + + I G VTA DI+ +DIE Sbjct: 60 GVLHEFSTIPGVRDDVTSIVLALKQLCIRMQDSEPRTIRIDAAGACEVTAADIECGSDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD I L +++++TV +G GYVPA ++ +D IG+I ID+++SP+++V+YT Sbjct: 120 ILNPDLHIATLGDTGKLKIDMTVERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVK 242 VE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E ++EV Sbjct: 180 VEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGSAAEEEEEVP 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKS Sbjct: 240 NFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKS 299 Query: 303 LVEIKGVLGTMGLFL 317 L E+K L +GL L Sbjct: 300 LDEVKKKLEELGLSL 314 >gi|238025958|ref|YP_002910189.1| DNA-directed RNA polymerase subunit alpha [Burkholderia glumae BGR1] gi|237875152|gb|ACR27485.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia glumae BGR1] Length = 325 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 210/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G G+VTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGIVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ + KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLTKGGKLDVQIKIEKGRGYVPGNVRRYGEETAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|89100320|ref|ZP_01173185.1| DNA-directed RNA polymerase alpha subunit [Bacillus sp. NRRL B-14911] gi|89084941|gb|EAR64077.1| DNA-directed RNA polymerase alpha subunit [Bacillus sp. NRRL B-14911] Length = 314 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEI-SDDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T +ILNIK + LK+ D K + I +G G VTA D+ +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTSVILNIKKLALKIYSDDEKTLEIDIQGEGAVTAADVTHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L + +RM LT +G GY PA ++ E+ PIG+I ID++Y+P+ ++SY V Sbjct: 121 LNPDLHIATLGSNGHLRMRLTAKRGRGYTPADQNKREDQPIGVIPIDSIYTPVSRISYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL+ + TDGS +D+VAL ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQMTNYDKLTFDVWTDGSTGPQDAVALGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|303328068|ref|ZP_07358507.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio sp. 3_1_syn3] gi|302861894|gb|EFL84829.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio sp. 3_1_syn3] Length = 347 Score = 363 bits (931), Expect = 3e-98, Method: Composition-based stats. Identities = 150/335 (44%), Positives = 215/335 (64%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP+ I I EPL RG+ T+GNA+RRVL++SL+GAA +V Sbjct: 13 RNWSELVKPDQI-LREEETASGTHGKFICEPLERGYGTTIGNAMRRVLLASLQGAAFVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I GV HE ++I GV ED+TD+ILN+K + L++ D +R+ + G VTA IQT Sbjct: 72 KITGVQHEFTTIHGVLEDVTDVILNLKQVRLRLDTDEPQRLILRVDRKGPVTAAQIQTNQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +EVLNP+ I L D V+ MEL G GYVPA H ++ IGLI +D+ +SP++KV Sbjct: 132 HVEVLNPELHIATLTEDVVLEMELEARMGKGYVPADMHEGLSEEIGLIKLDSSFSPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YD+L + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 192 AYTVEQARVGQMTNYDRLLLEVWTDGSLTPEDAIAYSAKIIKDQISVFINFDERVSGDMR 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K +++LELSVR+TNCLR NI +G+L+QR+E +ML+ NFGRKSL Sbjct: 252 LGSSDGGEVNEHLFKSIDDLELSVRATNCLRSANIALVGELVQRSEGEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL MGL GM + + + E K+ + Sbjct: 312 DEIKSVLLDMGLDFGMKVDGFDKKYQEWKRKQQNE 346 >gi|222529702|ref|YP_002573584.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor bescii DSM 6725] gi|254765242|sp|B9MKF3|RPOA_ANATD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|222456549|gb|ACM60811.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor bescii DSM 6725] Length = 324 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 204/324 (62%), Gaps = 3/324 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKPTI--RCEELSPDNKYGRYVIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDH I L+ DA + ME+TV++G GYV A+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPDHHIATLNQDARLFMEITVNQGKGYVLAERNKQPNQPIGVIPVDSIYTPVVKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L + P E EE Sbjct: 301 QKLHSLGLSLKKS-DSTPKEEEEE 323 >gi|83748175|ref|ZP_00945202.1| DNA-directed RNA polymerase alpha chain [Ralstonia solanacearum UW551] gi|300702806|ref|YP_003744407.1| RNA polymerase subunit alpha; RNA polymerase alpha chain family [Ralstonia solanacearum CFBP2957] gi|83725143|gb|EAP72294.1| DNA-directed RNA polymerase alpha chain [Ralstonia solanacearum UW551] gi|299070468|emb|CBJ41763.1| RNA polymerase, alpha subunit; RNA polymerase alpha chain family [Ralstonia solanacearum CFBP2957] Length = 326 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 145/326 (44%), Positives = 211/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ +I +DA ++P+++VSY Sbjct: 122 NPGHVIASLSAGGKLDMQIKVEQGRGYVPGNVRKFGDESSKVIGRVVLDASFAPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 AARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|312135468|ref|YP_004002806.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor owensensis OL] gi|311775519|gb|ADQ05006.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor owensensis OL] Length = 324 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 142/324 (43%), Positives = 208/324 (64%), Gaps = 3/324 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I L + + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKP-AIRCEELSPDNK-YGRYVIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKIMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDH I L+ DA + ME+TV++G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPDHHIATLNQDARLFMEITVNQGKGYVPAERNKQPNQPIGVIPVDSIYTPVVKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTVAAKILIEHFSLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L + P E EE Sbjct: 301 QKLHSLGLSLKKS-DSTPKEEEEE 323 >gi|256830513|ref|YP_003159241.1| DNA-directed RNA polymerase, alpha subunit [Desulfomicrobium baculatum DSM 4028] gi|256579689|gb|ACU90825.1| DNA-directed RNA polymerase, alpha subunit [Desulfomicrobium baculatum DSM 4028] Length = 348 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 143/336 (42%), Positives = 218/336 (64%), Gaps = 2/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL++P +E + + + EPL RGF T+GNALRRVL+SSL+GAA +V Sbjct: 14 RNWAELVRPEQLE--KDPKCNDMYGRFVCEPLERGFGTTIGNALRRVLLSSLQGAAPVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I G+ HE ++I GV ED+TDI+LN+K + + M+ +RV + G VTA I Sbjct: 72 NIQGIQHEFTTIPGVTEDITDIVLNLKQLRVAMNTPEPQRVQLIANAKGEVTASAIVENQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 I++LNP+ I L D + M L G GYVPA+ H ++ IG+IT+D+ +SPI+KV Sbjct: 132 HIKILNPELHIATLSEDIDLVMNLEFRMGKGYVPAEMHEDLDNEIGVITLDSSFSPIRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE AR GQ+ +YDKL + + TDGSIT +D++A +++IL++QL +FINF+E ++++ Sbjct: 192 AYAVEQARVGQMTNYDKLIIEVWTDGSITPDDALAFSAKILKEQLTVFINFDEGSADIEK 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K +E+LEL VR++NCL+ I +G+L+Q+TEAD+L+ NFGRKSL Sbjct: 252 AKSKPQDKINENLFKNIEDLELPVRASNCLKSAGIHIVGELVQKTEADLLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +I+ VL +MGL G+ + ++ + L + ED+ Sbjct: 312 EDIRRVLESMGLDFGIRVDNFDELYQDWLKRNEEDE 347 >gi|291613262|ref|YP_003523419.1| DNA-directed RNA polymerase subunit alpha [Sideroxydans lithotrophicus ES-1] gi|291583374|gb|ADE11032.1| DNA-directed RNA polymerase, alpha subunit [Sideroxydans lithotrophicus ES-1] Length = 323 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 152/325 (46%), Positives = 203/325 (62%), Gaps = 10/325 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N L+KP I+ + ++ EP RG+ HTLGNALRRVL+SS+ G A+T Sbjct: 1 MSNN--NLLKPRIIDVQR---SSATQARVVMEPFERGYGHTLGNALRRVLLSSMPGYAVT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I GVLHE SSI GV ED+ +I+LN+KG+ LK+ + + K G GVVTA DI+ Sbjct: 56 EVKIAGVLHEYSSIDGVQEDVVEILLNLKGLVLKLHNSREATLHLRKSGAGVVTAADIEV 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSP 179 D EV+NP+HVI +L + ME+ V +G GYV A P+G I +DA +SP Sbjct: 116 GADTEVINPNHVIAHLAAGGKLDMEIKVEQGRGYVSAISRMQPGATRPVGHIALDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I +VSY VESAR Q D DKL M I+T+ +I E+++ A+RIL DQL +F E Sbjct: 176 ISRVSYAVESARVEQRTDLDKLIMDIETNSAIDPEEAIRYAARILMDQLSVFAALEGTPA 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V++ K P LL+ V++LEL+ RS+NCL+ ++I Y+GDLIQ TEAD+LR N G Sbjct: 236 PVEKPQTPKVDPM---LLRPVDDLELTPRSSNCLKAQSIHYIGDLIQNTEADLLRTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 RKSL EIK VL GL LGM L +W Sbjct: 293 RKSLNEIKQVLAEHGLSLGMKLENW 317 >gi|312199992|ref|YP_004020053.1| DNA-directed RNA polymerase, subunit alpha [Frankia sp. EuI1c] gi|311231328|gb|ADP84183.1| DNA-directed RNA polymerase, alpha subunit [Frankia sp. EuI1c] Length = 350 Score = 362 bits (930), Expect = 3e-98, Method: Composition-based stats. Identities = 125/319 (39%), Positives = 190/319 (59%), Gaps = 4/319 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLAE----EPIAEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVPGVKEDVTDVILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + ++ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PELHLATINDKGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI+ D++A A + L G+ + V + + Sbjct: 181 TRVEQRTDFDKLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAQD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AQLAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTK 300 Query: 310 LGTMGLFLGMNLPDWPPES 328 LG MGL L + P + P Sbjct: 301 LGAMGLQLKDSPPGFDPRQ 319 >gi|145588267|ref|YP_001154864.1| DNA-directed RNA polymerase subunit alpha [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] gi|189043841|sp|A4SUY6|RPOA_POLSQ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145046673|gb|ABP33300.1| DNA-directed RNA polymerase subunit alpha [Polynucleobacter necessarius subsp. asymbioticus QLW-P1DMWA-1] Length = 326 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 211/333 (63%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I + N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPK---IISVEALTANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI Sbjct: 55 EVAIAGVVHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVTINLRKEGPGVVTAKDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP + ++ + I +DA +S Sbjct: 115 PHDVEIMNPDHVIAHLSAGGKLDMQIKVEKGRGYVPGNVRQYNDETTKIIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VESAR Q D D+L MTI+T+G ++ E+++ A+ IL DQL +F E + Sbjct: 175 PVSRVSYAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAALESSE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 VSGDLAPSR-SSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL GL LGM L WPP ++E+ Sbjct: 294 GRKSLNEIKDVLAARGLSLGMKLESWPPANLEK 326 >gi|167587746|ref|ZP_02380134.1| DNA-directed RNA polymerase subunit alpha [Burkholderia ubonensis Bu] Length = 325 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 209/328 (63%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTA DI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAADIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NP+HVI +L + +++ + KG GYVP R D + I +DA +SP+++V Sbjct: 120 VINPNHVIAHLSKGGKLDVQIKIEKGRGYVPGNVRRYGEDTAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|171462905|ref|YP_001797018.1| DNA-directed RNA polymerase, alpha subunit [Polynucleobacter necessarius subsp. necessarius STIR1] gi|238692836|sp|B1XSS7|RPOA_POLNS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171192443|gb|ACB43404.1| DNA-directed RNA polymerase, alpha subunit [Polynucleobacter necessarius subsp. necessarius STIR1] Length = 326 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 149/333 (44%), Positives = 210/333 (63%), Gaps = 10/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I + N+ ++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPK---IISVEALTANQAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S++ GV ED+ +++LN+KGI K+ + + K GPGVVTA DI Sbjct: 55 EVAIAGVVHEYSTLDGVQEDVVNLLLNLKGIVFKLQSRDEVIINLRKEGPGVVTAKDIDL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI +L + M++ V KG GYVP + ++ I +DA +S Sbjct: 115 PHDVEIMNPDHVIAHLSAGGKLDMQIKVEKGRGYVPGNVRQYNDEATKIIGHIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +VSY VESAR Q D D+L MTI+T+G ++ E+++ A+ IL DQL +F E + Sbjct: 175 PVSRVSYAVESARVEQRTDLDRLVMTIETNGVLSPEEAIRQAASILVDQLVVFAALESSE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + S +P L++ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 VSGDLAPSR-SSMVDPMLMRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL GL LGM L WPP ++E+ Sbjct: 294 GRKSLNEIKDVLAARGLSLGMKLESWPPANLEK 326 >gi|163938145|ref|YP_001643029.1| DNA-directed RNA polymerase subunit alpha [Bacillus weihenstephanensis KBAB4] gi|229131145|ref|ZP_04260057.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST196] gi|163860342|gb|ABY41401.1| DNA-directed RNA polymerase, alpha subunit [Bacillus weihenstephanensis KBAB4] gi|228652358|gb|EEL08283.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST196] Length = 314 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T +ILN+K + LK+ D K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTMILNLKKLALKIYSDEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A RM LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAKNAHFRMRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|33152929|ref|NP_874282.1| DNA-directed RNA polymerase subunit alpha [Haemophilus ducreyi 35000HP] gi|41688646|sp|Q7VKF8|RPOA_HAEDU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33149154|gb|AAP96671.1| RNA polymerase alpha subunit [Haemophilus ducreyi 35000HP] Length = 329 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 150/334 (44%), Positives = 223/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP+ + + + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVIEFLKPHLVNIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVA 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG + +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKNDVTLTLNKSGIGPVLAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++NP+HVIC+L D DA + M + V +G GYVPA H + E+ PIG + +DA + Sbjct: 118 DGDVEIINPNHVICHLTDKDASINMRIYVQRGRGYVPASARVHSQDEDRPIGRLLVDARF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVDRIAYNVEAARVEQRTDLDKLIIDMETNGTIDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EIKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|311029077|ref|ZP_07707167.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. m3-13] Length = 314 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEI-SDDANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T +ILN+K + LK+ D K + I +G G VTA DI +D+EV Sbjct: 61 VLHEFSTIEGVVEDVTTVILNVKKLALKIYSDDEKTLEIDVQGEGAVTAADITHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA +R+ T +G GYV A ++ E+ PIG+I ID++++P+ +VSY V Sbjct: 121 LNPDLHIATLAKDAHLRIRFTAKRGRGYVTADGNKREDQPIGVIPIDSIFTPVSRVSYYV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGS +++VAL ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQVSNYDKLTLDVWTDGSNGPQEAVALGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|7388086|sp|P74963|RPOA_SHESP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|1565189|dbj|BAA11840.1| RNA polymerase alpha subunit [Shewanella sp. DB6705] Length = 328 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 148/333 (44%), Positives = 218/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVDIEQISS---TRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SSI+GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIDGVLHEYSSIEGVQEDVLEILLNLKGLAIKLEGKDEALLTLTKSGTGPVLAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E++NP+HVI NL A + M + V+KG GYVPA E PIG + +DA +S Sbjct: 118 DGDVEIINPEHVIRNLTGQADISMRIRVAKGRGYVPASTRIQSDDEERPIGRLLVDAAFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y VESAR Q + DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 PVSRIAYNVESARVEQRTNLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV- 236 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 237 --TEPEQKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 327 >gi|88812732|ref|ZP_01127978.1| DNA-directed RNA polymerase, alpha subunit [Nitrococcus mobilis Nb-231] gi|88789970|gb|EAR21091.1| DNA-directed RNA polymerase, alpha subunit [Nitrococcus mobilis Nb-231] Length = 333 Score = 362 bits (930), Expect = 4e-98, Method: Composition-based stats. Identities = 139/337 (41%), Positives = 214/337 (63%), Gaps = 7/337 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +++ ++P + + + ++ EPL RGF HTLGNALRRVL+SS+ G A+ Sbjct: 1 MQGQFKDFLRPRLV---GVEALSDRHAMITLEPLERGFGHTLGNALRRVLLSSMPGYAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE ++I+GV ED+ DI+LN+K + +++ + + K+GPG+VTA DI Sbjct: 58 EVEIEGVLHEYTAIEGVQEDVVDILLNLKNLAVRLHSKDTATLHLSKQGPGLVTAADIGI 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 179 +D+E+ NP+ I NL + + M L +++G GY P E PIG + +DA YSP Sbjct: 118 DHDVEIKNPELAIANLTKASEINMTLHIARGRGYEPVTTRGEHDEERPIGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++V+Y VESAR Q D DKL M I+T+G + E++V A+ +L+DQL +F+ + Sbjct: 178 VRRVAYNVESARVEQRTDLDKLVMDIETNGVLEPEEAVRFAAGLLRDQLSVFV--DLEGG 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E ED + +P LL+ +++LEL+VRS NCL+ ENI +GDL+Q+TE ++L+ N G Sbjct: 236 EEAEDQERTAPEVDPVLLRSIDDLELTVRSANCLKAENIHCVGDLVQKTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 +KSL EIK VL GL LGM L +WPP ++ + Sbjct: 296 KKSLNEIKEVLAQHGLALGMRLENWPPRGYDDKDRAI 332 >gi|42799|emb|CAA26395.1| unnamed protein product [Escherichia coli] Length = 329 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 146/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETTGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|311693295|gb|ADP96168.1| DNA-directed RNA polymerase subunit alpha [marine bacterium HP15] Length = 319 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 150/313 (47%), Positives = 216/313 (69%), Gaps = 6/313 (1%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + R + EPL RGF HTLG+ALRR+L+SS+ G A+T QIDGVLHE S+I+GV Sbjct: 1 MKESSATRAKVTLEPLERGFGHTLGSALRRILLSSMPGCAVTEAQIDGVLHEYSAIEGVQ 60 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ +I+LN+KG+ +KM+G +T+ K+GPGVVTAGDI+ +D+E+ NP+HVIC+L Sbjct: 61 EDVIEILLNLKGVAVKMNGRDDAELTLSKKGPGVVTAGDIKLDHDVEIANPEHVICHLSE 120 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVL 196 + V M L V++G GY PA + D I +DA +SP+++V+Y VESAR Q Sbjct: 121 NGEVNMRLRVARGRGYEPADQRGLDEDETRAIGRLQLDATFSPVRRVAYAVESARVEQRT 180 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + ++T+G+I E+++ A+ ILQ QL +F++F+ K+ + + + P L Sbjct: 181 DLDKLVIDLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPERVEEEEEIDP---IL 237 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 L+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL + GL Sbjct: 238 LRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLASRGLS 297 Query: 317 LGMNLPDWPPESI 329 LGM L +WPP S+ Sbjct: 298 LGMRLDNWPPASL 310 >gi|17547712|ref|NP_521114.1| DNA-directed RNA polymerase subunit alpha [Ralstonia solanacearum GMI1000] gi|20139458|sp|Q8XV38|RPOA_RALSO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|17430017|emb|CAD16702.1| probable dna-directed rna polymerase alpha chain (rnap alphasubunit) (transcriptase alpha chain) (rna polymerase alpha subunit) protein [Ralstonia solanacearum GMI1000] gi|299065441|emb|CBJ36610.1| RNA polymerase, alpha subunit; RNA polymerase alpha chain family [Ralstonia solanacearum CMR15] Length = 326 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 145/326 (44%), Positives = 211/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ + I +DA ++P+++VSY Sbjct: 122 NPGHVIASLSAGGKLDMQIKVEQGRGYVPGNVRKFGDESSKVIGRIVLDASFAPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 AARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|15612725|ref|NP_241028.1| DNA-directed RNA polymerase subunit alpha [Bacillus halodurans C-125] gi|6094120|sp|O50634|RPOA_BACHD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2760185|dbj|BAA24194.1| RNA polymerase alpha subunit [Bacillus halodurans] gi|4512431|dbj|BAA75298.1| rpoA homologue (identity of 85% to B. subtilis ) [Bacillus halodurans] gi|10172774|dbj|BAB03881.1| DNA-directed RNA polymerase alpha subunit [Bacillus halodurans C-125] Length = 314 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-VIETIEI-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T I+LN+K + LK+ D K + I +G GVVTAGD+ +D++V Sbjct: 61 VLHEFSTIEGVVEDVTTIVLNLKQLALKIYSDEDKTLEIDTQGEGVVTAGDLTHDSDVDV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A +RM +T +G GYVPA+ ++++ IG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLTTGAHLRMRITAKRGRGYVPAEGNKSDELAIGVIPIDSIYTPVSRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQVTNYDKLTLDVWTDGSIRPEEAVSLGAKILTEHLNIFVGLTDQAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 LG +GL L Sbjct: 301 EKLGELGLGL 310 >gi|237747390|ref|ZP_04577870.1| RNA polymerase [Oxalobacter formigenes HOxBLS] gi|229378741|gb|EEO28832.1| RNA polymerase [Oxalobacter formigenes HOxBLS] Length = 325 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 152/333 (45%), Positives = 212/333 (63%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N +KP I + R+++ EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQNN---FLKPR---IINVESLGGGRSIVEMEPFERGYGHTLGNALRRVLLSSMTGYAPT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GV+HE S++ GV ED+ D++LN+KG+ K+ +T+ K GPG+VTA DI+ Sbjct: 55 EVTIAGVVHEYSTLDGVQEDVVDLLLNLKGVVFKLHNRDVITLTLKKSGPGIVTAADIEL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYS 178 +D+E++NPDHVI NL + + M++ V KG GYVP R D I +DA +S Sbjct: 115 PHDVEIINPDHVIANLADNGKLDMQIKVEKGRGYVPGNVRRLSEDANKTIGRIILDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VESAR Q D DKL + I+T+G IT E+++ ++RIL DQL +F E Sbjct: 175 PVRRVSYAVESARVEQRTDLDKLIINIETNGVITAEEAIRQSARILVDQLSVFAALE--G 232 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N Sbjct: 233 TETTSEALTQVPAVDPILLRPVDDLELTVRSANCLKAENINYIGDLIQRSENELLKTPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L +WPP E+ Sbjct: 293 GRKSLNEIKEVLASRGLTLGMRLDNWPPAGFEK 325 >gi|288919690|ref|ZP_06414017.1| DNA-directed RNA polymerase, alpha subunit [Frankia sp. EUN1f] gi|288348879|gb|EFC83129.1| DNA-directed RNA polymerase, alpha subunit [Frankia sp. EUN1f] Length = 349 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 125/319 (39%), Positives = 190/319 (59%), Gaps = 4/319 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P +E E R+ + EPL GF +TLGN+LRR L+SS+ GA++T++++DGVL Sbjct: 5 QRPTLVE----DPITEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGDVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PDLHLATLNDKGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 181 TRVEQRTDFDRLIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTK 300 Query: 310 LGTMGLFLGMNLPDWPPES 328 LG MGL L + P + P Sbjct: 301 LGAMGLQLKDSPPGFDPRQ 319 >gi|256821687|ref|YP_003145650.1| DNA-directed RNA polymerase subunit alpha [Kangiella koreensis DSM 16069] gi|256795226|gb|ACV25882.1| DNA-directed RNA polymerase, alpha subunit [Kangiella koreensis DSM 16069] Length = 326 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 147/329 (44%), Positives = 216/329 (65%), Gaps = 9/329 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + E + P I+ + E + ++ EP RGF HTLGN+LRR+L+SS+ GAA+T V Sbjct: 1 MSATEFLTPRQIK---VESSEGTKARVVLEPFERGFGHTLGNSLRRILLSSMPGAAVTEV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE S+I+GV ED+ DI+LN+KG+ +++ +T+ K+G GVVTA DI+ V+ Sbjct: 58 EIDGVLHEYSAIEGVQEDVIDILLNLKGLAVRLEDKEVATLTLQKKGEGVVTAADIEEVS 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPI 180 EV+N DH I L+ + M + + G GY + E+ IG++ +DA +SP+ Sbjct: 118 GTEVVNKDHYIATLNKGGALNMRIKIRLGRGYEASNTRKQPEGEDKAIGVLQVDASFSPM 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSYTVESAR Q D DKL + ++T+G+I E+++ ++ ILQ+QL F++ ++ K+ Sbjct: 178 KKVSYTVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRSATILQEQLAAFVDLKDEKQA 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+ Sbjct: 238 EPEKEE---PEIDPILLRPVDDLELTVRSANCLKTENIHYIGDLVQRTEVELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL + GL LGM L +WPP SI Sbjct: 295 KSLTEIKDVLASRGLSLGMRLENWPPSSI 323 >gi|91786411|ref|YP_547363.1| DNA-directed RNA polymerase subunit alpha [Polaromonas sp. JS666] gi|119366707|sp|Q12G77|RPOA_POLSJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|91695636|gb|ABE42465.1| DNA-directed RNA polymerase subunit alpha [Polaromonas sp. JS666] Length = 329 Score = 362 bits (929), Expect = 4e-98, Method: Composition-based stats. Identities = 159/334 (47%), Positives = 213/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTINVEQLG---ANRAKVTLEPFERGYGHTLGNALRRVLLSSMVGHAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G VTA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGPVTAADIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NP+HVI NL + M++ V G GYVP R ++ I +DA +S Sbjct: 115 PHDVEIINPEHVIVNLSHGGKIDMQIKVENGRGYVPGTMRRYGDESPKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EP 237 P+K+VSYTVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVLEIETNGAVTAEDAVRASAKILVEQLAVFAQLEGNE 234 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 LAAFDAPVQRSSQQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LGM L WPP +++ Sbjct: 295 LGRKSLNEIKEVLASRGLTLGMRLESWPPAGLDK 328 >gi|73542838|ref|YP_297358.1| DNA-directed RNA polymerase subunit alpha [Ralstonia eutropha JMP134] gi|90110863|sp|Q46WG9|RPOA_RALEJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|72120251|gb|AAZ62514.1| DNA-directed RNA polymerase, alpha subunit [Ralstonia eutropha JMP134] Length = 326 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 145/326 (44%), Positives = 213/326 (65%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G G+VTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKDGEGIVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP+HVI +L + M++ V +G GYVP + ++ + I +DA +SP+++VSY Sbjct: 122 NPNHVIAHLSAGGKLDMQIKVEQGRGYVPGNVRKFGDESSKVIGRIVLDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+TDG I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETDGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 SSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +++ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLDK 326 >gi|59710869|ref|YP_203645.1| DNA-directed RNA polymerase subunit alpha [Vibrio fischeri ES114] gi|197334008|ref|YP_002155021.1| DNA-directed RNA polymerase, alpha subunit [Vibrio fischeri MJ11] gi|75431853|sp|Q5E889|RPOA_VIBF1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238690301|sp|B5FGE1|RPOA_VIBFM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|59478970|gb|AAW84757.1| RNA polymerase, alpha subunit [Vibrio fischeri ES114] gi|197315498|gb|ACH64945.1| DNA-directed RNA polymerase, alpha subunit [Vibrio fischeri MJ11] Length = 329 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVP+ H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ K+SY VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDKISYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|296168685|ref|ZP_06850434.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium parascrofulaceum ATCC BAA-614] gi|295896594|gb|EFG76235.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium parascrofulaceum ATCC BAA-614] Length = 347 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 122/320 (38%), Positives = 194/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVL----TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T IILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVAGVKEDVTAIILNLKGLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ Sbjct: 121 PEMHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + P + P + Sbjct: 301 LHQLGLSLKDSPPSFDPSQV 320 >gi|302388740|ref|YP_003824561.1| DNA-directed RNA polymerase subunit alpha [Thermosediminibacter oceani DSM 16646] gi|302199368|gb|ADL06938.1| DNA-directed RNA polymerase subunit alpha [Thermosediminibacter oceani DSM 16646] Length = 316 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 137/311 (44%), Positives = 200/311 (64%), Gaps = 2/311 (0%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP IE + + E+ ++ EPL RG+ TLGN+LRRVL+SSL GAAIT+V+ID Sbjct: 2 TEIEKPR-IELVEI-SEDNTYGKIVIEPLERGYGTTLGNSLRRVLLSSLPGAAITSVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S+I GV ED +II+NIKG+ +KM D K + I +G G VTA DI D+E Sbjct: 60 GVQHEFSTIPGVLEDTVEIIMNIKGLAIKMHSDEPKLLRIEAQGEGEVTAKDIICDADVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++N DH I LD D + ELT+ KG GYV A+ ++ PIG+I ID++++P+ K +YT Sbjct: 120 IINKDHHIATLDKDGRLFAELTLEKGKGYVTAEKNKKPGQPIGIIPIDSIFTPVIKANYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R GQV DYDKL++ + T+G+I +++V+ A++IL D +F K+V+ + Sbjct: 180 VEHTRVGQVTDYDKLTLEVWTNGTIKPDEAVSAAAKILIDYFNLFTGLTTAVKKVEAPVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I +G+LIQ+T +M+++ N G+KSL E+ Sbjct: 240 KEKDERERILEMPIEELDLSVRSYNCLKRAGINTIGELIQKTPEEMMKVRNLGKKSLEEV 299 Query: 307 KGVLGTMGLFL 317 + L + L L Sbjct: 300 EEKLAALNLSL 310 >gi|226309835|ref|YP_002769729.1| DNA-directed RNA polymerase subunit alpha [Brevibacillus brevis NBRC 100599] gi|254765244|sp|C0ZIK7|RPOA_BREBN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|226092783|dbj|BAH41225.1| DNA-directed RNA polymerase alpha chain [Brevibacillus brevis NBRC 100599] Length = 314 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EIEKP-KIEVVEV-SDDNSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVRTVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T+IILNIKG+ LK+ D K + I G GVV AGDI+ +D+EV Sbjct: 61 VLHEFSTVEGVVEDVTEIILNIKGLALKIHSDEEKVIEIDAEGEGVVKAGDIRADSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L + + +T +G GYV + +++E+ PIG+I ID++Y+PIK+V+Y V Sbjct: 121 LNPDLHIATLANGGRLHIRMTAGRGRGYVQSDGNKSEDLPIGVIPIDSIYTPIKRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + T+GSI+ E++V+L ++I+ + L +F+ + K+ + + Sbjct: 181 ENTRVGQMTNYDKLTLEVWTNGSISPEEAVSLGAKIMTEHLNLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAELGLSL 310 >gi|212637981|ref|YP_002314501.1| DNA-directed RNA polymerase subunit alpha [Anoxybacillus flavithermus WK1] gi|212559461|gb|ACJ32516.1| DNA-directed RNA polymerase alpha subunit [Anoxybacillus flavithermus WK1] Length = 314 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 142/310 (45%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVEI-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LK+ D K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTTIILNIKKLALKIYSDEEKTLEIDVQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L D +RM +T +G GY PA ++ E+ PIG+I ID++Y+P+ +VSY V Sbjct: 121 LNPDLQIATLAKDGRLRMRMTAKRGRGYTPADANKREDQPIGVIPIDSIYTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + TDGSI +++++L ++IL + L +F+N + + + I Sbjct: 181 ENTRVGQMTNYDKLTIDVWTDGSIGPKEAISLGAKILTEHLNIFVNLTDEAQHAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELAQKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLSL 310 >gi|256380567|ref|YP_003104227.1| DNA-directed RNA polymerase subunit alpha [Actinosynnema mirum DSM 43827] gi|255924870|gb|ACU40381.1| DNA-directed RNA polymerase, alpha subunit [Actinosynnema mirum DSM 43827] Length = 350 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 123/310 (39%), Positives = 187/310 (60%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVLHE +++ G Sbjct: 9 LSEEAVSETRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVLHEFTTVPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+TDIILN+K + + D + + K+GPG VTAGDI + V NPD I L Sbjct: 69 VKEDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D Sbjct: 129 NGKGKLEIELVVERGRGYVPAVQNKQAGAEIGRIPVDSIYSPVMKVTYKVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + +++ SIT D+VA A + L + G+ + ++ + A Sbjct: 189 FDKLILDVESKPSITPRDAVASAGKTLVELFGLARELNVDAEGIEIGPSPAEADTIAAFA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L +GL L Sbjct: 249 MPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGAKSIDEVKMKLVGLGLAL 308 Query: 318 GMNLPDWPPE 327 + P + P Sbjct: 309 KDSPPGFDPS 318 >gi|254366058|ref|ZP_04982103.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis str. Haarlem] gi|134151571|gb|EBA43616.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis str. Haarlem] Length = 348 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 118/307 (38%), Positives = 187/307 (60%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+ Sbjct: 15 SPETRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDV 74 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+IILN+K + + D + + K+GPG VTAGDI + V NP I L+ Sbjct: 75 TEIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGK 134 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 135 LEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLI 194 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + ++T SI+ D++A A + L + G+ + ++ + + +++ Sbjct: 195 LDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDD 254 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 LDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPP 314 Query: 323 DWPPESI 329 + P + Sbjct: 315 SFDPSEV 321 >gi|330815274|ref|YP_004358979.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia gladioli BSR3] gi|327367667|gb|AEA59023.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia gladioli BSR3] Length = 325 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 149/328 (45%), Positives = 210/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + EN ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGENHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G G+VTAGDI+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGIVTAGDIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ + KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLTKGGKLDVQIKIEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T G IT E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETSGVITPEEAIRQSARILVDQLSVFAALEGTETAAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|145225546|ref|YP_001136224.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium gilvum PYR-GCK] gi|315445898|ref|YP_004078777.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. Spyr1] gi|145218032|gb|ABP47436.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium gilvum PYR-GCK] gi|315264201|gb|ADU00943.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. Spyr1] Length = 354 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 192/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVVAE----NRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDMHIATLNDKGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKNSISPRDALASAGKTLVELFGLARELNIEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADQAAHFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHQLGLSLKDSPASFDPSEV 320 >gi|326905303|gb|EGE52236.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis W-148] Length = 348 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 118/308 (38%), Positives = 187/308 (60%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED Sbjct: 14 SSPNNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKED 73 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T+IILN+K + + D + + K+GPG VTAGDI + V NP I L+ Sbjct: 74 VTEIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKG 133 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL Sbjct: 134 KLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKL 193 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T SI+ D++A A + L + G+ + ++ + + ++ Sbjct: 194 ILDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPID 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 254 DLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSP 313 Query: 322 PDWPPESI 329 P + P + Sbjct: 314 PSFDPSEV 321 >gi|120402447|ref|YP_952276.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium vanbaalenii PYR-1] gi|158513011|sp|A1T520|RPOA_MYCVP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119955265|gb|ABM12270.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium vanbaalenii PYR-1] Length = 350 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 122/305 (40%), Positives = 188/305 (61%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+TD Sbjct: 16 ENRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVTD 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+KG+ + D + + K+GPG VTAGDI + V NPD I L+ + Sbjct: 76 IILNLKGLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPDMHIATLNDKGKLE 135 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 136 VELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLILD 195 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SIT D++A A + L + G+ + ++ + +++L+ Sbjct: 196 VETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADQAAHFALPIDDLD 255 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + + Sbjct: 256 LTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPASF 315 Query: 325 PPESI 329 P + Sbjct: 316 DPSEV 320 >gi|327438303|dbj|BAK14668.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Solibacillus silvestris StLB046] Length = 314 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ +TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEI-SEDAKYGKFVVEPLERGYGNTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+ IILN+K + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVASIILNVKKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + + +RM + +G GY PA ++ E+ PIG+I ID++Y+P+ +V++ V Sbjct: 121 LNPDLYIATIAKNGHLRMRMYAQRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNFQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKLS+ + TDGSI +++++L ++IL + L +F+ + + + Sbjct: 181 ENTRVGQNSDYDKLSLDVWTDGSIGPKEAISLGAKILTEHLNIFVGMTNEAQTAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVLELANKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|303240944|ref|ZP_07327455.1| DNA-directed RNA polymerase, alpha subunit [Acetivibrio cellulolyticus CD2] gi|302591530|gb|EFL61267.1| DNA-directed RNA polymerase, alpha subunit [Acetivibrio cellulolyticus CD2] Length = 315 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIECV-ISSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGIAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+KG+ L + GD K V I G G VTA DI+ D+E+ Sbjct: 61 VLHEFSTVPGVVEDVTEIILNVKGLALNLHGDGPKVVYIDADGEGEVTAADIKADADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+H I L D + MEL++ KG GYV A+ ++ PIG+I +D++Y+P+ KV+YTV Sbjct: 121 LNPEHKIATLSGDHKLYMELSLDKGRGYVSAEKNKHPGQPIGVIPVDSIYTPVSKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + T+GSI +++++L ++I+ + L +FI+ + K + + Sbjct: 181 ENTRVGQVTDYDKLTLEVWTNGSIKPDEAISLGAKIMSEHLNLFIDLSDNAKNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DL RTE DM+++ N GRKSL E+ Sbjct: 241 EETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVF 300 Query: 308 GVLGTMGLFLG 318 L +GL L Sbjct: 301 NKLKALGLALA 311 >gi|121534660|ref|ZP_01666481.1| DNA-directed RNA polymerase, alpha subunit [Thermosinus carboxydivorans Nor1] gi|121306680|gb|EAX47601.1| DNA-directed RNA polymerase, alpha subunit [Thermosinus carboxydivorans Nor1] Length = 319 Score = 362 bits (929), Expect = 5e-98, Method: Composition-based stats. Identities = 139/315 (44%), Positives = 198/315 (62%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ ++ EPL RGF TLGN+LRRVL+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-KIEIVEI-SEDNRYGKIVWEPLERGFGITLGNSLRRVLLSSLPGAAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+TDIILN+K + LKM D K + I +G V AGDI T D+E+ Sbjct: 61 VLHEFSTIPGVREDVTDIILNLKELCLKMHSDEPKVLRIEAQGERDVKAGDIITDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I LD ++ME+TV +G GYVPA ++ + IG+I +D+++SP+ +V+YTV Sbjct: 121 LNPELHIATLDASGSLKMEITVERGRGYVPADKNKKPDHVIGVIPVDSIFSPVLRVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-- 245 R G V DYDKL++ + TDGS+ E++V+ A+ IL L +F N E + Sbjct: 181 TDTRVGNVTDYDKLTLEVWTDGSMRPEEAVSKAAGILVAHLKLFQNITGTPAEDEAGDGP 240 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + +E+L+LSVRS NCL+ I + +L Q+TE +M+++ N GRKSL Sbjct: 241 FAETPEETGPKTMEMTIEDLDLSVRSYNCLKRAGINTVAELTQKTEEEMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+K L +GL L Sbjct: 301 EEVKKKLEELGLSLA 315 >gi|110833283|ref|YP_692142.1| DNA-directed RNA polymerase subunit alpha [Alcanivorax borkumensis SK2] gi|119366659|sp|Q0VSH8|RPOA_ALCBS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110646394|emb|CAL15870.1| DNA-directed RNA polymerase, alpha subunit [Alcanivorax borkumensis SK2] Length = 335 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 150/332 (45%), Positives = 221/332 (66%), Gaps = 9/332 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + + P +I + + ++ EPL RGF HTLG ALRR+L+SS+ G AIT V+I Sbjct: 4 VNDFLTPRSIAVNAI---NQTHAKVVLEPLERGFGHTLGTALRRILISSMPGCAITEVEI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV HE SSI+GV ED+ +I+LN+KG+ LKM + + K+GPGVVTA DIQ + + Sbjct: 61 DGVQHEYSSIEGVQEDVINILLNLKGVALKMEDSEETTLELVKKGPGVVTANDIQRDHSV 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKK 182 E++NPDH+IC + D +R++L V KG GYV A ++E+D I +DA YSP+++ Sbjct: 121 EIVNPDHLICTITGDTELRVKLKVQKGRGYVAADSRQSEDDETRGIGRLQLDASYSPVRR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + ++TDG+I E+++ A+ ILQ Q+ +F++ E ++ K Sbjct: 181 VAYVVEAARVEQRTDLDKLVIDLETDGTIEPEEAIRRAATILQQQIAVFVDLE---QDAK 237 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 PEPKQEREEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKS 297 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 L EIK VL + GL LGM L +WPP S+ + + Sbjct: 298 LTEIKDVLASKGLSLGMRLENWPPVSLRDDDR 329 >gi|319654896|ref|ZP_08008971.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. 2_A_57_CT2] gi|317393459|gb|EFV74222.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. 2_A_57_CT2] Length = 314 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEI-SDDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILNIK + LK+ D K + I +G GVV A D+ +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTSIILNIKKLALKIYSDEEKTLEIDVQGEGVVKAADVTHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A +RM LT +G GY PA ++ E+ PIG+I ID++Y+P+ ++SY V Sbjct: 121 LNPDLHIATLGSNAHLRMRLTARRGRGYTPADQNKREDQPIGVIPIDSIYTPVSRISYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL+ + TDGS +D+VAL ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQMTNYDKLTFDVWTDGSTGPQDAVALGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEDLGLGL 310 >gi|284006138|emb|CBA71380.1| DNA-directed RNA polymerase alpha chain [Arsenophonus nasoniae] Length = 329 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVHGKDEVILTLNKSGIGPVTAADITP 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 +DIE++ P HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 NDDIEIVKPQHVICHLTDESAAINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+ R Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEATRVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 A---KVEVKDEKPEFDPILLRAVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|302871526|ref|YP_003840162.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor obsidiansis OB47] gi|302574385|gb|ADL42176.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor obsidiansis OB47] Length = 324 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 205/324 (63%), Gaps = 3/324 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EFQKPTI--RCEELSPDNKYGRYVIEPLERGYGITVGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKIMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NPDH I L+ DA + ME+TV++G GY+PA+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPDHHIATLNQDARLFMEITVNQGKGYIPAERNKQPNQPIGVIPVDSIYTPVVKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTIAAKILIEHFNLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEE 331 L ++GL L + P E EE Sbjct: 301 QKLHSLGLSLKKS-DSTPKEEEEE 323 >gi|254819221|ref|ZP_05224222.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium intracellulare ATCC 13950] Length = 347 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 120/320 (37%), Positives = 191/320 (59%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVL----TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T IILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTAIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ Sbjct: 121 PDLHIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKSSINPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHQLGLSLKDSPASFDPSQV 320 >gi|307731229|ref|YP_003908453.1| DNA-directed RNA polymerase subunit alpha [Burkholderia sp. CCGE1003] gi|307585764|gb|ADN59162.1| DNA-directed RNA polymerase, alpha subunit [Burkholderia sp. CCGE1003] Length = 325 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 148/328 (45%), Positives = 211/328 (64%), Gaps = 8/328 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+KP I + E+ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I Sbjct: 3 TSLLKPK---IIAVESLGESHAKVVMEPFERGYGHTLGNALRRVLLSSMIGYAPTEVTIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+ +++LN+KG+ K+ VT+ K G GVVTAG+I+ +D E Sbjct: 60 GVVHEYSTLDGVQEDVVNLLLNLKGVVFKLHNRDEVTVTLRKEGEGVVTAGEIELAHDCE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 V+NPDHVI +L + +++ V KG GYVP R + + I +DA +SP+++V Sbjct: 120 VINPDHVIAHLSKGGKLDVQIKVEKGRGYVPGNVRRYGEESAKIIGRIVLDASFSPVRRV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + + Sbjct: 180 SYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAALEGTEATAE- 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 239 -APSRAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L +WPP +++ Sbjct: 298 NEIKEVLASRGLTLGMKLENWPPAGLDK 325 >gi|209693948|ref|YP_002261876.1| DNA-directed RNA polymerase subunit alpha [Aliivibrio salmonicida LFI1238] gi|238057754|sp|B6EPU9|RPOA_ALISL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|208007899|emb|CAQ78029.1| RNA polymerase alpha-subunit [Aliivibrio salmonicida LFI1238] Length = 329 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 148/334 (44%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSLTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVP+ H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ K+SY VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDKISYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 328 >gi|240167783|ref|ZP_04746442.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium kansasii ATCC 12478] Length = 347 Score = 361 bits (928), Expect = 6e-98, Method: Composition-based stats. Identities = 121/306 (39%), Positives = 187/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILN+K + + D + + K+GPG VTAGDI + V NP I L+ + Sbjct: 75 DIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 135 EVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SIT D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPPT 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >gi|288942047|ref|YP_003444287.1| DNA-directed RNA polymerase subunit alpha [Allochromatium vinosum DSM 180] gi|288897419|gb|ADC63255.1| DNA-directed RNA polymerase, alpha subunit [Allochromatium vinosum DSM 180] Length = 337 Score = 361 bits (928), Expect = 7e-98, Method: Composition-based stats. Identities = 146/330 (44%), Positives = 211/330 (63%), Gaps = 5/330 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +KP ++ + + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I G Sbjct: 7 EFLKPRIVKVEQVDG-NPCHSRVSLEPLERGFGHTLGNALRRILLSSMDGYAVTEVEIQG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++++GV ED+ +I+LN K + + + G + KRGPG VTA DI + E+ Sbjct: 66 VLHEYTTLEGVQEDVLEILLNFKQLAIVLQGKDEATFALSKRGPGPVTAADIAIDHTAEI 125 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKVS 184 NP+ VI NL + M LTV +G GY PA E+ PIG + IDA +SP+++V+ Sbjct: 126 ANPELVIANLTTGGELSMTLTVRRGRGYEPASQRELEGAEDRPIGKLPIDASFSPVRRVA 185 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKE 243 V+SAR Q D D+L + ++T+G+I ++++ A+ IL+DQL F+ E E + Sbjct: 186 IEVQSARVEQRTDLDRLVIDLETNGTIDPKETIQRAATILRDQLSSFVALEGTAPAETQV 245 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + P++P LL+ V++LEL+VRS NCL+ ENI +GDLIQRTE ++L+ N G+KSL Sbjct: 246 QESRDESPYDPILLRPVDDLELTVRSANCLKAENIYLIGDLIQRTEVELLKTPNLGKKSL 305 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 EIK VL T GL LGM L +WPPE+I EL+ Sbjct: 306 TEIKDVLATRGLSLGMRLENWPPENIAELS 335 >gi|239818003|ref|YP_002946913.1| DNA-directed RNA polymerase subunit alpha [Variovorax paradoxus S110] gi|319796380|ref|YP_004158020.1| DNA-directed RNA polymerase, alpha subunit [Variovorax paradoxus EPS] gi|259494174|sp|C5CQ75|RPOA_VARPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|239804580|gb|ACS21647.1| DNA-directed RNA polymerase, alpha subunit [Variovorax paradoxus S110] gi|315598843|gb|ADU39909.1| DNA-directed RNA polymerase, alpha subunit [Variovorax paradoxus EPS] Length = 329 Score = 361 bits (928), Expect = 7e-98, Method: Composition-based stats. Identities = 155/327 (47%), Positives = 211/327 (64%), Gaps = 7/327 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I+ + Q N+ + EP RG+ HTLGNALRRVL+SS+ G + T V I GV Sbjct: 5 LLKPKTIQ---VEQLAANKAKVTLEPFERGYGHTLGNALRRVLLSSMVGYSATEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G V A DIQT +D+E++ Sbjct: 62 LHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGPVLASDIQTPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYSPIKKVSY 185 NPDHVI +L + M++ V KG GYVP R ++P I +DA +SP+K+VSY Sbjct: 122 NPDHVIAHLSQGGKLDMQIKVEKGRGYVPGTMRRYADEPTKSIGRIVLDASFSPVKRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKED 244 TVESAR Q D DKL + I+T+G+IT ED+V +++IL +QL +F E Sbjct: 182 TVESARVEQRTDLDKLLVEIETNGAITAEDAVRASAKILVEQLAVFAQLEGGELAAFDAP 241 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL Sbjct: 242 APRSAQQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLN 301 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK VL + GL LGM L WPP +++ Sbjct: 302 EIKEVLASRGLTLGMKLESWPPAGLDK 328 >gi|194435073|ref|ZP_03067311.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 1012] gi|194416680|gb|EDX32811.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 1012] Length = 329 Score = 361 bits (928), Expect = 7e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|42810|emb|CAA37839.1| unnamed protein product [Escherichia coli] Length = 329 Score = 361 bits (928), Expect = 7e-98, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+A Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAACVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|308070947|ref|YP_003872552.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) [Paenibacillus polymyxa E681] gi|305860226|gb|ADM72014.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) [Paenibacillus polymyxa E681] Length = 314 Score = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVDV-NDDGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +++ GV ED+T+IILN+K ++LK+ D K + I G GVVTAGDI+ +D+E+ Sbjct: 61 VLHEFATVPGVKEDVTEIILNLKALSLKIHSDEEKVLEIDAEGEGVVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L + + M + ++G GYV ++ ++ PIG+I +D++Y+PI +V+Y V Sbjct: 121 LNPDLHIATLGPGSRLHMRIFANRGRGYVKQDRNKRDDQPIGVIPVDSIYTPIARVNYGV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + + +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGSIRPEEAVSLGAKILTEHVMLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTTKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLEELGLGL 310 >gi|229009646|ref|ZP_04166872.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides DSM 2048] gi|229053983|ref|ZP_04195417.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH603] gi|229165125|ref|ZP_04292920.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH621] gi|228618388|gb|EEK75418.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH621] gi|228721401|gb|EEL72922.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH603] gi|228751668|gb|EEM01468.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides DSM 2048] Length = 314 Score = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T +ILN+K + LK+ + K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTMILNLKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A RM LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAKNAHFRMRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|116495921|ref|YP_807655.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus casei ATCC 334] gi|191639403|ref|YP_001988569.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus casei BL23] gi|227533985|ref|ZP_03964034.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|239630326|ref|ZP_04673357.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus paracasei subsp. paracasei 8700:2] gi|301067478|ref|YP_003789501.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus casei str. Zhang] gi|122262679|sp|Q035A9|RPOA_LACC3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238693011|sp|B3WAJ2|RPOA_LACCB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116106071|gb|ABJ71213.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus casei ATCC 334] gi|190713705|emb|CAQ67711.1| DNA-directed RNA polymerase subunit alpha (RNAP subunit alpha) (Transcriptase subunit alpha) (RNA polymerase subunit alpha) [Lactobacillus casei BL23] gi|227188362|gb|EEI68429.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp. paracasei ATCC 25302] gi|239527938|gb|EEQ66939.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus paracasei subsp. paracasei 8700:2] gi|300439885|gb|ADK19651.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Lactobacillus casei str. Zhang] gi|327383491|gb|AEA54967.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus casei LC2W] gi|327386684|gb|AEA58158.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus casei BD-II] Length = 312 Score = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDG Sbjct: 3 EFEKPNITKV----DESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LKM+ D K + I GP VTA DI D+EV Sbjct: 59 VLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ IC + + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y V Sbjct: 119 LNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + Sbjct: 179 ESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TEADM+++ N GRKSL E+K Sbjct: 239 EETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKTEADMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLGL 308 >gi|188584865|ref|YP_001916410.1| DNA-directed RNA polymerase, alpha subunit [Natranaerobius thermophilus JW/NM-WN-LF] gi|229564254|sp|B2A4Q0|RPOA_NATTJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|179349552|gb|ACB83822.1| DNA-directed RNA polymerase, alpha subunit [Natranaerobius thermophilus JW/NM-WN-LF] Length = 315 Score = 361 bits (927), Expect = 8e-98, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 207/315 (65%), Gaps = 2/315 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + +E + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-QIECHEMNEES-TYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED T+I+LN+K + LK+ D ++ +T+ K G G VTAGDIQ +D++V Sbjct: 61 VLHEFSSIPGVVEDTTEIVLNLKRLALKIHSDENQVLTLEKEGKGPVTAGDIQAGSDVDV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ I L D + ME+T G GYV A+ ++ PIGLI +D++++P+ K ++ V Sbjct: 121 INPELHIATLSEDTRLYMEITAKNGRGYVRAERNKEPEQPIGLIPVDSVFTPVTKANFYV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + R GQV DYD+L++ + TDGS+ +++V+++++I+Q+ L +FIN E +++ + Sbjct: 181 DDTRVGQVTDYDRLTLEVWTDGSLKPDEAVSMSAKIMQEHLDLFINLTEKATDMEVMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + ++EL+LSVRS NCL+ I +G+L Q+T DM+++ N G+KSL E+K Sbjct: 241 EEDNKEKIMELSIDELDLSVRSYNCLKRAGINTIGELTQKTPEDMMKVRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFLGMNLP 322 L +GL L + Sbjct: 301 NKLTELGLSLKDSKE 315 >gi|146297257|ref|YP_001181028.1| DNA-directed RNA polymerase, alpha subunit [Caldicellulosiruptor saccharolyticus DSM 8903] gi|166229266|sp|A4XLQ2|RPOA_CALS8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145410833|gb|ABP67837.1| DNA-directed RNA polymerase subunit alpha [Caldicellulosiruptor saccharolyticus DSM 8903] Length = 324 Score = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 139/326 (42%), Positives = 208/326 (63%), Gaps = 4/326 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP +++ + EPL RG+ T+GNALRR L+SSL GAA+TAV+IDG Sbjct: 3 EIQKPTI--RCEELSQDQKYGRYVIEPLERGYGITIGNALRRTLLSSLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +IILN+KG+ +KMS K + I +G V A DI+ DIE+ Sbjct: 61 VLHEFSTIPGVLEDVPEIILNLKGLAIKMSSPGPKVMYIEAQGECEVKAKDIKADADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NP+H I L+ DA + ME+TV++G GYVPA+ ++ N PIG+I +D++Y+P+ KV+Y V Sbjct: 121 CNPEHHIATLNEDARLFMEITVNQGKGYVPAERNKQSNQPIGVIPVDSIYTPVTKVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M I T+G+I ++++ +A++IL + +F + +++ + Sbjct: 181 ENTRVGQVTDYDKLTMEIWTNGTIRPDEALTVAAKILIEHFNLFTDLSNIPTKIETVVKQ 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EELELSVRS NCL+ I + DL+ +TE +M+++ N G+KSL E+ Sbjct: 241 EPPKRNKLLDMTIEELELSVRSYNCLKRAGINTVEDLVNKTEEEMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFLGMNLPDWPPESIEELA 333 L ++GL L D P+ EE Sbjct: 301 QKLHSLGLSL--KKSDSTPKGEEEEK 324 >gi|187930338|ref|YP_001900825.1| DNA-directed RNA polymerase subunit alpha [Ralstonia pickettii 12J] gi|241664506|ref|YP_002982866.1| DNA-directed RNA polymerase subunit alpha [Ralstonia pickettii 12D] gi|309782860|ref|ZP_07677580.1| DNA-directed RNA polymerase, alpha subunit [Ralstonia sp. 5_7_47FAA] gi|238691836|sp|B2UEJ3|RPOA_RALPJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|187727228|gb|ACD28393.1| DNA-directed RNA polymerase, alpha subunit [Ralstonia pickettii 12J] gi|240866533|gb|ACS64194.1| DNA-directed RNA polymerase, alpha subunit [Ralstonia pickettii 12D] gi|308918284|gb|EFP63961.1| DNA-directed RNA polymerase, alpha subunit [Ralstonia sp. 5_7_47FAA] Length = 326 Score = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 146/326 (44%), Positives = 211/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP HVI NL + ++L V +G GYVP + ++ + I +DA ++P+++VSY Sbjct: 122 NPGHVIANLSAGGKLDLQLKVEQGRGYVPGNVRKFGDESSKVIGRIVLDASFAPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 AARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|15610593|ref|NP_217974.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis H37Rv] gi|15843052|ref|NP_338089.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis CDC1551] gi|31794633|ref|NP_857126.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium bovis AF2122/97] gi|121639377|ref|YP_979601.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|148663322|ref|YP_001284845.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis H37Ra] gi|148824667|ref|YP_001289421.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis F11] gi|215405496|ref|ZP_03417677.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis 02_1987] gi|215413370|ref|ZP_03422055.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis 94_M4241A] gi|215428964|ref|ZP_03426883.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis T92] gi|215432428|ref|ZP_03430347.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis EAS054] gi|215447794|ref|ZP_03434546.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis T85] gi|224991873|ref|YP_002646562.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium bovis BCG str. Tokyo 172] gi|253800502|ref|YP_003033503.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis KZN 1435] gi|254234049|ref|ZP_04927374.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis C] gi|260188512|ref|ZP_05765986.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis CPHL_A] gi|289449161|ref|ZP_06438905.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis CPHL_A] gi|289747290|ref|ZP_06506668.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis 02_1987] gi|289752181|ref|ZP_06511559.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis T92] gi|289755590|ref|ZP_06514968.1| RNA polymerase subunit alpha [Mycobacterium tuberculosis EAS054] gi|289759620|ref|ZP_06518998.1| RNA polymerase subunit alpha [Mycobacterium tuberculosis T85] gi|294993005|ref|ZP_06798696.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis 210] gi|297636116|ref|ZP_06953896.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis KZN 4207] gi|297733116|ref|ZP_06962234.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis KZN R506] gi|298526941|ref|ZP_07014350.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis 94_M4241A] gi|306777804|ref|ZP_07416141.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu001] gi|306782523|ref|ZP_07420860.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu002] gi|306786342|ref|ZP_07424664.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu003] gi|306790711|ref|ZP_07429033.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu004] gi|306795239|ref|ZP_07433541.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu005] gi|306799429|ref|ZP_07437731.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu006] gi|306805275|ref|ZP_07441943.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu008] gi|306809461|ref|ZP_07446129.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu007] gi|306969569|ref|ZP_07482230.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu009] gi|306973923|ref|ZP_07486584.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu010] gi|307081632|ref|ZP_07490802.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu011] gi|307086238|ref|ZP_07495351.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu012] gi|313660447|ref|ZP_07817327.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis KZN V2475] gi|54039274|sp|P66702|RPOA_MYCBO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042185|sp|P66701|RPOA_MYCTU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512956|sp|A1KPE3|RPOA_MYCBP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172047915|sp|A5U8D3|RPOA_MYCTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2104380|emb|CAB08723.1| PROBABLE DNA-DIRECTED RNA POLYMERASE (ALPHA CHAIN) RPOA (TRANSCRIPTASE ALPHA CHAIN) (RNA POLYMERASE ALPHA SUBUNIT) (DNA-DIRECTED RNA NUCLEOTIDYLTRANSFERASE) [Mycobacterium tuberculosis H37Rv] gi|13883396|gb|AAK47903.1| DNA-directed RNA polymerase, alpha subunit [Mycobacterium tuberculosis CDC1551] gi|31620230|emb|CAD95673.1| PROBABLE DNA-DIRECTED RNA POLYMERASE (ALPHA CHAIN) RPOA (TRANSCRIPTASE ALPHA CHAIN) (RNA POLYMERASE ALPHA SUBUNIT) (DNA-DIRECTED RNA NUCLEOTIDYLTRANSFERASE) [Mycobacterium bovis AF2122/97] gi|121495025|emb|CAL73511.1| Probable DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium bovis BCG str. Pasteur 1173P2] gi|124599578|gb|EAY58682.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis C] gi|148507474|gb|ABQ75283.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis H37Ra] gi|148723194|gb|ABR07819.1| DNA-directed RNA polymerase alpha subunit rpoA [Mycobacterium tuberculosis F11] gi|224774988|dbj|BAH27794.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium bovis BCG str. Tokyo 172] gi|253322005|gb|ACT26608.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis KZN 1435] gi|289422119|gb|EFD19320.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis CPHL_A] gi|289687818|gb|EFD55306.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis 02_1987] gi|289692768|gb|EFD60197.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis T92] gi|289696177|gb|EFD63606.1| RNA polymerase subunit alpha [Mycobacterium tuberculosis EAS054] gi|289715184|gb|EFD79196.1| RNA polymerase subunit alpha [Mycobacterium tuberculosis T85] gi|298496735|gb|EFI32029.1| DNA-directed RNA polymerase (alpha chain) rpoA [Mycobacterium tuberculosis 94_M4241A] gi|308213889|gb|EFO73288.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu001] gi|308324840|gb|EFP13691.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu002] gi|308329094|gb|EFP17945.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu003] gi|308332902|gb|EFP21753.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu004] gi|308336562|gb|EFP25413.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu005] gi|308340437|gb|EFP29288.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu006] gi|308344301|gb|EFP33152.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu007] gi|308348192|gb|EFP37043.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu008] gi|308352916|gb|EFP41767.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu009] gi|308356759|gb|EFP45610.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu010] gi|308360704|gb|EFP49555.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu011] gi|308364319|gb|EFP53170.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis SUMu012] gi|323717941|gb|EGB27130.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis CDC1551A] gi|328460233|gb|AEB05656.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis KZN 4207] Length = 347 Score = 361 bits (927), Expect = 9e-98, Method: Composition-based stats. Identities = 118/306 (38%), Positives = 188/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+K + + D + + K+GPG VTAGDI + V NP I L+ + Sbjct: 75 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 135 EVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 DLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >gi|289555728|ref|ZP_06444938.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis KZN 605] gi|289440360|gb|EFD22853.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis KZN 605] Length = 346 Score = 361 bits (926), Expect = 9e-98, Method: Composition-based stats. Identities = 118/306 (38%), Positives = 188/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 14 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 73 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+K + + D + + K+GPG VTAGDI + V NP I L+ + Sbjct: 74 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKL 133 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 134 EVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLIL 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A + L + G+ + ++ + + +++L Sbjct: 194 DVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 253 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 254 DLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPS 313 Query: 324 WPPESI 329 + P + Sbjct: 314 FDPSEV 319 >gi|199598858|ref|ZP_03212269.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus rhamnosus HN001] gi|229552733|ref|ZP_04441458.1| DNA-directed RNA polymerase [Lactobacillus rhamnosus LMS2-1] gi|258509456|ref|YP_003172207.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus rhamnosus GG] gi|258540654|ref|YP_003175153.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus rhamnosus Lc 705] gi|199590270|gb|EDY98365.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus rhamnosus HN001] gi|229313939|gb|EEN79912.1| DNA-directed RNA polymerase [Lactobacillus rhamnosus LMS2-1] gi|257149383|emb|CAR88356.1| DNA-directed RNA polymerase, subunit alpha [Lactobacillus rhamnosus GG] gi|257152330|emb|CAR91302.1| DNA-directed RNA polymerase, subunit alpha [Lactobacillus rhamnosus Lc 705] gi|259650735|dbj|BAI42897.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus rhamnosus GG] Length = 312 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDG Sbjct: 3 EFEKPNITKV----DESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LKM+ D K + I GP VTA DI D+EV Sbjct: 59 VLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ IC + + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y V Sbjct: 119 LNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + Sbjct: 179 ESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TEADM+++ N GRKSL E+K Sbjct: 239 EETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKTEADMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLGL 308 >gi|229015538|ref|ZP_04172535.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1273] gi|229027985|ref|ZP_04184138.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1271] gi|229170988|ref|ZP_04298589.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus MM3] gi|228612528|gb|EEK69749.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus MM3] gi|228733373|gb|EEL84202.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1271] gi|228745761|gb|EEL95766.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1273] Length = 314 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A RM LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAKNAHFRMRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|152973983|ref|YP_001373500.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus subsp. cytotoxis NVH 391-98] gi|171769269|sp|A7GK47|RPOA_BACCN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|152022735|gb|ABS20505.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cytotoxicus NVH 391-98] Length = 314 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ D K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSDEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA R+ LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLYIATLAKDAHFRVRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|169630849|ref|YP_001704498.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium abscessus ATCC 19977] gi|169242816|emb|CAM63844.1| DNA-directed RNA polymerase alpha chain RpoA [Mycobacterium abscessus] Length = 350 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 191/320 (59%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ETLAENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKSLVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDMHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYNVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLVLDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHQLGLSLKDSPTSFDPSEV 320 >gi|310644172|ref|YP_003948931.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus polymyxa SC2] gi|309249123|gb|ADO58690.1| DNA-directed RNA polymerase subunit alpha [Paenibacillus polymyxa SC2] Length = 314 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVDV-NDDGTYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +++ GV ED+T+IILN+K ++LK+ D K + I G GVVTAGDI+ +D+E+ Sbjct: 61 VLHEFATVPGVKEDVTEIILNLKALSLKIHSDEEKVLEIDAEGEGVVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L + + M + ++G GYV ++ ++ PIG+I +D++Y+PI +V+Y V Sbjct: 121 LNPDLHIATLGPGSRLHMRIFANRGRGYVKQDRNKRDDQPIGVIPVDSIYTPIARVNYGV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDG+I E++V+L ++IL + + +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGTIRPEEAVSLGAKILTEHVMLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTTKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLEELGLGL 310 >gi|225024813|ref|ZP_03714005.1| hypothetical protein EIKCOROL_01700 [Eikenella corrodens ATCC 23834] gi|224942416|gb|EEG23625.1| hypothetical protein EIKCOROL_01700 [Eikenella corrodens ATCC 23834] Length = 325 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 148/330 (44%), Positives = 212/330 (64%), Gaps = 6/330 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + EP RGF +TLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTYEFLKPRQIDVDAL---SATRAKVFMEPFERGFGYTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDG LHE S++ GV ED+ DI+LNIKG+ K+ G +V++ K G GVVTA D++ Sbjct: 58 EVVIDGALHEYSTLDGVQEDVVDILLNIKGVVFKLQGRDSVQVSLNKSGSGVVTAADLEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+EV+NP+HVIC L + + + +TV KG GY ++ IG I +DA +SP+ Sbjct: 118 PHDVEVINPEHVICRLSDNGKIELTITVEKGRGYQTVSSRNDDHKQIGAIHLDANFSPVH 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +VS+ V++AR Q D D L + I+T+G+I E++V A+RIL DQ+ +F + E E Sbjct: 178 RVSFEVQAARVEQRTDLDCLVLDIETNGAIDPEEAVRRAARILIDQMSVFADLEGTPVEE 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N GRK Sbjct: 238 SKEEA---PPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLGRK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LG L WPP +++ Sbjct: 295 SLNEIKEVLASKGLTLGSKLDVWPPVGLDK 324 >gi|108798085|ref|YP_638282.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. MCS] gi|119867181|ref|YP_937133.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. KMS] gi|126433745|ref|YP_001069436.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. JLS] gi|119366700|sp|Q1BD08|RPOA_MYCSS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513059|sp|A1UBY5|RPOA_MYCSK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513450|sp|A3PVL8|RPOA_MYCSJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|108768504|gb|ABG07226.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. MCS] gi|119693270|gb|ABL90343.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. KMS] gi|126233545|gb|ABN96945.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium sp. JLS] Length = 350 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 191/320 (59%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ETVADNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PEMHIATLNDKGKLEVELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHQLGLSLKDSPATFDPSEV 320 >gi|86739323|ref|YP_479723.1| DNA-directed RNA polymerase subunit alpha [Frankia sp. CcI3] gi|119366683|sp|Q2JFE8|RPOA_FRASC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|86566185|gb|ABD09994.1| DNA-directed RNA polymerase subunit alpha [Frankia sp. CcI3] Length = 349 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 126/319 (39%), Positives = 190/319 (59%), Gaps = 4/319 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P IE E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLIE----DPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PELRLATLNDKGKLEIELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 181 TRVEQRTDFDRLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTK 300 Query: 310 LGTMGLFLGMNLPDWPPES 328 LG MGL L + P + P Sbjct: 301 LGAMGLQLKDSPPGFDPRQ 319 >gi|297564065|ref|YP_003683038.1| DNA-directed RNA polymerase, alpha subunit [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] gi|296848514|gb|ADH70532.1| DNA-directed RNA polymerase, alpha subunit [Nocardiopsis dassonvillei subsp. dassonvillei DSM 43111] Length = 340 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 124/330 (37%), Positives = 191/330 (57%), Gaps = 4/330 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + R+ + EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV Sbjct: 5 QRPTLTE----EASSDLRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVE 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T++ILN+KG+ + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEMILNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + MELTV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ Sbjct: 121 PDLHIATLNGKGKLEMELTVERGRGYVSATQNKQAGQEIGRIPIDSIYSPVLRVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + I+T +I D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLIVDIETKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLNLTVRSYNCLKREGIHSVGELVARSEQDLLDIRNFGAKSIDEVKQK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L MGL L + P + P S + +D+ Sbjct: 301 LVDMGLSLKDSPPGFDPSSAADSYSSEDDE 330 >gi|229524552|ref|ZP_04413957.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae bv. albensis VL426] gi|229338133|gb|EEO03150.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae bv. albensis VL426] Length = 330 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 220/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL +F++ + Sbjct: 178 FSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDVFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|241759603|ref|ZP_04757704.1| DNA-directed RNA polymerase, alpha subunit [Neisseria flavescens SK114] gi|261380584|ref|ZP_05985157.1| DNA-directed RNA polymerase, alpha subunit [Neisseria subflava NJ9703] gi|241319975|gb|EER56356.1| DNA-directed RNA polymerase, alpha subunit [Neisseria flavescens SK114] gi|284796552|gb|EFC51899.1| DNA-directed RNA polymerase, alpha subunit [Neisseria subflava NJ9703] Length = 328 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLSS---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S+I GV ED+ D++LNIKGI K+ G + ++T+ K G G V AGDI Sbjct: 58 EVVISGVLHEYSTIDGVQEDVVDVLLNIKGIVFKLHGRNQVQLTLKKTGAGAVVAGDIDL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLADNGQIDMEIKVEQGRGYQSVSGRRVLRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|225076420|ref|ZP_03719619.1| hypothetical protein NEIFLAOT_01465 [Neisseria flavescens NRL30031/H210] gi|224952268|gb|EEG33477.1| hypothetical protein NEIFLAOT_01465 [Neisseria flavescens NRL30031/H210] Length = 328 Score = 361 bits (926), Expect = 1e-97, Method: Composition-based stats. Identities = 155/333 (46%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLSS---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S+I GV ED+ D++LNIKGI K+ G + ++T+ K G G V AGDI Sbjct: 58 EVVISGVLHEYSTIDGVQEDVVDVLLNIKGIVFKLHGRNQVQLTLKKTGAGAVVAGDIDL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY + R +N IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIDMEIKVEQGRGYQSVSGRRVLRDDNKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|288554753|ref|YP_003426688.1| DNA-directed RNA polymerase subunit alpha [Bacillus pseudofirmus OF4] gi|288545913|gb|ADC49796.1| DNA-directed RNA polymerase subunit alpha [Bacillus pseudofirmus OF4] Length = 314 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 205/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQID Sbjct: 3 EIEKPN-IETVEV-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDS 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K + LK+ D K + + +G GVVTAGD+ +DIEV Sbjct: 61 VLHEFSTIEGVVEDVTTIILNLKKLALKIYSDEEKTLEVDVQGEGVVTAGDLTHDSDIEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A M LT +G GY A+ ++ ++ PIG++ ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAKGAHFHMRLTAKRGRGYALAEGNKNDDQPIGVLPIDSIYTPVSRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQVTNYDKLTLDVWTDGSIRPEEAVSLGAKILTEHLNIFVGLTDQAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q++E DM+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 LG +GL L Sbjct: 301 EKLGELGLGL 310 >gi|298500605|ref|ZP_07010409.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae MAK 757] gi|297540774|gb|EFH76831.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae MAK 757] Length = 329 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 FSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|54022804|ref|YP_117046.1| DNA-directed RNA polymerase subunit alpha [Nocardia farcinica IFM 10152] gi|61215826|sp|Q5Z1K9|RPOA_NOCFA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54014312|dbj|BAD55682.1| putative RNA polymerase alpha subunit [Nocardia farcinica IFM 10152] Length = 352 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 193/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVIAE----NRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGTVTAGDIVPPAGVVVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDMHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLILDVETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P S+ Sbjct: 301 LHALGLSLKDSPASFDPSSV 320 >gi|15642566|ref|NP_232199.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121730283|ref|ZP_01682657.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae V52] gi|147674278|ref|YP_001218065.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae O395] gi|153824205|ref|ZP_01976872.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae B33] gi|227082688|ref|YP_002811239.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae M66-2] gi|229507377|ref|ZP_04396882.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae BX 330286] gi|229509699|ref|ZP_04399180.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae B33] gi|229513494|ref|ZP_04402958.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae TMA 21] gi|229516824|ref|ZP_04406270.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae RC9] gi|229521637|ref|ZP_04411055.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae TM 11079-80] gi|229527499|ref|ZP_04416891.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae 12129(1)] gi|229606883|ref|YP_002877531.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae MJ-1236] gi|254292242|ref|ZP_04963005.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae AM-19226] gi|254851111|ref|ZP_05240461.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae MO10] gi|255744460|ref|ZP_05418412.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholera CIRS 101] gi|258622737|ref|ZP_05717755.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM573] gi|258625765|ref|ZP_05720644.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM603] gi|261211126|ref|ZP_05925415.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. RC341] gi|262166592|ref|ZP_06034329.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM223] gi|262170492|ref|ZP_06038170.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus MB-451] gi|262401858|ref|ZP_06078423.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. RC586] gi|297581413|ref|ZP_06943336.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae RC385] gi|12230593|sp|Q9KP08|RPOA_VIBCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172047565|sp|A5F572|RPOA_VIBC3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765262|sp|C3LRN3|RPOA_VIBCM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|9657157|gb|AAF95712.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae O1 biovar El Tor str. N16961] gi|121627963|gb|EAX60526.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae V52] gi|126518273|gb|EAZ75498.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae B33] gi|146316161|gb|ABQ20700.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae O395] gi|150421844|gb|EDN13828.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae AM-19226] gi|227010576|gb|ACP06788.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae M66-2] gi|227014460|gb|ACP10670.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae O395] gi|229335131|gb|EEO00616.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae 12129(1)] gi|229341231|gb|EEO06235.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae TM 11079-80] gi|229345887|gb|EEO10859.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae RC9] gi|229349371|gb|EEO14327.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae TMA 21] gi|229353173|gb|EEO18112.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae B33] gi|229354882|gb|EEO19803.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae BX 330286] gi|229369538|gb|ACQ59961.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae MJ-1236] gi|254846816|gb|EET25230.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae MO10] gi|255737985|gb|EET93378.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholera CIRS 101] gi|258582003|gb|EEW06873.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM603] gi|258584925|gb|EEW09656.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM573] gi|260839627|gb|EEX66238.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. RC341] gi|261891568|gb|EEY37554.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus MB-451] gi|262026308|gb|EEY44976.1| DNA-directed RNA polymerase alpha subunit [Vibrio mimicus VM223] gi|262351830|gb|EEZ00961.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. RC586] gi|297534251|gb|EFH73089.1| DNA-directed RNA polymerase subunit alpha [Vibrio cholerae RC385] gi|327485053|gb|AEA79460.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae LMA3894-4] Length = 330 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 FSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|254429260|ref|ZP_05042967.1| DNA-directed RNA polymerase, alpha subunit [Alcanivorax sp. DG881] gi|196195429|gb|EDX90388.1| DNA-directed RNA polymerase, alpha subunit [Alcanivorax sp. DG881] Length = 335 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 220/332 (66%), Gaps = 9/332 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + + P +I + + ++ EPL RGF HTLG ALRR+L+SS+ G AIT V+I Sbjct: 4 VNDFLTPRSIAVNAI---NQTHAKVVLEPLERGFGHTLGTALRRILISSMPGCAITEVEI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV HE SSI+GV ED+ +I+LN+KG+ L+M + + K+GPG VTA DIQ + + Sbjct: 61 DGVQHEYSSIEGVQEDVINILLNLKGVALQMEDREEATLELVKKGPGAVTANDIQRDHSV 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKK 182 E++NPDH+IC + D +R++L V KG GYV A ++E+D I +DA YSP+++ Sbjct: 121 EIVNPDHLICTITGDTELRVKLKVQKGRGYVAADSRQSEDDETRGIGRLQLDASYSPVRR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + ++TDG+I E+++ A+ ILQ Q+ +F++ E ++ K Sbjct: 181 VAYVVEAARVEQRTDLDKLVIDLETDGTIDPEEAIRRAATILQQQIAVFVDLE---QDAK 237 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 PEPKQEREEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLGKKS 297 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 L EIK VL + GL LGM L +WPP S+ + + Sbjct: 298 LTEIKDVLASKGLSLGMRLENWPPVSLRDDDR 329 >gi|121603260|ref|YP_980589.1| DNA-directed RNA polymerase subunit alpha [Polaromonas naphthalenivorans CJ2] gi|158513921|sp|A1VJ40|RPOA_POLNA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|120592229|gb|ABM35668.1| DNA-directed RNA polymerase subunit alpha [Polaromonas naphthalenivorans CJ2] Length = 330 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 160/335 (47%), Positives = 215/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N L+KP I LG NR + EP RG+ HTLGNALRRVL+SS+ G A T Sbjct: 1 MQTN---LLKPKTINVEQLG---ANRAKVTLEPFERGYGHTLGNALRRVLLSSMVGHAAT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE SSI GV ED+ +I+LN+KG+ K+ +++ K G G +TA DIQT Sbjct: 55 EVTIAGVLHEYSSIDGVQEDVVNILLNLKGVVFKLHNRDEVTLSLRKDGEGPITAADIQT 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG---LITIDALYS 178 +D+E++NPDHVI NL + M++ V G GYVP R ++ I +DA +S Sbjct: 115 PHDVEIVNPDHVIMNLSHGGKIDMQIKVENGRGYVPGNVRRYGDESPKSIGRIVLDASFS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--E 236 P+K+VSYTVESAR Q D DKL + I+T+G++T ED+V +++IL +QL +F E E Sbjct: 175 PVKRVSYTVESARVEQRTDLDKLVLEIETNGAVTAEDAVRASAKILVEQLAVFAQLEGNE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + S F+P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LGAIINDPAPRSSQQFDPILLRPVDELELTVRSANCLKAENIYYIGDLIQRTENELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N GRKSL EIK VL + GL LGM L WPP +++ Sbjct: 295 NLGRKSLNEIKEVLASRGLTLGMRLESWPPAGLDK 329 >gi|324999252|ref|ZP_08120364.1| DNA-directed RNA polymerase subunit alpha [Pseudonocardia sp. P1] Length = 350 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEDVV----TETRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKELVVSSEEDEPVTMYLRKQGPGAVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I +L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIASLNDKGRLEVELVVERGRGYVPAMQNKATGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + +++ SIT D++A + + L + G+ + ++ + + Sbjct: 181 TRVEQRTDFDKLVLDVESKPSITPRDALASSGKTLVELFGLARELNVDAEGIEIGPSPQE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +EEL+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 ADTIAAFAMPIEELDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + P + P Sbjct: 301 LVGLGLALKDSPPGFDPS 318 >gi|42524352|ref|NP_969732.1| DNA-directed RNA polymerase subunit alpha [Bdellovibrio bacteriovorus HD100] gi|39576561|emb|CAE80725.1| DNA-directed RNA polymerase, alpha subunit [Bdellovibrio bacteriovorus HD100] Length = 332 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 157/320 (49%), Positives = 213/320 (66%), Gaps = 2/320 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +IKP E ++ I PL RGF TLGN+LRR+L+SS+ G+AITAV+ +GV Sbjct: 1 MIKPKGFEVDR-DSLRDDYAKFIIRPLERGFGVTLGNSLRRILLSSMMGSAITAVKFEGV 59 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE ++I V ED+TDIILN+K + K + I K+GPG VTA DIQT + IEVL Sbjct: 60 LHEFTTIPDVLEDVTDIILNLKEVRFKQYTADSLTLKISKKGPGKVTAADIQTTDKIEVL 119 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD I L +A E+ VS G GYVP +R + P+G I +DALYSPI+KV+Y V Sbjct: 120 NPDLPIATLGANANFNAEIVVSFGRGYVPV-ENRETDLPVGFIGVDALYSPIRKVNYNVS 178 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +AR GQ DYD L++ + TDGS+ E++VAL+S+I+++QL +F+ F+E + +E + Sbjct: 179 NARVGQRTDYDALTLEVWTDGSLKPEEAVALSSKIMKEQLQIFLTFDETMEPAEEARELG 238 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 S N L + V++LELSVRS NCL+ NI Y+G+L+ R+EA+ML+ NFGRKSL EIK Sbjct: 239 SPTLNENLFRSVDDLELSVRSANCLKNANIRYIGELVVRSEAEMLKTKNFGRKSLNEIKE 298 Query: 309 VLGTMGLFLGMNLPDWPPES 328 +LG MGL LGM + WPP Sbjct: 299 ILGEMGLGLGMKIEGWPPAG 318 >gi|260886903|ref|ZP_05898166.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sputigena ATCC 35185] gi|330839299|ref|YP_004413879.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sputigena ATCC 35185] gi|260863502|gb|EEX78002.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sputigena ATCC 35185] gi|329747063|gb|AEC00420.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sputigena ATCC 35185] Length = 319 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 132/314 (42%), Positives = 197/314 (62%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDG Sbjct: 3 EIEKP-KIEIVEI-SEDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLPGAAITSIRIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV +D+T+I+LN+K + KM + + + + +G +TA DI T D+E+ Sbjct: 61 VLHEFSTIPGVRDDVTNIVLNLKSLCFKMYSEEPRVLRLDVKGEKEITAADIITDPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ D + ME+ V +G GYV A+ ++ + IG+I ID+++SPI++V+YTV Sbjct: 121 LNPDLHIATLNEDGELHMEMIVERGKGYVAAEKNKKPDHVIGVIPIDSIFSPIQRVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVKE 243 + R G V DYDKL + + TDGSI E+ V+ A+ IL +F N E ++E Sbjct: 181 QDTRVGNVTDYDKLILDVWTDGSIRPEEGVSRAASILISHFKLFQNMAGIPEIEEEEEIA 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +++L+LSVRS NCL+ NI + DL+ +TE DM+++ N GRKSL Sbjct: 241 PPEPEEPDASKVLETTIDDLDLSVRSFNCLKRANINTVADLVSKTEEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+K L L L Sbjct: 301 EEVKKKLEEYDLTL 314 >gi|307823466|ref|ZP_07653695.1| DNA-directed RNA polymerase, alpha subunit [Methylobacter tundripaludum SV96] gi|307735451|gb|EFO06299.1| DNA-directed RNA polymerase, alpha subunit [Methylobacter tundripaludum SV96] Length = 337 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 145/333 (43%), Positives = 221/333 (66%), Gaps = 6/333 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L+KP +E + + N + ++ EPL RGF H++GNALRRVL+S++ G A+T Sbjct: 1 MQNSISGLLKPRLVEVV---SKTPNHSKIVIEPLERGFGHSIGNALRRVLLSTIPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE ++I+GV ED+ DI+LN+K + + + +T+ K G G VTA DI Sbjct: 58 DVEIEGVLHEYTTIEGVQEDVIDILLNLKKLAVVLHSKDEVELTLSKHGAGCVTAADIIL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI---GLITIDALYS 178 +D+E++NPD VI NL V+ M++ V +G GY P + ++ G + +DA YS Sbjct: 118 PHDVEIINPDLVIANLTQVGVLNMKIRVRRGRGYEPVSVRKLNSEHSLVVGALQLDASYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI KV+Y VES R Q + DKL + ++T+G++ E+++ LA+ IL DQL +F++FE+ Sbjct: 178 PIVKVAYQVESTRVEQRTNLDKLVIELETNGTVDPEETIKLAATILHDQLSVFVDFEKVN 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 ++ E+ F+P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 238 DQLAEEEVEVEEIFDPVLLRPVDDLELTVRSANCLKAENIFYIGDLIQRTEVELLKTPNL 297 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK +L GL LGM L +WPPE++ + Sbjct: 298 GKKSLTEIKDILALKGLSLGMRLENWPPENLAD 330 >gi|260907114|ref|ZP_05915436.1| DNA-directed RNA polymerase subunit alpha [Brevibacterium linens BL2] Length = 332 Score = 360 bits (925), Expect = 1e-97, Method: Composition-based stats. Identities = 122/330 (36%), Positives = 195/330 (59%), Gaps = 4/330 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVV----SENRSRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+ ILN+K + + D + K+GPG VTA D+ +E+ N Sbjct: 61 HEFSTVPGVKEDVTEFILNLKSLVVSSEFDEPVVAYLRKQGPGTVTAADVSAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + + MELT+ +G GYV + ++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNGEGRLDMELTIERGRGYVSSAQNKNADAEIGRVPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + I+T S+T D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLVLDIETKPSMTPRDAIASAGKTLVELFGLARELNVEAEGIEIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADLALAIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + + ++E ED+ Sbjct: 301 LNELGLSLKDSPAGFEAGLVDEDQSYVEDE 330 >gi|229542177|ref|ZP_04431237.1| DNA-directed RNA polymerase, alpha subunit [Bacillus coagulans 36D1] gi|229326597|gb|EEN92272.1| DNA-directed RNA polymerase, alpha subunit [Bacillus coagulans 36D1] Length = 314 Score = 360 bits (925), Expect = 2e-97, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEV-SDDATYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+++GV ED+T IILN+K + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VMHEFSTVEGVVEDVTSIILNLKKLALKIYSDEEKTLEIDVQGEGAVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + + +RM +T ++G GYVPA ++ E+ PIG+I ID++Y+P+++V+Y V Sbjct: 121 LNPDLYIATVAENGHLRMRMTANQGRGYVPADQNKREDHPIGVIPIDSIYTPVQRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKLS+ + TDGSI ++++AL ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQISNYDKLSLDVTTDGSIGPKEAIALGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEDLGLGL 310 >gi|30018406|ref|NP_830037.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 14579] gi|30260328|ref|NP_842705.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Ames] gi|42779218|ref|NP_976465.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 10987] gi|47525393|ref|YP_016742.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. 'Ames Ancestor'] gi|47570249|ref|ZP_00240900.1| DNA-directed RNA polymerase alpha chain [Bacillus cereus G9241] gi|49183171|ref|YP_026423.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Sterne] gi|49481737|ref|YP_034488.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar konkukian str. 97-27] gi|52145083|ref|YP_081747.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus E33L] gi|65317583|ref|ZP_00390542.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Bacillus anthracis str. A2012] gi|118475905|ref|YP_893056.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis str. Al Hakam] gi|167642075|ref|ZP_02400299.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0193] gi|170689688|ref|ZP_02880866.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0465] gi|177656195|ref|ZP_02937176.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0174] gi|190567453|ref|ZP_03020367.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis Tsiankovskii-I] gi|196041162|ref|ZP_03108458.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus NVH0597-99] gi|206972214|ref|ZP_03233161.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus AH1134] gi|217957712|ref|YP_002336256.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH187] gi|218232273|ref|YP_002364986.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus B4264] gi|218895272|ref|YP_002443683.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus G9842] gi|218901342|ref|YP_002449176.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus AH820] gi|222093907|ref|YP_002527957.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Q1] gi|225862189|ref|YP_002747567.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus 03BB102] gi|227812810|ref|YP_002812819.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. CDC 684] gi|228898890|ref|ZP_04063172.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis IBL 4222] gi|228905934|ref|ZP_04069831.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis IBL 200] gi|228912876|ref|ZP_04076523.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228919087|ref|ZP_04082466.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228925390|ref|ZP_04088486.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228931639|ref|ZP_04094545.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228937440|ref|ZP_04100086.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228943942|ref|ZP_04106327.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228950685|ref|ZP_04112819.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228956578|ref|ZP_04118374.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pakistani str. T13001] gi|228963237|ref|ZP_04124406.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar sotto str. T04001] gi|228970326|ref|ZP_04130985.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228976896|ref|ZP_04137308.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis Bt407] gi|228983392|ref|ZP_04143605.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|229041042|ref|ZP_04189805.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH676] gi|229067902|ref|ZP_04201219.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus F65185] gi|229074198|ref|ZP_04207244.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock4-18] gi|229089268|ref|ZP_04220549.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-42] gi|229094859|ref|ZP_04225864.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-29] gi|229100936|ref|ZP_04231740.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-28] gi|229107823|ref|ZP_04237459.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock1-15] gi|229113813|ref|ZP_04243248.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock1-3] gi|229119799|ref|ZP_04249060.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus 95/8201] gi|229125654|ref|ZP_04254686.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-Cer4] gi|229136983|ref|ZP_04265610.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST26] gi|229142943|ref|ZP_04271384.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST24] gi|229148546|ref|ZP_04276802.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus m1550] gi|229153915|ref|ZP_04282045.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 4342] gi|229159310|ref|ZP_04287334.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus R309803] gi|229176737|ref|ZP_04304141.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus 172560W] gi|229182531|ref|ZP_04309782.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BGSC 6E1] gi|229188422|ref|ZP_04315470.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 10876] gi|229194527|ref|ZP_04321330.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus m1293] gi|229602997|ref|YP_002864788.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0248] gi|254686636|ref|ZP_05150495.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. CNEVA-9066] gi|254726284|ref|ZP_05188066.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. A1055] gi|254735289|ref|ZP_05192997.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Western North America USA6153] gi|254739481|ref|ZP_05197179.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Kruger B] gi|254756844|ref|ZP_05208872.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Australia 94] gi|296500970|ref|YP_003662670.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis BMB171] gi|300119550|ref|ZP_07057094.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus SJ1] gi|301051874|ref|YP_003790085.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis CI] gi|33301600|sp|Q81J18|RPOA_BACCR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33301605|sp|Q81VQ4|RPOA_BACAN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215852|sp|Q63H64|RPOA_BACCZ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215930|sp|Q6HPN2|RPOA_BACHK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215979|sp|Q73F69|RPOA_BACC1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512483|sp|A0R8K6|RPOA_BACAH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|29893946|gb|AAP07238.1| DNA-directed RNA polymerase alpha chain [Bacillus cereus ATCC 14579] gi|30253649|gb|AAP24191.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. Ames] gi|42735133|gb|AAS39073.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus ATCC 10987] gi|47500541|gb|AAT29217.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. 'Ames Ancestor'] gi|47553073|gb|EAL11473.1| DNA-directed RNA polymerase alpha chain [Bacillus cereus G9241] gi|49177098|gb|AAT52474.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. Sterne] gi|49333293|gb|AAT63939.1| DNA-directed RNA polymerase [Bacillus thuringiensis serovar konkukian str. 97-27] gi|51978552|gb|AAU20102.1| DNA-directed RNA polymerase [Bacillus cereus E33L] gi|118415130|gb|ABK83549.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis str. Al Hakam] gi|167509962|gb|EDR85384.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0193] gi|170666359|gb|EDT17144.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0465] gi|172079843|gb|EDT64957.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0174] gi|190561580|gb|EDV15551.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis Tsiankovskii-I] gi|196028097|gb|EDX66708.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus NVH0597-99] gi|206732788|gb|EDZ49963.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus AH1134] gi|217066667|gb|ACJ80917.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus AH187] gi|218160230|gb|ACK60222.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus B4264] gi|218539881|gb|ACK92279.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus AH820] gi|218541781|gb|ACK94175.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus G9842] gi|221237955|gb|ACM10665.1| DNA-directed RNA polymerase [Bacillus cereus Q1] gi|225788641|gb|ACO28858.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cereus 03BB102] gi|227006086|gb|ACP15829.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. CDC 684] gi|228588993|gb|EEK47008.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus m1293] gi|228595096|gb|EEK52867.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 10876] gi|228600986|gb|EEK58555.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BGSC 6E1] gi|228606780|gb|EEK64197.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus 172560W] gi|228624202|gb|EEK81004.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus R309803] gi|228629596|gb|EEK86293.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus ATCC 4342] gi|228634962|gb|EEK91535.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus m1550] gi|228640564|gb|EEK96953.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST24] gi|228646521|gb|EEL02728.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-ST26] gi|228657846|gb|EEL13652.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus BDRD-Cer4] gi|228663700|gb|EEL19279.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus 95/8201] gi|228669684|gb|EEL25091.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock1-3] gi|228675672|gb|EEL30880.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock1-15] gi|228682515|gb|EEL36588.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-28] gi|228688602|gb|EEL42475.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-29] gi|228694107|gb|EEL47789.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-42] gi|228708968|gb|EEL61095.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock4-18] gi|228715261|gb|EEL67120.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus F65185] gi|228727339|gb|EEL78533.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH676] gi|228776382|gb|EEM24735.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228782866|gb|EEM31032.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis Bt407] gi|228789435|gb|EEM37355.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228796495|gb|EEM43934.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar sotto str. T04001] gi|228803143|gb|EEM49965.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pakistani str. T13001] gi|228809036|gb|EEM55521.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|228815775|gb|EEM62011.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228822273|gb|EEM68255.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228828067|gb|EEM73795.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228834312|gb|EEM79853.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228840612|gb|EEM85874.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228846812|gb|EEM91817.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228853749|gb|EEM98509.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis IBL 200] gi|228860790|gb|EEN05168.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis IBL 4222] gi|229267405|gb|ACQ49042.1| DNA-directed RNA polymerase, alpha subunit [Bacillus anthracis str. A0248] gi|296322022|gb|ADH04950.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis BMB171] gi|298723022|gb|EFI63920.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus SJ1] gi|300374043|gb|ADK02947.1| DNA-directed RNA polymerase alpha subunit [Bacillus cereus biovar anthracis str. CI] gi|324324128|gb|ADY19388.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar finitimus YBT-020] gi|326937932|gb|AEA13828.1| DNA-directed RNA polymerase subunit alpha [Bacillus thuringiensis serovar chinensis CT-43] Length = 314 Score = 360 bits (925), Expect = 2e-97, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA R+ LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLAKDAHFRVRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|319944770|ref|ZP_08019034.1| DNA-directed RNA polymerase subunit alpha [Lautropia mirabilis ATCC 51599] gi|319742019|gb|EFV94442.1| DNA-directed RNA polymerase subunit alpha [Lautropia mirabilis ATCC 51599] Length = 359 Score = 360 bits (925), Expect = 2e-97, Method: Composition-based stats. Identities = 147/355 (41%), Positives = 210/355 (59%), Gaps = 34/355 (9%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 ++KP +E + + ++ EP RG+ HTLGNALRRVL+SS+ G A T VQI GV Sbjct: 5 MLKPRLVEVQEIS--GPSHARVVMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVQIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ G+ ED+ D++LN+KG+ K+ G S +T+ K PG V A DI+ +D+E++ Sbjct: 63 VHEYSTVDGLREDVVDLLLNLKGVVFKLRGRSEVFLTLRKEVPGPVKASDIELPHDVEII 122 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTV 187 NPDHVI L + M++ V +G GYVP ++ IG I +DA +SP+++VSY V Sbjct: 123 NPDHVIATLTEGGKLDMQIKVEQGRGYVPGNMRNLGDSKTIGRIVLDASFSPVRRVSYAV 182 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ESAR Q D D+L + I+T+G+I E++V ++ IL DQL +F + E V + Sbjct: 183 ESARVEQRTDLDRLLIDIETNGAIAPEEAVRKSAAILVDQLQVFASIEGNDPAVPIGGSQ 242 Query: 248 KSL-------------------------------PFNPALLKKVEELELSVRSTNCLRGE 276 + +P LL+ V++LEL+VRS NCL+ E Sbjct: 243 TPMGATIGGHVSSVPSGVEGLGAGGAAGFGASTGTIDPILLRPVDDLELTVRSANCLKAE 302 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 NI Y+GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L DWPP +E Sbjct: 303 NIYYIGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMRLDDWPPAGLER 357 >gi|121997624|ref|YP_001002411.1| DNA-directed RNA polymerase subunit alpha [Halorhodospira halophila SL1] gi|158514009|sp|A1WV97|RPOA_HALHL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|121589029|gb|ABM61609.1| DNA-directed RNA polymerase subunit alpha [Halorhodospira halophila SL1] Length = 332 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 137/334 (41%), Positives = 220/334 (65%), Gaps = 6/334 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ ++ +KP ++E + +NR ++ EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MKGYLKDFLKPRSVE---IEPLSDNRAKVVLEPLERGFGHTLGNALRRLLLSSMPGTAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE ++++G+HED DI+LN+K + ++++ +++ K+GPG VTA DI T Sbjct: 58 EVEIEGVQHEYTAVEGIHEDTVDILLNLKDLAVRLNERDSVTLSVEKQGPGSVTAADIAT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +D+E+ NPD I + + + L + +G GY+P E+ IG + +DA +SP+ Sbjct: 118 DHDVEIQNPDLHIATITHEQPFKASLKIERGRGYLPVTAREEEDTRTIGHLALDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VSY VESAR Q D DKL + ++T+G +T E++V A+ +L+DQL +F++ E E Sbjct: 178 RRVSYAVESARVEQRTDLDKLVLDVETNGVVTPEEAVKFAASLLRDQLSVFVDLEGGLLE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ +P LL+ +++LEL+VRS NCL+ E+I ++GDL+QRTE ++L+ N G+ Sbjct: 238 GGDEQEE--PEIDPVLLRPIDDLELTVRSANCLKAESIHFVGDLVQRTEVELLKTPNLGK 295 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK L GL LGM L +WPP S+ + A+ Sbjct: 296 KSLNEIKDTLAEHGLSLGMQLDNWPPPSLGDRAR 329 >gi|298370566|ref|ZP_06981881.1| DNA-directed RNA polymerase, alpha subunit [Neisseria sp. oral taxon 014 str. F0314] gi|298281176|gb|EFI22666.1| DNA-directed RNA polymerase, alpha subunit [Neisseria sp. oral taxon 014 str. F0314] Length = 328 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 158/333 (47%), Positives = 217/333 (65%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLST---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LNIKGI K+ G S ++T+ K G G V AGDI+ Sbjct: 58 EVAIAGVLHEYSTVDGVQEDVVDILLNIKGIVFKLYGRSQVQLTLKKSGTGTVVAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIEMEIKVEQGRGYQSVSGRRVFRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+TDGS+ E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSLDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E+I K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEIEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|302877827|ref|YP_003846391.1| DNA-directed RNA polymerase, alpha subunit [Gallionella capsiferriformans ES-2] gi|302580616|gb|ADL54627.1| DNA-directed RNA polymerase, alpha subunit [Gallionella capsiferriformans ES-2] Length = 322 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 149/326 (45%), Positives = 209/326 (64%), Gaps = 10/326 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N + +KP IE + E + ++ EP RGF HTLGNALRR+L+SS+ GAA T Sbjct: 1 MYNN--DFLKPRIIEVQKI---SETQAKVVMEPFERGFGHTLGNALRRILLSSMAGAAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V++ GVLHE ++I GV ED+ DI+LN+KG+ L++ G +T+ K G GVVTA DI Sbjct: 56 EVKMSGVLHEYATIDGVQEDVVDILLNLKGVVLRLHGVKEVVLTLKKEGFGVVTAADISA 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSP 179 ++EVLNP+HVI +L + M++ V +G GYV A + E +G I +DA +SP Sbjct: 116 NAEVEVLNPEHVIAHLTAGGKLDMQIKVEQGRGYVSAISRQLPNETRAVGHIALDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +VSY VESAR Q D DKL MTI+T+G+I E ++ A+RIL DQ +F E + Sbjct: 176 VSRVSYAVESARVEQRTDLDKLIMTIETNGAIDPEQAIRNAARILVDQFSVFAALEGTEP 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V+++ +P LL+ V++LEL+ RS+NCL+ ++I Y+GDLIQ +E D+LR N G Sbjct: 236 VVEKE---HVPQVDPILLRPVDDLELTPRSSNCLKAQSIHYIGDLIQYSENDLLRTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 RKSL EIK VL L LGM L +WP Sbjct: 293 RKSLNEIKQVLAEHNLSLGMKLENWP 318 >gi|254468410|ref|ZP_05081816.1| DNA-directed RNA polymerase, alpha subunit [beta proteobacterium KB13] gi|207087220|gb|EDZ64503.1| DNA-directed RNA polymerase, alpha subunit [beta proteobacterium KB13] Length = 327 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 149/331 (45%), Positives = 211/331 (63%), Gaps = 8/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP +E ++ NR ++ EP+ RGF TLGNALRRVL+SS+ G AIT Sbjct: 1 MQNSPTEYLKPRIVEVDLI---NPNRAKVVLEPMERGFGFTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV+HE S+I GV ED+ DI+LN+K + LK+ + + + K G VTA D + Sbjct: 58 EVKIDGVVHEYSTIDGVQEDVVDILLNLKKVALKIHDGAEATINLKKDSEGEVTAADFEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++E++N D VI N++ + +E V G GY P ++ +++ IG + IDA +SP Sbjct: 118 PHNVEIVNKDLVIANVNKGGNLNIEAKVEMGRGYQPVPQRVNKDQDNVIGHLMIDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I KVSY VESAR Q D DKL M ++T+G + E ++ A+RIL QL +F N E Sbjct: 178 IFKVSYVVESARVEQRTDLDKLIMDVETNGVVDAEQAIRDAARILMGQLSVFANLESELT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV+ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR E D+L+ N G Sbjct: 238 EVEVQQA---PQIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLIQRHENDLLKAPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 RKSL EIK +L T GL LGM + +WPP+ +E Sbjct: 295 RKSLNEIKDILATKGLSLGMKVDNWPPQGVE 325 >gi|292492446|ref|YP_003527885.1| DNA-directed RNA polymerase, subunit alpha [Nitrosococcus halophilus Nc4] gi|291581041|gb|ADE15498.1| DNA-directed RNA polymerase, alpha subunit [Nitrosococcus halophilus Nc4] Length = 332 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 147/335 (43%), Positives = 215/335 (64%), Gaps = 9/335 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MSVSNFLKPRIVDVQRVNDYT---AKVTLEPLERGFGHTLGNALRRILLSSMPGCAIVEA 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE ++ +GV ED+T+I+LN+KG+ +K+ G + + +GPG VTAG+IQ + Sbjct: 58 QIDGVLHEYTTKEGVQEDMTEILLNLKGVAIKLHGRDEVTLALNSKGPGAVTAGEIQLEH 117 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPI 180 D+E++NP+HVI +L + + + V +G GY PA E PIG + +DA +SPI Sbjct: 118 DVEIINPEHVIAHLTKSGELNITMKVVRGRGYQPASVRIPKEEEERPIGYLILDASFSPI 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y V+SAR Q D DKL + I+T+G+I +++V A+ ILQDQL F+ E + + Sbjct: 178 RRVTYEVDSARVEQRTDLDKLIIEIETNGTIASDEAVRKAATILQDQLTAFV---ELEGK 234 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+ Sbjct: 235 TETAKEKKTAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 KSL EIK VL + GL LGM L +WPP + E K Sbjct: 295 KSLTEIKDVLASRGLSLGMRLENWPPAGLHEEETK 329 >gi|218885213|ref|YP_002434534.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio vulgaris str. 'Miyazaki F'] gi|226699353|sp|B8DNK9|RPOA_DESVM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|218756167|gb|ACL07066.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio vulgaris str. 'Miyazaki F'] Length = 347 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 147/335 (43%), Positives = 211/335 (62%), Gaps = 1/335 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP I + + EPL RG+ T+GNALRRVL+SSL+GAA +V Sbjct: 13 RNWSELVKPEQITRDS-DPADAMYGKFVCEPLERGYGTTIGNALRRVLLSSLQGAAFVSV 71 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 ++ GV HE ++I GV ED+TDI+LN+K + L M D + + + G V AGDI+T Sbjct: 72 KVSGVQHEFTTIPGVLEDVTDIVLNLKQVRLAMDTDEPQFLELSVNKKGAVKAGDIKTNQ 131 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + VLNPD I L D + E V G GYVPA H ++ IGLI +D+ ++P++KV Sbjct: 132 HVMVLNPDLHIATLTEDLELTFEFEVRMGKGYVPADMHEGLSEEIGLIKLDSSFAPVRKV 191 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE AR GQ+ +YDKL + + TDGS+T ED++A +++I++DQ+ +FINF+E Sbjct: 192 AYTVEQARVGQMTNYDKLIIEVWTDGSVTPEDAIAYSAKIIKDQISVFINFDERISGESS 251 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S N L K ++ELELSVR+TNCL+ NI +G+L+Q++E +ML+ NFGRKSL Sbjct: 252 GNSSGSSDVNENLFKGIDELELSVRATNCLKSANITLVGELVQKSENEMLKTKNFGRKSL 311 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EIK VL M L GM + + + E K+ + Sbjct: 312 DEIKRVLCDMSLDFGMKVDGFEKKYQEWKRKQQNE 346 >gi|228989345|ref|ZP_04149336.1| DNA-directed RNA polymerase subunit alpha [Bacillus pseudomycoides DSM 12442] gi|228995528|ref|ZP_04155196.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides Rock3-17] gi|229003153|ref|ZP_04160999.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides Rock1-4] gi|229083457|ref|ZP_04215805.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-44] gi|228699890|gb|EEL52527.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus Rock3-44] gi|228758116|gb|EEM07315.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides Rock1-4] gi|228764257|gb|EEM13136.1| DNA-directed RNA polymerase subunit alpha [Bacillus mycoides Rock3-17] gi|228770423|gb|EEM18996.1| DNA-directed RNA polymerase subunit alpha [Bacillus pseudomycoides DSM 12442] Length = 314 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA R+ LT +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLYIATLAKDAHFRVRLTAKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV +YDKL++ + TDGSI +++++L ++IL + L +F+ + + + + Sbjct: 181 EKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLEELGLGL 310 >gi|319639574|ref|ZP_07994321.1| DNA-directed RNA polymerase subunit alpha [Neisseria mucosa C102] gi|317399145|gb|EFV79819.1| DNA-directed RNA polymerase subunit alpha [Neisseria mucosa C102] Length = 328 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 156/333 (46%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTLSS---TRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S+I GV ED+ D++LNIKGI K+ G + ++T+ K G G V AGDI Sbjct: 58 EVVISGVLHEYSTIDGVQEDVVDVLLNIKGIVFKLHGRNQVQLTLKKAGAGAVVAGDIDL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEIINPEHVICHLSDNGQIDMEIKVEQGRGYQSVSGRRVLRDENKQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+T+GSI E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETNGSIDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|302036693|ref|YP_003797015.1| DNA-directed RNA polymerase subunit alpha [Candidatus Nitrospira defluvii] gi|300604757|emb|CBK41089.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Nitrospira defluvii] Length = 333 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 144/325 (44%), Positives = 206/325 (63%), Gaps = 2/325 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K ++ P +E E RGF T+GN+LRRVL+SSL GAA+T Sbjct: 1 MIKAMKDFQIPMRVEVDK-DTLSPTFGRFTTEAFERGFGTTVGNSLRRVLLSSLTGAAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+I GV ED+T IILN+K + L + GD K + + K+GPG DI Sbjct: 60 TVKIEGVLHEFSTIPGVTEDVTSIILNVKSLRLALQGDKPKTIRLKKKGPGEAKGSDITH 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D+ +L PD I LD DA + +E+T+ G G+VPA+ ++ E PIG+I +D+++SPIK Sbjct: 120 DGDVTILTPDLHIATLDKDASLDLEMTIKHGRGFVPAERNKEEGLPIGVIAVDSIFSPIK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE-PKKE 240 +V++ VE+AR G++ DYDKL++ I TDG+I+ D+++ A+ IL++ L +FIN EE + Sbjct: 180 RVNFHVENARVGRMTDYDKLTLEIWTDGTISPRDALSNAAGILREHLDIFINPEERSDAK 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 S N L + V ELELSVR+ NCL+ NI + DL+Q+TEA+ML+ NFG+ Sbjct: 240 PAAGSEDLSDEVNKNLYRSVNELELSVRAANCLKNANIKTIADLVQKTEAEMLKTKNFGK 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWP 325 KSL EIK +L MGL LGM + P Sbjct: 300 KSLNEIKEILTEMGLSLGMKVDALP 324 >gi|253577207|ref|ZP_04854527.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. oral taxon 786 str. D14] gi|251843451|gb|EES71479.1| DNA-directed RNA polymerase, alpha subunit [Paenibacillus sp. oral taxon 786 str. D14] Length = 314 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKP-KIETVEVNDEG-TYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +++ GV ED+T+IILN+K ++LK+ D K + I G GVVTAGDI+ +D+E+ Sbjct: 61 VLHEFATVPGVMEDVTEIILNLKALSLKIHSDEEKILEIDAEGEGVVTAGDIRADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I L+ + + M + +G GYV A ++ ++ PIG+I +D++Y+PI +V+Y V Sbjct: 121 LNTDLHIATLEPGSRLHMRIYAGRGRGYVQADRNKRDDQPIGVIPVDSIYTPITRVNYVV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGSI E++V+L ++IL + L +F+ + K+ + + Sbjct: 181 ENTRVGQVTNYDKLTLEVWTDGSIRPEEAVSLGAKILTEHLFLFVGLTDEAKDAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTTKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLQELGLGL 310 >gi|117927543|ref|YP_872094.1| DNA-directed RNA polymerase subunit alpha [Acidothermus cellulolyticus 11B] gi|158512363|sp|A0LRP8|RPOA_ACIC1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|117648006|gb|ABK52108.1| DNA-directed RNA polymerase subunit alpha [Acidothermus cellulolyticus 11B] Length = 341 Score = 360 bits (924), Expect = 2e-97, Method: Composition-based stats. Identities = 121/309 (39%), Positives = 184/309 (59%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S++ G Sbjct: 9 ITEEPVHDTRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFSTVPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+T++ILNIK + + D + + + K+GP VTA DI +EV NPD I L Sbjct: 69 AKEDVTEMILNIKELVVSSEHDDPQVIYLRKQGPCEVTAADIVAPAGVEVHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + +E+ V +G GYVPA ++ IG I ID++YSP+ KV+Y VE+ R Q D Sbjct: 129 NDKGKLEIEMVVERGRGYVPAAQNKLPGHEIGRIPIDSIYSPVLKVTYKVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L M ++T S+ D++A A + L + G+ + + + L Sbjct: 189 FDRLIMDVETKPSMRPRDAMASAGKTLVELFGLVRELNVDAEGIDIGPSPSDAALAADLA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L MGL L Sbjct: 249 LPIEDLNLTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGQKSIEEVKTKLAEMGLSL 308 Query: 318 GMNLPDWPP 326 + P + P Sbjct: 309 KDSPPGFDP 317 >gi|289209304|ref|YP_003461370.1| DNA-directed RNA polymerase, subunit alpha [Thioalkalivibrio sp. K90mix] gi|288944935|gb|ADC72634.1| DNA-directed RNA polymerase, alpha subunit [Thioalkalivibrio sp. K90mix] Length = 328 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 154/333 (46%), Positives = 217/333 (65%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q N EL+K IE + E N+ + EPL RGF HTLGNALRRVL+SS+ GAAI Sbjct: 1 MQSN--ELVKKQQIE---VEAENRNQAKVALEPLERGFGHTLGNALRRVLLSSIPGAAIV 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GVLHE ++I+GV ED+ DI+LN+KG+ L+M +++ K+GP VVTAGDI Sbjct: 56 EARIEGVLHEYTAIEGVQEDVVDILLNLKGVALRMHSREESTLSLKKKGPCVVTAGDITV 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+EV+NP+HVI + + + M LT G GY P + + IG + +DA +S Sbjct: 116 DHDVEVVNPEHVIATITKNVEIDMTLTARAGRGYEPVSTRRQAEGDETGIGRLLLDASFS 175 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI++V+Y VESAR Q D D+L + ++T+G+I +D+V A+ ILQ QL F++ +E Sbjct: 176 PIRRVAYRVESARLAQRTDMDRLVLELETNGAIAPDDAVRQAATILQGQLAPFVDLQEET 235 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EV + +P LL+ V+ELEL+VRS NCL+ EN+ Y+GDL+QRTE ++LR N Sbjct: 236 GEV---PGTTAGAIDPILLRPVDELELTVRSANCLKAENLYYIGDLVQRTEVELLRAPNL 292 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK L T GL LGM L +WPP + + Sbjct: 293 GKKSLTEIKDTLATHGLSLGMRLENWPPPGLRD 325 >gi|158520750|ref|YP_001528620.1| DNA-directed RNA polymerase, alpha subunit [Desulfococcus oleovorans Hxd3] gi|238686889|sp|A8ZV82|RPOA_DESOH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158509576|gb|ABW66543.1| DNA-directed RNA polymerase, alpha subunit [Desulfococcus oleovorans Hxd3] Length = 339 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 223/336 (66%), Gaps = 6/336 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NWQE+I+P+ I+ + I EPL RGF T+GNALRR+++SSL GAAI Sbjct: 5 LMYMNWQEMIQPDKIQ---VEAATPFYGKFICEPLGRGFGITIGNALRRIIISSLHGAAI 61 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+ID V+HE S+++GV ED+++IILN+K + LK S + K + I GPGVVTAGDI Sbjct: 62 TSVKIDNVMHEYSTVEGVLEDVSEIILNLKEVRLKTSTAAAKTIRIDAAGPGVVTAGDIA 121 Query: 121 TVND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + + +E+LNP+ I L A ++ME+TV G GY A+ ++ E P+ I IDA++SP Sbjct: 122 SPDGRVEILNPESHIATLSEGATLKMEMTVKVGRGYALAEANKDEETPVNTIPIDAMFSP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--P 237 I++V+Y V ++R Q D+DKL++ + TDGS+ ED+VA A++I+++Q+ +FINF+E Sbjct: 182 IRRVNYVVGNSRVKQKTDFDKLTLEVWTDGSVLPEDAVAFAAKIMKEQMNVFINFDESAE 241 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + + FN L + V ELELSVRS+NCL+ I + L+Q+TE++ML+ N Sbjct: 242 PEHAGRKDDSGGKVFNENLYRSVNELELSVRSSNCLKNAEIDKLYQLVQKTESEMLKTKN 301 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 FGRKSL EIK +L MGL LGM+L + P + + Sbjct: 302 FGRKSLNEIKELLAEMGLSLGMDLEGFVPPAEDNKE 337 >gi|15676095|ref|NP_273226.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis MC58] gi|121634042|ref|YP_974287.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis FAM18] gi|161871037|ref|YP_001600069.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis 053442] gi|218767142|ref|YP_002341654.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis Z2491] gi|254805788|ref|YP_003084009.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis alpha14] gi|304388968|ref|ZP_07371015.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis ATCC 13091] gi|54039275|sp|P66704|RPOA_NEIMB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042186|sp|P66703|RPOA_NEIMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513130|sp|A1KRJ9|RPOA_NEIMF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|7225386|gb|AAF40625.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis MC58] gi|120865748|emb|CAM09477.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis FAM18] gi|121051150|emb|CAM07421.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis Z2491] gi|161596590|gb|ABX74250.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis 053442] gi|254669330|emb|CBA08369.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis alpha14] gi|254670763|emb|CBA07039.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis alpha153] gi|254672693|emb|CBA06591.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis alpha275] gi|261391704|emb|CAX49153.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit; transcriptase alpha chain; RNA polymerase alpha subunit) [Neisseria meningitidis 8013] gi|304337102|gb|EFM03289.1| DNA-directed RNA polymerase subunit alpha [Neisseria meningitidis ATCC 13091] gi|308388384|gb|ADO30704.1| DNA-directed RNA polymerase alpha chain [Neisseria meningitidis alpha710] gi|316985690|gb|EFV64636.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis H44/76] gi|319411348|emb|CBY91759.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit; transcriptase alpha chain; RNA polymerase alpha subunit) [Neisseria meningitidis WUE 2594] gi|325129087|gb|EGC51936.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis N1568] gi|325131058|gb|EGC53782.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis OX99.30304] gi|325133080|gb|EGC55752.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M6190] gi|325135174|gb|EGC57800.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M13399] gi|325137226|gb|EGC59821.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M0579] gi|325139058|gb|EGC61604.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis ES14902] gi|325141181|gb|EGC63681.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis CU385] gi|325143258|gb|EGC65597.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis 961-5945] gi|325145365|gb|EGC67642.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M01-240013] gi|325197455|gb|ADY92911.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis G2136] gi|325199381|gb|ADY94836.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis H44/76] gi|325202997|gb|ADY98451.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M01-240149] gi|325203288|gb|ADY98741.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M01-240355] gi|325205261|gb|ADZ00714.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis M04-240196] gi|325207205|gb|ADZ02657.1| DNA-directed RNA polymerase, alpha subunit [Neisseria meningitidis NZ-05/33] Length = 328 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 157/333 (47%), Positives = 216/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVNTF---SATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ G+ ED+ DI+LNIKGI K+ G S ++ + K G GVV+AGDI+ Sbjct: 58 EVAIAGVLHEYSTVDGIQEDVVDILLNIKGIVFKLHGRSQVQLVLKKSGSGVVSAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E+LNP HVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEILNPGHVICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|260770938|ref|ZP_05879867.1| DNA-directed RNA polymerase alpha subunit [Vibrio furnissii CIP 102972] gi|260614175|gb|EEX39365.1| DNA-directed RNA polymerase alpha subunit [Vibrio furnissii CIP 102972] gi|315178983|gb|ADT85897.1| DNA-directed RNA polymerase subunit alpha - rpoA [Vibrio furnissii NCTC 11218] Length = 330 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 FSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|300690186|ref|YP_003751181.1| RNA polymerase, alpha subunit; RNA polymerase alpha chain family [Ralstonia solanacearum PSI07] gi|299077246|emb|CBJ49872.1| RNA polymerase, alpha subunit; RNA polymerase alpha chain family [Ralstonia solanacearum PSI07] Length = 326 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 145/326 (44%), Positives = 211/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP I + ++ ++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 LLKPK---IIAVEPLGDHHAKVVMEPFERGYGHTLGNALRRVLLSSMVGYASTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S+I GV ED+ +++LN+KG+ K+ V++ K G GVVTA DI+ +D+E++ Sbjct: 62 VHEYSTIDGVQEDVVNLLLNLKGVVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP HVI +L + M++ V +G GYVP + ++ + I +DA ++P+++VSY Sbjct: 122 NPGHVIASLSAGGKLDMQIKVEQGRGYVPGNVRKFGDESSKVIGRIVLDASFAPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL M I+T+G I+ E+++ ++RIL DQL +F E + E Sbjct: 182 AVESARVEQRTDLDKLVMNIETNGVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N GRKSL E Sbjct: 241 AARAPQIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP +E+ Sbjct: 301 IKEVLASRGLTLGMKLENWPPAGLEK 326 >gi|312884678|ref|ZP_07744379.1| DNA-directed RNA polymerase subunit alpha [Vibrio caribbenthicus ATCC BAA-2122] gi|309367591|gb|EFP95142.1| DNA-directed RNA polymerase subunit alpha [Vibrio caribbenthicus ATCC BAA-2122] Length = 330 Score = 360 bits (923), Expect = 2e-97, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +++LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|59802135|ref|YP_208847.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae FA 1090] gi|194099939|ref|YP_002003077.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae NCCP11945] gi|239997951|ref|ZP_04717875.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae 35/02] gi|240015071|ref|ZP_04721984.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae DGI18] gi|240017520|ref|ZP_04724060.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae FA6140] gi|240081663|ref|ZP_04726206.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae FA19] gi|240113941|ref|ZP_04728431.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae MS11] gi|240116675|ref|ZP_04730737.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID18] gi|240118897|ref|ZP_04732959.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID1] gi|240122143|ref|ZP_04735105.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID24-1] gi|240124435|ref|ZP_04737391.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID332] gi|240124696|ref|ZP_04737582.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-92-679] gi|240129111|ref|ZP_04741772.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-93-1035] gi|254494696|ref|ZP_05107867.1| DNA-directed RNA polymerase subunit alpha chain [Neisseria gonorrhoeae 1291] gi|260439566|ref|ZP_05793382.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae DGI2] gi|268593801|ref|ZP_06127968.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae 35/02] gi|268597760|ref|ZP_06131927.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae FA19] gi|268600005|ref|ZP_06134172.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae MS11] gi|268602342|ref|ZP_06136509.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID18] gi|268604606|ref|ZP_06138773.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID1] gi|268683063|ref|ZP_06149925.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID332] gi|268683270|ref|ZP_06150132.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-92-679] gi|268687493|ref|ZP_06154355.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-93-1035] gi|291042802|ref|ZP_06568543.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae DGI2] gi|293398177|ref|ZP_06642382.1| DNA-directed RNA polymerase, alpha subunit [Neisseria gonorrhoeae F62] gi|75432361|sp|Q5F5V2|RPOA_NEIG1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|59719030|gb|AAW90435.1| putative DNA-directed RNA polymerase alpha chain [Neisseria gonorrhoeae FA 1090] gi|193935229|gb|ACF31053.1| DNA-directed RNA polymerase alpha subunit [Neisseria gonorrhoeae NCCP11945] gi|226513736|gb|EEH63081.1| DNA-directed RNA polymerase subunit alpha chain [Neisseria gonorrhoeae 1291] gi|268547190|gb|EEZ42608.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae 35/02] gi|268551548|gb|EEZ46567.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae FA19] gi|268584136|gb|EEZ48812.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae MS11] gi|268586473|gb|EEZ51149.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID18] gi|268588737|gb|EEZ53413.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID1] gi|268623347|gb|EEZ55747.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae PID332] gi|268623554|gb|EEZ55954.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-92-679] gi|268627777|gb|EEZ60177.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae SK-93-1035] gi|291013236|gb|EFE05202.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae DGI2] gi|291611440|gb|EFF40510.1| DNA-directed RNA polymerase, alpha subunit [Neisseria gonorrhoeae F62] gi|317165391|gb|ADV08932.1| DNA-directed RNA polymerase subunit alpha [Neisseria gonorrhoeae TCDC-NG08107] Length = 328 Score = 360 bits (923), Expect = 3e-97, Method: Composition-based stats. Identities = 159/333 (47%), Positives = 215/333 (64%), Gaps = 9/333 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVNTF---SATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I GVLHE S++ GV ED+ DI+LNIKGI K+ G S ++ + K G GVV+AGDI+ Sbjct: 58 EVAIAGVLHEYSTVGGVQEDVVDILLNIKGIVFKLHGRSQVQLVLKKSGSGVVSAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 +D+E+LNP HVIC+L + + ME+ V +G GY + R EN IG I +DA +S Sbjct: 118 PHDVEILNPGHVICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGAIQLDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F + + Sbjct: 178 PISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIFA---DLQ 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E++ KS P +P LL V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N Sbjct: 235 GTPVEEVEEKSPPIDPVLLHPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 GRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 327 >gi|71279611|ref|YP_267376.1| DNA-directed RNA polymerase subunit alpha [Colwellia psychrerythraea 34H] gi|90110833|sp|Q488Y8|RPOA_COLP3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71145351|gb|AAZ25824.1| DNA-directed RNA polymerase, alpha subunit [Colwellia psychrerythraea 34H] Length = 329 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 146/331 (44%), Positives = 211/331 (63%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P + + R + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLV---GIETVSPRRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KG+ + + G + +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSSKEGVQEDIIEILLNLKGLAVILEGKNEAVLTVTKSGEGPVTAADIQH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYS 178 D+ + NPDHVIC L + + M + V G GYVPA R E+ IG + +DA +S Sbjct: 118 DGDVTIANPDHVICTLTGEGSISMRIKVEMGRGYVPASARRDAEEEDRAIGRLLVDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ +++Y V+SAR Q D DKL + ++T+G++ E+++ AS IL +QL F+ + K Sbjct: 178 PVVRIAYDVDSARVEQRTDLDKLVLDMETNGTLDPEEAIRRASTILAEQLDAFVELRDIK 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QR E ++L+ N Sbjct: 238 EVEQVEEKPLFDP---ILLRPVDDLELTVRSANCLKAEAIQYIGDLVQRAEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + GL LGM L +WPPESI Sbjct: 295 GKKSLTEIKDVLASRGLSLGMRLENWPPESI 325 >gi|320540586|ref|ZP_08040236.1| RNA polymerase, alpha subunit [Serratia symbiotica str. Tucson] gi|320029517|gb|EFW11546.1| RNA polymerase, alpha subunit [Serratia symbiotica str. Tucson] Length = 329 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 144/334 (43%), Positives = 218/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ HVIC+L D +A + M + V +G GYVPA H + PIG + +DA + Sbjct: 118 DGDVEIVKSQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLIIEMETNGAIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLCPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|325981830|ref|YP_004294232.1| DNA-directed RNA polymerase, alpha subunit [Nitrosomonas sp. AL212] gi|325531349|gb|ADZ26070.1| DNA-directed RNA polymerase, alpha subunit [Nitrosomonas sp. AL212] Length = 335 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 147/332 (44%), Positives = 219/332 (65%), Gaps = 9/332 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +L+ P I+ + ++ EP RG+ HTLGNALRR+L+SS+ G A T ++I Sbjct: 4 TDLLTPRIIDVQNI---SPLHAKVVMEPFERGYGHTLGNALRRILLSSMTGYAPTEIKIA 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S++ GV ED+ DI++NIKGI LK+ + +++ K G G+VTA DI+ +D+E Sbjct: 61 GVLHEYSALDGVQEDVVDILMNIKGIVLKLHNNDEVILSLKKSGKGIVTAADIELSHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKV 183 ++NP+HVI +L + + ++L V KG GY PA + E + IG I +DA +SPI++V Sbjct: 121 IINPEHVIAHLTSEGKIDVQLKVEKGRGYAPANIRKSGINEKNSIGTILLDASFSPIRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SY+VESAR Q D DKL + I+T+G++ E+++ A+R+L QL +F + E ++ Sbjct: 181 SYSVESARVEQRTDLDKLIVDIETNGAVEPEEAIRFAARVLVQQLSVFADLESTPLPKEK 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKSL Sbjct: 241 PQA---PQIDPILLRPVDDLELTVRSANCLKVENIYYIGDLIQRTEAELLRTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EIK VL + L LGM L +WPP +++ ++K+ Sbjct: 298 NEIKEVLASRELTLGMKLDNWPPANLDSVSKE 329 >gi|94500967|ref|ZP_01307492.1| DNA-directed RNA polymerase alpha subunit [Oceanobacter sp. RED65] gi|94426907|gb|EAT11890.1| DNA-directed RNA polymerase alpha subunit [Oceanobacter sp. RED65] Length = 333 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 145/338 (42%), Positives = 219/338 (64%), Gaps = 9/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q++ E + P +I+ + + + EPL RGF HTLG ALRR+L+SS+ GAAI Sbjct: 1 MQRSVNEFLTPRHIQVEQVSNTQ---AKVTLEPLERGFGHTLGAALRRILLSSMPGAAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+I+GV ED+ +I+LN+KG+ +++ +T+ K G G VTA DIQ Sbjct: 58 EVEIDGVLHEYSTIEGVQEDVIEILLNLKGVAVRLHERDEAFLTLHKTGAGQVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYS 178 + +E+ NP+HVI NL ++M + V+ G GY + E IG + +DA YS Sbjct: 118 DHGVEIANPEHVIANLSDKGELKMTIKVAAGRGYETVESRNQNEEETKAIGKLQLDATYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+K+V+Y VE+AR Q D DKL + ++T+G+I E+++ ++ ILQ QL +F+ + + Sbjct: 178 PVKRVAYGVENARVEQRTDLDKLVIDLETNGTIEPEEAIRRSATILQQQLAVFV---DLE 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E + + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N Sbjct: 235 NEAEPEPEEQEDEIDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G+KSL EIK VL + GL LGM+L +WPP S+++ K Sbjct: 295 GKKSLTEIKDVLASRGLSLGMHLENWPPASLKKDDKAL 332 >gi|260772121|ref|ZP_05881038.1| DNA-directed RNA polymerase alpha subunit [Vibrio metschnikovii CIP 69.14] gi|260612988|gb|EEX38190.1| DNA-directed RNA polymerase alpha subunit [Vibrio metschnikovii CIP 69.14] Length = 330 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 144/335 (42%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRLGENKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 FSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|149376659|ref|ZP_01894418.1| DNA-directed RNA polymerase subunit alpha [Marinobacter algicola DG893] gi|149359032|gb|EDM47497.1| DNA-directed RNA polymerase subunit alpha [Marinobacter algicola DG893] Length = 313 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 152/306 (49%), Positives = 213/306 (69%), Gaps = 6/306 (1%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 R + EPL RGF HTLG+ALRR+L+SS+ G AIT QIDGVLHE S+I+GV ED+ +I+ Sbjct: 2 RAKVTLEPLERGFGHTLGSALRRILLSSMPGCAITEAQIDGVLHEYSAIEGVQEDVIEIL 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+KG+ +KM G VT+ K+GPGVVTAGDI+ +D+E+ NP+HVIC+L + V M Sbjct: 62 LNLKGVAVKMGGRDDAEVTLSKKGPGVVTAGDIKLDHDVEITNPEHVICHLSANGEVNMR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 L V++G GY PA + D I +DA +SP+++V+Y VESAR Q D DKL + Sbjct: 122 LKVARGRGYEPADQRGLDEDETRAIGRLQLDATFSPVRRVAYAVESARVEQRTDLDKLVI 181 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T+G+I E+++ A+ ILQ QL +F++F+ K+ + + + P LL+ V++L Sbjct: 182 DLETNGTIDPEEAIRRAATILQQQLAVFVDFDHEKEPERVEEEEEIDP---ILLRPVDDL 238 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 EL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL + GL LGM L + Sbjct: 239 ELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLDN 298 Query: 324 WPPESI 329 WPP S+ Sbjct: 299 WPPASL 304 >gi|118616625|ref|YP_904957.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium ulcerans Agy99] gi|183981110|ref|YP_001849401.1| DNA-directed RNA polymerase (alpha chain), RpoA [Mycobacterium marinum M] gi|158512379|sp|A0PMB7|RPOA_MYCUA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118568735|gb|ABL03486.1| DNA-directed RNA polymerase (alpha chain), RpoA [Mycobacterium ulcerans Agy99] gi|183174436|gb|ACC39546.1| DNA-directed RNA polymerase (alpha chain), RpoA [Mycobacterium marinum M] Length = 347 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 194/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVL----TDSRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+K + + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKALVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ Sbjct: 121 PNMRIATLNDKGKLEVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKNSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +++L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFALPIDDLDLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + P + P + Sbjct: 301 LHQLGLSLKDSPPSFDPSEV 320 >gi|117619246|ref|YP_854867.1| DNA-directed RNA polymerase subunit alpha [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|145300910|ref|YP_001143751.1| DNA-directed RNA polymerase subunit alpha [Aeromonas salmonicida subsp. salmonicida A449] gi|158512292|sp|A0KF45|RPOA_AERHH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158514057|sp|A4SSY1|RPOA_AERS4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|117560653|gb|ABK37601.1| DNA-directed RNA polymerase, alpha subunit [Aeromonas hydrophila subsp. hydrophila ATCC 7966] gi|142853682|gb|ABO92003.1| DNA-directed RNA polymerase, alpha subunit [Aeromonas salmonicida subsp. salmonicida A449] Length = 329 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 147/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + + +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MLGSVTDFLKPRLVD---IEQVSPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE SS +GV ED+ +I+LN+KGI +K+ G +++ K G G VTAGDI Sbjct: 58 EVEIDGVLHEYSSKEGVQEDILEILLNLKGIAVKLEGKDEVTLSLTKSGTGPVTAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 +++E++NP+HVIC+L +A + M L V +G GYVPA H+ E PIG + +D+ + Sbjct: 118 GDEVEIVNPEHVICHLTGANAEISMRLKVQRGRGYVPASARVHNDDEERPIGRLLLDSAF 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI +++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + Sbjct: 178 SPIVRIAYNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 SVPEKKEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|227883427|ref|ZP_04001232.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972] gi|227839571|gb|EEJ50037.1| DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972] Length = 329 Score = 359 bits (922), Expect = 3e-97, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L + PP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENCPPASIAD 328 >gi|42812|emb|CAA37838.1| unnamed protein product [Escherichia coli] Length = 329 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 145/334 (43%), Positives = 219/334 (65%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRCILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 328 >gi|260779478|ref|ZP_05888368.1| DNA-directed RNA polymerase alpha subunit [Vibrio coralliilyticus ATCC BAA-450] gi|261250392|ref|ZP_05942967.1| DNA-directed RNA polymerase alpha subunit [Vibrio orientalis CIP 102891] gi|323492144|ref|ZP_08097306.1| DNA-directed RNA polymerase subunit alpha [Vibrio brasiliensis LMG 20546] gi|323495529|ref|ZP_08100603.1| DNA-directed RNA polymerase subunit alpha [Vibrio sinaloensis DSM 21326] gi|260604287|gb|EEX30591.1| DNA-directed RNA polymerase alpha subunit [Vibrio coralliilyticus ATCC BAA-450] gi|260938961|gb|EEX94948.1| DNA-directed RNA polymerase alpha subunit [Vibrio orientalis CIP 102891] gi|323313705|gb|EGA66807.1| DNA-directed RNA polymerase subunit alpha [Vibrio brasiliensis LMG 20546] gi|323319410|gb|EGA72347.1| DNA-directed RNA polymerase subunit alpha [Vibrio sinaloensis DSM 21326] Length = 330 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 147/335 (43%), Positives = 219/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|325267151|ref|ZP_08133819.1| DNA-directed RNA polymerase subunit alpha [Kingella denitrificans ATCC 33394] gi|324981389|gb|EGC17033.1| DNA-directed RNA polymerase subunit alpha [Kingella denitrificans ATCC 33394] Length = 327 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 214/332 (64%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTSEFLKPRQIDVDTL---SATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQ 120 + I GVLHE S++ GV ED+ DI+LN+K + K+ G+ + V ++ K G G V A D + Sbjct: 58 EITIAGVLHEYSTLDGVQEDVVDILLNVKSVVFKLHGNRTEAVLSLKKTGAGPVYASDFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-AKHHRTENDPIGLITIDALYSP 179 +D+E++NP VIC+L + + ME+ V +G GY + T+++ IG I +DA +SP Sbjct: 118 LPHDVEIINPKQVICHLSDNGSIDMEVKVEQGRGYQTVSGRRVTKDNKIGAIQLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I +VS+ VE+AR Q D D L + I+T+GSI E++V +A+RIL DQ+ +F + E Sbjct: 178 ITRVSFDVEAARVEQRTDLDSLILDIETNGSIDPEEAVRMAARILIDQMSIFADLEGTPA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV+E+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEEKA---PPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSRLESWPPAGLEK 326 >gi|78044042|ref|YP_361090.1| DNA-directed RNA polymerase subunit alpha [Carboxydothermus hydrogenoformans Z-2901] gi|90110830|sp|Q3A9U4|RPOA_CARHZ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|77996157|gb|ABB15056.1| DNA-directed RNA polymerase, alpha subunit [Carboxydothermus hydrogenoformans Z-2901] Length = 313 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 207/310 (66%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I + + + EPL RG+ TLGN++RR+L+SSL GAA+T+++I+G Sbjct: 3 EIEKPK----IETEELNDRYGRFVIEPLERGYGITLGNSMRRILLSSLPGAAVTSIKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILNIK + LK+ GD + + I G GV+TA DI ++E+ Sbjct: 59 VLHEFSTVPGVVEDVTEIILNIKNLTLKLHGDEEQVLRIEAEGEGVITAKDIIAPPEVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD VI ++ + ME+TV++G GYVPA+ ++ IG+I +D+++SP+ KV++ V Sbjct: 119 LNPDLVIAHIAEGGRLFMEMTVARGRGYVPAERNKKGEHVIGVIPVDSIFSPVLKVNFQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGSI +++V+LA+RI+ + L +F+N E V+ + Sbjct: 179 ENTRVGQITDYDKLTLEVWTDGSIRPDEAVSLAARIMVEHLQLFVNLNERATGVEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + +E+L+LSVRS NCL+ I +G+LIQ+TEADM+++ N G+KSL E+ Sbjct: 239 EEDAKEKLAEMPIEDLDLSVRSYNCLKRAGINTVGELIQKTEADMMKVRNLGKKSLEEVI 298 Query: 308 GVLGTMGLFL 317 L +MGL L Sbjct: 299 SKLNSMGLSL 308 >gi|296141062|ref|YP_003648305.1| DNA-directed RNA polymerase subunit alpha [Tsukamurella paurometabola DSM 20162] gi|296029196|gb|ADG79966.1| DNA-directed RNA polymerase, alpha subunit [Tsukamurella paurometabola DSM 20162] Length = 352 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 194/321 (60%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVI----SDARSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEDDEPVTMYVRKQGPGAVTAGDIVPPASVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+T D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLILDVETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIAAFSLPIEDLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +GL L + + P ++ Sbjct: 301 LHALGLALKDSPASFDPSQVD 321 >gi|258406159|ref|YP_003198901.1| DNA-directed RNA polymerase subunit alpha [Desulfohalobium retbaense DSM 5692] gi|257798386|gb|ACV69323.1| DNA-directed RNA polymerase, alpha subunit [Desulfohalobium retbaense DSM 5692] Length = 347 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 151/336 (44%), Positives = 214/336 (63%), Gaps = 2/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+ P +E EN EPL RGF TLGNALRRVL+SSL+GAAI AV Sbjct: 13 RNWSTLVHPETLE--RDEDSTENYGKFSCEPLERGFGTTLGNALRRVLLSSLQGAAIVAV 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I G+ HE ++I GV ED+TDI+LN+K + L+M+ D +R+ + G VTA QT Sbjct: 71 RIKGIQHEFTTIPGVMEDITDIVLNLKQLRLRMNTDEPQRIELNVNTKGAVTASAFQTTQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++E+LNPD I L D +E V G GYVPA+ H + IGLI++DA +SPI+KV Sbjct: 131 NLEILNPDLHIATLSEDIEFGIEAEVRMGKGYVPAEMHEGLEEEIGLISMDASFSPIRKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE AR GQ+ +YDKL M + TDGS+ ED+VA +++IL++QL +FINF E V E Sbjct: 191 AYRVEQARVGQMTNYDKLVMEVWTDGSVLPEDAVAYSAKILKEQLAVFINFNEDSANVCE 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K +++LEL VR++NCL+ NI +G+L+Q+TE +ML+ NFGRKSL Sbjct: 251 SKGAGTESLNSNLFKHIDDLELPVRASNCLKSANINLVGELVQKTEGEMLKTKNFGRKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +I+ V+ +GL GM L + + + + +D+ Sbjct: 311 EDIRKVIHELGLDFGMKLDGFEEQYKKWRERNQQDE 346 >gi|30248443|ref|NP_840513.1| DNA-directed RNA polymerase subunit alpha [Nitrosomonas europaea ATCC 19718] gi|41688666|sp|Q82X69|RPOA_NITEU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|30138329|emb|CAD84337.1| Bacterial RNA polymerase, alpha chain [Nitrosomonas europaea ATCC 19718] Length = 336 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 208/333 (62%), Gaps = 10/333 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P +E + ++ EP GF +TLGNALRRVL+SS+ G A T V I Sbjct: 4 NSFLTPRIVEVHNI---SPLHAKVVMEPFEHGFGYTLGNALRRVLLSSIPGCAPTKVSIS 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDIQTVNDI 125 GV+HE S+I G+ ED+ D+ILN+KG+ LK+ + + V T+ K G+VTAGDI+ +D+ Sbjct: 61 GVVHEYSTIDGLQEDVVDLILNLKGVVLKLHNNKTQSVLTLKKSSEGIVTAGDIEATHDV 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKK 182 E++NPDHVI ++ + ++TV KG GY P+ + E+ I +DA +SPI++ Sbjct: 121 EIVNPDHVIAHITSGGKIEAQITVEKGRGYWPSANRSKEDKSSSSIGDILLDASFSPIRR 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 VSY VESAR Q D DKL + I+T+GS+ E+++ A+++L +Q F + E + Sbjct: 181 VSYAVESARVEQRTDLDKLIIDIETNGSVDPEEAIRYAAKVLVEQFSFFADLESTPLPTE 240 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKS Sbjct: 241 QPKAPVIDP---ILLRPVDDLELTVRSANCLKVENIFYIGDLIQRTEAELLRTPNLGRKS 297 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 L EIK VL + L LGM L +WPP ++E K+ Sbjct: 298 LNEIKEVLASRDLSLGMKLENWPPANLENYIKE 330 >gi|312140889|ref|YP_004008225.1| DNA-directed RNA polymerase alpha subunit rpoa [Rhodococcus equi 103S] gi|325675473|ref|ZP_08155157.1| DNA-directed RNA polymerase subunit alpha [Rhodococcus equi ATCC 33707] gi|311890228|emb|CBH49546.1| DNA-directed RNA polymerase alpha subunit RpoA [Rhodococcus equi 103S] gi|325553444|gb|EGD23122.1| DNA-directed RNA polymerase subunit alpha [Rhodococcus equi ATCC 33707] Length = 354 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 124/320 (38%), Positives = 196/320 (61%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVIAE----NRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPGVVTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGVVTAGDIVPPAGVTVNN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLILDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L ++GL L + + P ++ Sbjct: 301 LHSLGLALKDSPASFDPTTV 320 >gi|56961959|ref|YP_173681.1| DNA-directed RNA polymerase subunit alpha [Bacillus clausii KSM-K16] gi|61215810|sp|Q5WLN5|RPOA_BACSK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56908193|dbj|BAD62720.1| DNA-directed RNA polymerase alpha subunit [Bacillus clausii KSM-K16] Length = 314 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDG Sbjct: 3 EIEKPN-IETVEV-SEDAKYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K + LK+ D K + I +G G VTAGD+ +D+EV Sbjct: 61 VLHEFSTIEGVVEDVTTIILNLKKLALKIYSDEEKTLEIDVQGEGNVTAGDLTHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A RM L +G GYV A+ ++ ++ PIG++ ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLTKGASFRMRLQAKRGRGYVLAEGNKNDDQPIGVLPIDSIYTPVARVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGS E++V+L +IL + L +F+ + + + + Sbjct: 181 ENTRVGQVTNYDKLTLDVWTDGSTRPEEAVSLGVKILTEHLNIFVGLTDQAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTHKTEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 LG +GL L Sbjct: 301 EKLGELGLGL 310 >gi|262203540|ref|YP_003274748.1| DNA-directed RNA polymerase subunit alpha [Gordonia bronchialis DSM 43247] gi|262086887|gb|ACY22855.1| DNA-directed RNA polymerase, alpha subunit [Gordonia bronchialis DSM 43247] Length = 350 Score = 359 bits (921), Expect = 4e-97, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 192/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E I+ +NR+ + EPL GF +TLGN+LRR L+SS+ GAAIT+++IDGVL Sbjct: 5 QRPTLTEEIL----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAITSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VT DI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGTVTGADIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLVLDVETKNSISARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFSLPIEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L + + P + Sbjct: 301 LHALGLSLKDSPASFDPSQV 320 >gi|224283735|ref|ZP_03647057.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium bifidum NCIMB 41171] gi|310287998|ref|YP_003939257.1| rpoA DNA-directed RNA polymerase alpha chain [Bifidobacterium bifidum S17] gi|311064871|ref|YP_003971597.1| DNA-directed RNA polymerase subunit alpha RpoA [Bifidobacterium bifidum PRL2010] gi|313140891|ref|ZP_07803084.1| DNA-directed RNA polymerase [Bifidobacterium bifidum NCIMB 41171] gi|309251935|gb|ADO53683.1| rpoA DNA-directed RNA polymerase alpha chain [Bifidobacterium bifidum S17] gi|310867191|gb|ADP36560.1| RpoA DNA-directed RNA polymerase alpha chain [Bifidobacterium bifidum PRL2010] gi|313133401|gb|EFR51018.1| DNA-directed RNA polymerase [Bifidobacterium bifidum NCIMB 41171] Length = 331 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 126/321 (39%), Positives = 187/321 (58%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESINPQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G VTAGDI + + N Sbjct: 61 HEFTTLPGVVEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGNGEVTAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDQHIATLADDGELEIEFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNVQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMAVPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKDK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +MGL L + + ++E Sbjct: 301 LQSMGLSLKSSPLGFDTNNLE 321 >gi|29653615|ref|NP_819307.1| DNA-directed RNA polymerase subunit alpha [Coxiella burnetii RSA 493] gi|154706094|ref|YP_001425157.1| DNA-directed RNA polymerase subunit alpha [Coxiella burnetii Dugway 5J108-111] gi|161349357|ref|ZP_02096741.1| DNA-directed RNA polymerase, alpha subunit [Coxiella burnetii 'MSU Goat Q177'] gi|161830881|ref|YP_001596210.1| DNA-directed RNA polymerase subunit alpha [Coxiella burnetii RSA 331] gi|212213225|ref|YP_002304161.1| DNA-directed RNA polymerase subunit alpha [Coxiella burnetii CbuG_Q212] gi|212218099|ref|YP_002304886.1| DNA-directed RNA polymerase subunit alpha [Coxiella burnetii CbuK_Q154] gi|41688670|sp|Q83EQ2|RPOA_COXBU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189043837|sp|A9KD06|RPOA_COXBN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189043838|sp|A9NAZ5|RPOA_COXBR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238057755|sp|B6J5F7|RPOA_COXB1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238057756|sp|B6J238|RPOA_COXB2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|29540877|gb|AAO89821.1| DNA-directed RNA polymerase alpha chain [Coxiella burnetii RSA 493] gi|154355380|gb|ABS76842.1| DNA-directed RNA polymerase alpha chain [Coxiella burnetii Dugway 5J108-111] gi|161762748|gb|ABX78390.1| DNA-directed RNA polymerase, alpha subunit [Coxiella burnetii RSA 331] gi|164601573|gb|EDQ95164.1| DNA-directed RNA polymerase, alpha subunit [Coxiella burnetii 'MSU Goat Q177'] gi|212011635|gb|ACJ19016.1| DNA-directed RNA polymerase alpha chain [Coxiella burnetii CbuG_Q212] gi|212012361|gb|ACJ19741.1| DNA-directed RNA polymerase alpha chain [Coxiella burnetii CbuK_Q154] Length = 327 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 147/332 (44%), Positives = 218/332 (65%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + P NI+ + ++ EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQNVLKSFLTPKNIQVQTI---SPCHFRILLEPLERGFGHTLGNALRRILLSSMPGAAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGVLHE SSI+GV ED+ D++LN+KG+ +K+ G ++T+ K+G G VTAGDIQT Sbjct: 58 QAEIDGVLHEYSSIEGVREDVVDVLLNLKGVAIKLEGREDAKLTLHKKGAGTVTAGDIQT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--ITIDALYSP 179 + ++++NPDHVI ++ D + M L + G GY P+ T + + + +DA YSP Sbjct: 118 ESGVKIVNPDHVIAHITKDGEINMTLKAAMGRGYEPSSARSTGDQSRSVGLLLLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I++V+Y+VE+AR + D DKL + ++TDG++ E+++ A+ +LQ QL F+ + K+ Sbjct: 178 IRRVTYSVENARVEKRTDLDKLIIDLETDGTLDPEEAIRFAAAVLQHQLAAFV---DLKQ 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E D K NP LL+ VE+LEL+VR+ NCL+ E+I Y+GDL+Q TE D+L+ N G Sbjct: 235 ESDRDGGGKEGKVNPLLLRPVEDLELTVRAANCLKAESINYIGDLVQCTENDLLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL+EIK VL GL LGM+L WPP + + Sbjct: 295 KKSLLEIKSVLAQKGLSLGMDLKGWPPADLTD 326 >gi|255659529|ref|ZP_05404938.1| DNA-directed RNA polymerase, alpha subunit [Mitsuokella multacida DSM 20544] gi|260848082|gb|EEX68089.1| DNA-directed RNA polymerase, alpha subunit [Mitsuokella multacida DSM 20544] Length = 319 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 138/317 (43%), Positives = 205/317 (64%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++ KP IE + E+ I EPL RG+ T GN+LRR+L+SSL GAAIT+++IDG Sbjct: 3 DIEKP-KIEIAEI-SEDNRYGKFICEPLERGYGTTFGNSLRRMLLSSLEGAAITSIRIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV +D+T+I+LN+K + LKM+G+ + + I G VTA DI DIE+ Sbjct: 61 VLHEFSTIPGVRDDVTNIVLNLKELCLKMAGNEPRIIRIDVEGEKEVTAADIICDADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I ++ D +++E+TV +G GYVPA ++ +D IG+I ID+++SP+K+V+YTV Sbjct: 121 LNPDLHIATVNEDGKLKIEMTVERGRGYVPADKNKKPDDTIGVIPIDSIFSPVKRVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 + R G V DYD+L + + TDGS+ E++V+ A+ IL L +F N + E ++E Sbjct: 181 QDTRVGNVTDYDRLILEVWTDGSLRPEEAVSKAAGILVMHLKLFQNMDGLPEEEEEEEAT 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +E+L+LSVRS NCL+ NI + DL ++TE DM+++ N GRKSL Sbjct: 241 FPEEEEDDSSKVLDMTIEDLDLSVRSFNCLKRANINTVADLAEKTEDDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLGMN 320 E+K L +GL L N Sbjct: 301 EEVKKKLEELGLTLKQN 317 >gi|256005300|ref|ZP_05430266.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum DSM 2360] gi|281419375|ref|ZP_06250390.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum JW20] gi|255990736|gb|EEU00852.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum DSM 2360] gi|281406995|gb|EFB37258.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum JW20] gi|316939529|gb|ADU73563.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum DSM 1313] Length = 315 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 137/311 (44%), Positives = 203/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIECV-VCSEDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IILNIK ++L G+ K + I G G V A DI+ D+E+ Sbjct: 61 VLHEFSTIPGVIEDVTEIILNIKELSLNFHGEGPKVIYIDAEGEGEVKAKDIKADADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+H I L D + ME+T+ KG GYV A+ ++ PIG+I +D++++P+ KV+YTV Sbjct: 121 LNPEHKIATLSGDHRLYMEMTIDKGRGYVSAEKNKHPGQPIGVIPVDSIFTPVHKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + T+GSI +++++L ++IL + L +FI+ + K + + Sbjct: 181 ENTRVGQVTDYDKLTLEVWTNGSIKPDEAISLGAKILSEHLNLFIDLSDNAKNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DLI RTE DM+++ N GRKSL E+ Sbjct: 241 EETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLISRTEEDMMKVRNLGRKSLEEVV 300 Query: 308 GVLGTMGLFLG 318 L +GL L Sbjct: 301 NKLKALGLSLA 311 >gi|297569395|ref|YP_003690739.1| DNA-directed RNA polymerase, alpha subunit [Desulfurivibrio alkaliphilus AHT2] gi|296925310|gb|ADH86120.1| DNA-directed RNA polymerase, alpha subunit [Desulfurivibrio alkaliphilus AHT2] Length = 341 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 154/324 (47%), Positives = 216/324 (66%), Gaps = 3/324 (0%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW +LI P +E + I +PL RGFA T+GN+LRR+L+SS+RGAAIT+ Sbjct: 9 YRNWHDLIFPEKLEVDQ-DTHTASFGKFICQPLERGFATTIGNSLRRILLSSIRGAAITS 67 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+I+GVLHE+S+I G+ ED T+IILN+K + L++ K V I K+ GVVTAGDI Sbjct: 68 VKIEGVLHELSTIPGIKEDATEIILNLKEVRLRLHSGEAKTVRIEKKKKGVVTAGDIIGD 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +EV+NP+ IC + D EL V G GYVPA+ ++ E+ PIG+I +D++++PI+ Sbjct: 128 PQVEVMNPEQHICTITGDGKFDAELEVDWGKGYVPAERNKREDQPIGVIPLDSVFTPIRN 187 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV- 241 V AR GQ DYDKL++ I TDGSI ED++A A++IL++Q+ +FINF+E Sbjct: 188 VRVITSQARVGQQTDYDKLTLEITTDGSILPEDALAYAAKILKEQMQVFINFDESAVVPV 247 Query: 242 -KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 KE + + N L + VE+LELSVRS NCLR I ++G+L+Q+TEA+ML+ NFGR Sbjct: 248 KKEKESGEQPQLNENLYRSVEDLELSVRSANCLRNAEIRHIGELVQKTEAEMLKTKNFGR 307 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL EIK +L M L+LGM + W Sbjct: 308 KSLNEIKQLLSEMDLYLGMKIDGW 331 >gi|331004894|ref|ZP_08328310.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC1989] gi|330421281|gb|EGG95531.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC1989] Length = 331 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 144/333 (43%), Positives = 219/333 (65%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q E + P +I+ + ++ EPL RGF HTLGNALRR+L+SS+ G AI Sbjct: 1 MQSAVNEFLTPRHIDVT---EHSPTHAKVVLEPLERGFGHTLGNALRRILLSSMPGCAII 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDI 119 +I+GV HE S+++GV ED+ +I+LN+KG+ + M SH +++ K+GPGVVTA DI Sbjct: 58 EAEIEGVEHEYSALEGVQEDIIEILLNLKGVAVVMHDQEKSHAMLSLKKKGPGVVTAADI 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDAL 176 +++E+ NPDHVI + D + M L++++G GY PA R+++D I +DA Sbjct: 118 VVDHEVEIKNPDHVIATITGDVELNMSLSIARGRGYQPADARRSDDDETRAIGRLQLDAS 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP+K+++Y+VESAR Q D DKL + ++T+G+I E+++ ++ ILQ QL +F+ + Sbjct: 178 FSPVKRLAYSVESARVEQRTDLDKLVLDLETNGTIDPEEAIRRSATILQQQLAVFV---D 234 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + E + K +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ Sbjct: 235 LESEKSSEPEEKEEDVDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG+ L +WPP S+ Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGLRLENWPPASL 327 >gi|323703520|ref|ZP_08115166.1| DNA-directed RNA polymerase, alpha subunit [Desulfotomaculum nigrificans DSM 574] gi|323531511|gb|EGB21404.1| DNA-directed RNA polymerase, alpha subunit [Desulfotomaculum nigrificans DSM 574] Length = 315 Score = 358 bits (920), Expect = 5e-97, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKP-KIEIVE-QSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+TDIILN+K + LK+ D K + I G VTAGDI D+E+ Sbjct: 61 VLHEFSTVPGVREDVTDIILNLKNLCLKIHSDEEKVLRIEADTEGPVTAGDIIHDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD + LD + ME+T +KG GYV A+ ++ IG+I +D++Y+P++KV+Y V Sbjct: 121 LNPDLHLATLDAGGRLYMEITANKGRGYVSAEKNKKGEHIIGVIPVDSIYTPVRKVNYNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + T+GSI +++ +L+++IL + L +FI E +V+ + Sbjct: 181 ENTRVGQITDYDKLTLEVWTNGSIRPDEATSLSAKILSEHLRLFIGLTETVNDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + + +EEL+LSVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ Sbjct: 241 EEEQKDKIMEMTIEELDLSVRSYNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVM 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLAELGLSL 310 >gi|323706479|ref|ZP_08118040.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacterium xylanolyticum LX-11] gi|323534199|gb|EGB23989.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacterium xylanolyticum LX-11] Length = 316 Score = 358 bits (920), Expect = 6e-97, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 207/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++IDG Sbjct: 4 EIEKP-KIEIVE-QSNDDTYAKFVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+K + +K+ D K V I G G VTAGDI + D+E+ Sbjct: 62 VLHEFSTVPGVKEDVTEIILNLKELAVKLYTDEPKIVRIEAEGKGEVTAGDIISDGDVEI 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L + + ME+ + KG GYVP+ ++ N PIG+I +D++++P+KKVSY+V Sbjct: 122 MNPDLHIATLSDNGKLNMEIELVKGKGYVPSDKNKEPNQPIGIIPVDSIFTPVKKVSYSV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M + T+G+I+ +++++LA++IL D +F +F + +++ + Sbjct: 182 ENTRVGQVTDYDKLTMEVWTNGTISPKEAISLAAKILIDHFNLFTSFADNYNDMEVLVEK 241 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DL+Q+TE +M+++ N G+KSLVE++ Sbjct: 242 SEKKTDKPLDMTIEELDLSVRSYNCLKRAGINTVQDLVQKTEEEMMKVRNLGKKSLVEVE 301 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 302 QKLKALGLSL 311 >gi|226305370|ref|YP_002765328.1| DNA-directed RNA polymerase alpha chain [Rhodococcus erythropolis PR4] gi|229489661|ref|ZP_04383524.1| DNA-directed RNA polymerase, alpha subunit [Rhodococcus erythropolis SK121] gi|226184485|dbj|BAH32589.1| DNA-directed RNA polymerase alpha chain [Rhodococcus erythropolis PR4] gi|229323758|gb|EEN89516.1| DNA-directed RNA polymerase, alpha subunit [Rhodococcus erythropolis SK121] Length = 353 Score = 358 bits (920), Expect = 6e-97, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 196/320 (61%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVI----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVNSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLVLDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L ++GL L + + P ++ Sbjct: 301 LHSLGLSLKDSPASFDPTTV 320 >gi|52078637|ref|YP_077428.1| DNA-directed RNA polymerase subunit alpha [Bacillus licheniformis ATCC 14580] gi|52783999|ref|YP_089828.1| DNA-directed RNA polymerase subunit alpha [Bacillus licheniformis ATCC 14580] gi|319649088|ref|ZP_08003296.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. BT1B_CT2] gi|81667225|sp|Q65P79|RPOA_BACLD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52001848|gb|AAU21790.1| RNA polymerase (alpha subunit) [Bacillus licheniformis ATCC 14580] gi|52346501|gb|AAU39135.1| RpoA [Bacillus licheniformis ATCC 14580] gi|317388788|gb|EFV69607.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. BT1B_CT2] Length = 314 Score = 358 bits (920), Expect = 6e-97, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILNIK + LK+ + K + I +G GVVTA DI +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTTIILNIKKLALKIYSEEEKTLEIDVQGEGVVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A R+ LT +G GY PA ++ ++ PIG+I ID++++P+ +VSY V Sbjct: 121 LNPDLHIATLGQNASFRVRLTAQRGRGYTPADANKRDDQPIGVIPIDSIFTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + TDGS ++++AL S+IL + L +F+ + + + + Sbjct: 181 ENTRVGQITNYDKLTLDVWTDGSTGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|27364190|ref|NP_759718.1| DNA-directed RNA polymerase subunit alpha [Vibrio vulnificus CMCP6] gi|37678583|ref|NP_933192.1| DNA-directed RNA polymerase subunit alpha [Vibrio vulnificus YJ016] gi|320157576|ref|YP_004189955.1| DNA-directed RNA polymerase subunit alpha [Vibrio vulnificus MO6-24/O] gi|29611853|sp|Q8DE63|RPOA_VIBVU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41688623|sp|Q7MPG4|RPOA_VIBVY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|27360308|gb|AAO09245.1| DNA-directed RNA polymerase, alpha subunit [Vibrio vulnificus CMCP6] gi|37197323|dbj|BAC93163.1| DNA-directed RNA polymerase, alpha subunit [Vibrio vulnificus YJ016] gi|319932888|gb|ADV87752.1| DNA-directed RNA polymerase alpha subunit [Vibrio vulnificus MO6-24/O] Length = 330 Score = 358 bits (919), Expect = 6e-97, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|50955540|ref|YP_062828.1| DNA-directed RNA polymerase subunit alpha [Leifsonia xyli subsp. xyli str. CTCB07] gi|50952022|gb|AAT89723.1| DNA-directed RNA polymerase, alpha subunit [Leifsonia xyli subsp. xyli str. CTCB07] Length = 359 Score = 358 bits (919), Expect = 6e-97, Method: Composition-based stats. Identities = 122/316 (38%), Positives = 187/316 (59%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 32 QRPTLTE----ENISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 87 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIKG+ + D + K G G VTA DI +E+ N Sbjct: 88 HEFSTVPGVKEDVTEIILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHN 147 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ A +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ Sbjct: 148 PELVIATLNDKAKFEVELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEA 207 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T +I+ D++A A R L + G+ + ++ Sbjct: 208 TRAGERTDFDRLVVDVETKPAISPRDAIASAGRTLVELFGLARELNSAAEGIEIGPAPVD 267 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K Sbjct: 268 QVLSSELSMPIEDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDK 327 Query: 310 LGTMGLFLGMNLPDWP 325 L MGL L ++P + Sbjct: 328 LTEMGLSLKDSVPGFD 343 >gi|28897056|ref|NP_796661.1| DNA-directed RNA polymerase subunit alpha [Vibrio parahaemolyticus RIMD 2210633] gi|153840230|ref|ZP_01992897.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AQ3810] gi|260877974|ref|ZP_05890329.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AN-5034] gi|262392491|ref|YP_003284345.1| DNA-directed RNA polymerase subunit alpha [Vibrio sp. Ex25] gi|269959713|ref|ZP_06174093.1| DNA-directed RNA polymerase alpha subunit [Vibrio harveyi 1DA3] gi|269964712|ref|ZP_06178950.1| DNA-directed RNA polymerase alpha subunit [Vibrio alginolyticus 40B] gi|31076905|sp|Q87SZ0|RPOA_VIBPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|28805264|dbj|BAC58545.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus RIMD 2210633] gi|149746107|gb|EDM57237.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AQ3810] gi|262336085|gb|ACY49880.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. Ex25] gi|269830611|gb|EEZ84832.1| DNA-directed RNA polymerase alpha subunit [Vibrio alginolyticus 40B] gi|269835636|gb|EEZ89715.1| DNA-directed RNA polymerase alpha subunit [Vibrio harveyi 1DA3] gi|308089902|gb|EFO39597.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AN-5034] gi|328471859|gb|EGF42736.1| DNA-directed RNA polymerase subunit alpha [Vibrio parahaemolyticus 10329] Length = 330 Score = 358 bits (919), Expect = 7e-97, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 218/335 (65%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|111220574|ref|YP_711368.1| DNA-directed RNA polymerase subunit alpha [Frankia alni ACN14a] gi|122954575|sp|Q0RRP3|RPOA_FRAAA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|111148106|emb|CAJ59774.1| RNA polymerase, alpha subunit [Frankia alni ACN14a] Length = 349 Score = 358 bits (919), Expect = 7e-97, Method: Composition-based stats. Identities = 124/319 (38%), Positives = 190/319 (59%), Gaps = 4/319 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P +E E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLVE----DPISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TD+ILN+K + + D + + K+GPG VTA DI +EV + Sbjct: 61 HEFSTVPGVKEDVTDLILNLKELVVSSDNDEPTVMYLRKQGPGEVTAADIAPPAGVEVHS 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ + +ELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PELRLATLNDKGKLEIELTVERGRGYVSAAQNKQAGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 181 TRVEQRTDFDRLIVDVETKPSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTK 300 Query: 310 LGTMGLFLGMNLPDWPPES 328 LG MGL L + P + P Sbjct: 301 LGAMGLQLKDSPPGFDPRQ 319 >gi|296131864|ref|YP_003639111.1| DNA-directed RNA polymerase, alpha subunit [Thermincola sp. JR] gi|296030442|gb|ADG81210.1| DNA-directed RNA polymerase, alpha subunit [Thermincola potens JR] Length = 315 Score = 358 bits (919), Expect = 7e-97, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 209/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-KIECVEL-SEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV+ED+TDIILN+K + LKM D K + I GPG V AG+I T D+E+ Sbjct: 61 VLHEFSTVPGVYEDVTDIILNLKELCLKMYTDEEKVLRIESEGPGEVKAGNIITDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L DA + ME+ V+KG GYVPA+ ++ ++ IG+I +D+ +SP+++V+Y + Sbjct: 121 LNPELHIATLSDDARLVMEINVAKGRGYVPAERNKKDDHVIGIIPVDSAFSPVRRVNYYI 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ+ DYDKL++ + T+GSI +++ +L+++IL + L +FI E K+V+ + Sbjct: 181 EDTRVGQITDYDKLTLEVWTNGSIRPDEATSLSAKILSEHLRLFIGLTENIKDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +EEL+LSVRS NCL+ I + +L QRTE DM+++ N G+KSL E+ Sbjct: 241 EEEEKDKILEMTIEELDLSVRSYNCLKRAGINTVEELTQRTEEDMIKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLAELGLSL 310 >gi|304315969|ref|YP_003851114.1| DNA-directed RNA polymerase, subunit alpha [Thermoanaerobacterium thermosaccharolyticum DSM 571] gi|302777471|gb|ADL68030.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacterium thermosaccharolyticum DSM 571] Length = 316 Score = 358 bits (919), Expect = 7e-97, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++IDG Sbjct: 4 EIEKP-KIEIVE-QSNDDTYAKFVIEPLERGYGITLGNSLRRMLLSSLPGAAAKTIKIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILN+K + +K+ D K V I G G VTAGDI + D+E+ Sbjct: 62 VLHEFSTVPGVKEDVTEIILNLKELAVKLYTDEPKIVRIEAEGKGEVTAGDIISDGDVEI 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L + + ME+ + KG GYVP+ ++ N PIG+I +D++++P+KKVSY V Sbjct: 122 MNPDLHIATLSDNGKLNMEIELVKGKGYVPSDKNKEPNQPIGIIPVDSIFTPVKKVSYNV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL+M + T+G+I+ +++++LA++IL D +F +F E +++ + Sbjct: 182 ENTRVGQVTDYDKLTMEVWTNGTISPKEAISLAAKILIDHFNLFTSFAENYNDMEVLVEK 241 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DL+Q+TE +M+++ N G+KSLVE++ Sbjct: 242 SEKKTDKPLDMTIEELDLSVRSYNCLKRAGINTVQDLVQKTEEEMMKVRNLGKKSLVEVE 301 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 302 QKLKALGLSL 311 >gi|312968380|ref|ZP_07782590.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 2362-75] gi|312287205|gb|EFR15115.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli 2362-75] gi|327250943|gb|EGE62636.1| DNA-directed RNA polymerase, alpha subunit [Escherichia coli STEC_7v] gi|332090427|gb|EGI95525.1| DNA-directed RNA polymerase, alpha subunit [Shigella boydii 3594-74] Length = 325 Score = 358 bits (918), Expect = 8e-97, Method: Composition-based stats. Identities = 145/329 (44%), Positives = 217/329 (65%), Gaps = 10/329 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+ID Sbjct: 2 TEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEID 58 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E Sbjct: 59 GVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVE 118 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 ++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++ Sbjct: 119 IVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVER 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 179 IAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP-- 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 237 -EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 295 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L EIK VL + GL LGM L +WPP SI + Sbjct: 296 LTEIKDVLASRGLSLGMRLENWPPASIAD 324 >gi|84494744|ref|ZP_00993863.1| DNA-directed RNA polymerase alpha subunit [Janibacter sp. HTCC2649] gi|84384237|gb|EAQ00117.1| DNA-directed RNA polymerase alpha subunit [Janibacter sp. HTCC2649] Length = 346 Score = 358 bits (918), Expect = 8e-97, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 191/320 (59%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E+R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE S+I Sbjct: 8 ILTEDVVSEHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFSTIP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T+IILNIKG+ + D + + K+G G VTA DI +EV+NPD I Sbjct: 68 GVKEDVTEIILNIKGLVVSSEHDEPVVMYLRKQGSGAVTAADIAPPAGVEVINPDLHIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + MELTV +G GYV A+ +++ + IG I +D++YSP+ V+Y VE R Q Sbjct: 128 LNDKGSIEMELTVERGRGYVSAQQNKSGDQEIGRIPVDSIYSPVLNVTYKVELTRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D++ L + ++T ++T D++A A + L + G+ + + + L Sbjct: 188 DFNSLVLDVETKQAVTPRDALASAGKTLVELFGLARELNVEAEGIDMGPSPTDAALAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K L MGL Sbjct: 248 ALPIEDLDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGQKSIDEVKAKLHGMGLA 307 Query: 317 LGMNLPDWPPESIEELAKKY 336 L + + P I ++ Sbjct: 308 LKDSPAGFDPSQIASYDDEF 327 >gi|90962380|ref|YP_536296.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus salivarius UCC118] gi|227891570|ref|ZP_04009375.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus salivarius ATCC 11741] gi|119366692|sp|Q1WSB6|RPOA_LACS1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90821574|gb|ABE00213.1| DNA-directed RNA polymerase alpha chain [Lactobacillus salivarius UCC118] gi|227866717|gb|EEJ74138.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus salivarius ATCC 11741] gi|300215021|gb|ADJ79437.1| DNA-directed RNA polymerase subunit alpha (RNAP subunit alpha) (Transcriptase subunit alpha) (RNA polymerase subunit alpha) [Lactobacillus salivarius CECT 5713] Length = 314 Score = 358 bits (918), Expect = 9e-97, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 202/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I +E+ N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDG Sbjct: 3 EFEKPK----IHKIEEDNNYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + L M + + + I GP VTAGDIQ+ +D+EV Sbjct: 59 VLHEFSTIPGVLEDVTLIILNLKKVALSMESEDSQALEINVTGPMEVTAGDIQSNSDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNP+ IC + A + + + +KG GYV A ++ ++ PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALADDMPIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ + K + + Sbjct: 179 QVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLALFVDLTDEAKNAEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 299 VKAKLADLGLSL 310 >gi|111023125|ref|YP_706097.1| DNA-directed RNA polymerase subunit alpha [Rhodococcus jostii RHA1] gi|226365624|ref|YP_002783407.1| DNA-directed RNA polymerase subunit alpha [Rhodococcus opacus B4] gi|119366719|sp|Q0S3E7|RPOA_RHOSR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110822655|gb|ABG97939.1| DNA-directed RNA polymerase alpha subunit [Rhodococcus jostii RHA1] gi|226244114|dbj|BAH54462.1| DNA-directed RNA polymerase alpha subunit [Rhodococcus opacus B4] Length = 353 Score = 358 bits (918), Expect = 1e-96, Method: Composition-based stats. Identities = 123/320 (38%), Positives = 196/320 (61%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVI----ADNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILN+KG+ + D + + K+GPG VTAGDI + V N Sbjct: 61 HEFTTVPGVKEDVTDIILNLKGLVVSSEEDEPVTMYVRKQGPGAVTAGDIVPPAGVTVNN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKASGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLVLDVETKNSITARDALASAGKTLVELFGLARELNVEAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIASFGLPIEDLDLTVRSYNCLKREGVHTVGELVGRTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L ++GL L + + P ++ Sbjct: 301 LHSLGLALKDSPASFDPTTV 320 >gi|260206828|ref|ZP_05774319.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis K85] gi|289576193|ref|ZP_06456420.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis K85] gi|289540624|gb|EFD45202.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis K85] Length = 347 Score = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 118/306 (38%), Positives = 188/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+K + + D + + K+GPG VTAGDI + V NP I L+ + Sbjct: 75 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIATLNDKGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 135 EVELVVERGRGYVPAVQNRASGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 255 DLTVRSYNCLKREGVHIVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >gi|326203867|ref|ZP_08193729.1| DNA-directed RNA polymerase, alpha subunit [Clostridium papyrosolvens DSM 2782] gi|325985965|gb|EGD46799.1| DNA-directed RNA polymerase, alpha subunit [Clostridium papyrosolvens DSM 2782] Length = 315 Score = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ I EPL RG+ TLGN+LRR+L+SSL GAA+ +++IDG Sbjct: 3 EIEKPR-IECVS-NSDDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGAAVNSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILNIK ++L + G+ K + I G G +TAGDI T D+E+ Sbjct: 61 VLHEFSTVPGVVEDVTEIILNIKSLSLLIHGEGSKVIYIDANGEGPITAGDIITDQDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ D ME+ +SKG GYV A ++ PIG++ +D++Y+P+KKV+YTV Sbjct: 121 LNPDLHIATLNGDHRFYMEMVISKGRGYVSADKNKQAGQPIGVVPVDSIYTPVKKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGSI +++++L ++IL + L +F++ + K + + Sbjct: 181 ENTRVGQITDYDKLTLEVWTDGSINPDEAISLGAKILSEHLNLFVDLSDQAKHTEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DL RTE DM+++ N GRKSL E+ Sbjct: 241 EETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVL 300 Query: 308 GVLGTMGLFLG 318 L +GLFL Sbjct: 301 QKLQALGLFLA 311 >gi|72163017|ref|YP_290674.1| DNA-directed RNA polymerase subunit alpha [Thermobifida fusca YX] gi|90110874|sp|Q47LM1|RPOA_THEFY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71916749|gb|AAZ56651.1| DNA-directed RNA polymerase, alpha subunit [Thermobifida fusca YX] Length = 338 Score = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 122/317 (38%), Positives = 183/317 (57%), Gaps = 4/317 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GV Sbjct: 5 QRPTLTE----EPISEFRSKFILEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVE 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILN+KG+ + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEIILNLKGLVVSSEHDEPVLMYLRKQGPGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + ME+TV +G GYV A ++ IG I ID++YSP+ +V+Y VE+ Sbjct: 121 PEMHIATLNSKGKLEMEMTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVMRVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + + T +I D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLILDVWTKPAIRPRDAVASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L L+VRS NCL+ E I +G+L+ RTE D+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLNLTVRSYNCLKREGIHTVGELVARTEQDLLDIRNFGAKSIEEVKQK 300 Query: 310 LGTMGLFLGMNLPDWPP 326 L MGL L + P Sbjct: 301 LSDMGLALKDAQGGFDP 317 >gi|220928236|ref|YP_002505145.1| DNA-directed RNA polymerase subunit alpha [Clostridium cellulolyticum H10] gi|254765248|sp|B8I808|RPOA_CLOCE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|219998564|gb|ACL75165.1| DNA-directed RNA polymerase, alpha subunit [Clostridium cellulolyticum H10] Length = 315 Score = 357 bits (917), Expect = 1e-96, Method: Composition-based stats. Identities = 138/311 (44%), Positives = 204/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ I EPL RG+ TLGN+LRR+L+SSL G+A+ +++IDG Sbjct: 3 EIEKPR-IECVS-NSDDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGSAVNSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IILNIK ++L + G+ K + I G G +TAGDI T D+E+ Sbjct: 61 VLHEFSTVPGVVEDVTEIILNIKSLSLLVHGEGSKVIYIDANGEGPITAGDIITDQDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ D ME+ +SKG GYV A ++ PIG+I +D++Y+P+KKV+YTV Sbjct: 121 LNPDLHIATLNGDHRFYMEMVISKGRGYVSADKNKQAGQPIGVIPVDSIYTPVKKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGSI +++++L ++IL + L +F++ + K + + Sbjct: 181 ENTRVGQITDYDKLTLEVWTDGSINPDEAISLGAKILSEHLNLFVDLSDQAKHTEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DL RTE DM+++ N GRKSL E+ Sbjct: 241 EETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLTNRTEEDMMKVRNLGRKSLEEVL 300 Query: 308 GVLGTMGLFLG 318 L +GLFL Sbjct: 301 QKLQALGLFLA 311 >gi|229821593|ref|YP_002883119.1| DNA-directed RNA polymerase, alpha subunit [Beutenbergia cavernae DSM 12333] gi|259494164|sp|C5C0G1|RPOA_BEUC1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|229567506|gb|ACQ81357.1| DNA-directed RNA polymerase, alpha subunit [Beutenbergia cavernae DSM 12333] Length = 338 Score = 357 bits (916), Expect = 1e-96, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 197/322 (61%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVV----ADNRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK I + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKNIVVSSENDEPVVMYLRKQGPGVVTAADITPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I ++ + +ELTV +G GYV A+ ++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATVNGKGKLEVELTVERGRGYVSAQQNKAYDTEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + +++ +I+ D+VA A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVESKPAISPRDAVASAGKTLVELFGLARELNTAAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLDLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSITEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L +GL L + D+ P + + Sbjct: 301 LAALGLSLKDSPADFDPSLVTD 322 >gi|51245004|ref|YP_064888.1| DNA-directed RNA polymerase subunit alpha [Desulfotalea psychrophila LSv54] gi|61215903|sp|Q6AP43|RPOA_DESPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|50876041|emb|CAG35881.1| probable DNA-directed RNA polymerase, alpha subunit [Desulfotalea psychrophila LSv54] Length = 343 Score = 357 bits (916), Expect = 1e-96, Method: Composition-based stats. Identities = 157/334 (47%), Positives = 226/334 (67%), Gaps = 2/334 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +NW ELI+P +E E I +PL RGFA T+GN+LRR+L+SS++GAAIT Sbjct: 11 VYRNWHELIRPEKVEIDQ-SNHSETYGKFICQPLERGFATTIGNSLRRILLSSIQGAAIT 69 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+G LHE++S+K V ED+++IILN+K + LK++ + + V I K+GPG V AGDI Sbjct: 70 TVKIEGALHELTSMKDVKEDVSEIILNLKQVRLKLNCEESQTVRIEKQGPGPVVAGDIIP 129 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +E++N DH++CNL D ELTV G GY PA++ ++ +G I IDA+++P+K Sbjct: 130 SAFVEIMNEDHILCNLTSDMTFCAELTVEWGKGYQPAENQEKDDLTVGQIPIDAIFTPVK 189 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 K+ Y V SAR GQ DYDKL+ I+TDGS+ ED++A +++IL++QL +FINF+E E Sbjct: 190 KIQYVVSSARVGQQTDYDKLTYEIETDGSVRPEDALAYSAKILKEQLDIFINFDETAVEP 249 Query: 242 KED-INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ + + NP L K VE+LELSVRS NCL+ +I ++GDL+QRT+ +ML+ NFGR Sbjct: 250 EKKAVETEEKQENPYLDKPVEDLELSVRSANCLKNADINFIGDLVQRTDQEMLKTKNFGR 309 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 KSL EIK +L M L LG+ L W S E + Sbjct: 310 KSLNEIKTLLQDMDLTLGVKLEGWNAPSDAETEE 343 >gi|313895218|ref|ZP_07828775.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sp. oral taxon 137 str. F0430] gi|320529823|ref|ZP_08030900.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas artemidis F0399] gi|312976113|gb|EFR41571.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas sp. oral taxon 137 str. F0430] gi|320137841|gb|EFW29746.1| DNA-directed RNA polymerase, alpha subunit [Selenomonas artemidis F0399] Length = 319 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 198/315 (62%), Gaps = 6/315 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IE + E+ + EPL G+ T GN+LRR+L+SSL GAA+T++QID Sbjct: 2 TDIEKP-KIEITEI-SEDGRYGRFVCEPLEPGYGTTFGNSLRRMLLSSLEGAAVTSIQID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV +D+T I+LNIK + LKM G + I G VTA DI+ +DIE Sbjct: 60 GVLHEFSTIPGVRDDVTSIVLNIKQLCLKMQGSDPHTIRIDVAGEREVTAADIECGSDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ I L+ +++E+TV +G GYVPA ++ +D IG+I ID+++SP+ +V+YT Sbjct: 120 ILNPELHIATLNATGKLKIEMTVERGRGYVPADKNKKPDDSIGVIPIDSIFSPVHRVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVK 242 VE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E ++EV Sbjct: 180 VEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGNVVEEEEEVA 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKS Sbjct: 240 NFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINSVADLTQKTEEDMMKVRNLGRKS 299 Query: 303 LVEIKGVLGTMGLFL 317 L E+K L +GL L Sbjct: 300 LDEVKKKLEELGLSL 314 >gi|84394603|ref|ZP_00993305.1| DNA-directed RNA polymerase alpha subunit [Vibrio splendidus 12B01] gi|218710724|ref|YP_002418345.1| DNA-directed RNA polymerase subunit alpha [Vibrio splendidus LGP32] gi|254765263|sp|B7VLD2|RPOA_VIBSL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|84374777|gb|EAP91722.1| DNA-directed RNA polymerase alpha subunit [Vibrio splendidus 12B01] gi|218323743|emb|CAV20097.1| DNA-directed RNA polymerase, alpha subunit [Vibrio splendidus LGP32] Length = 330 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|163840858|ref|YP_001625263.1| DNA-directed RNA polymerase subunit alpha [Renibacterium salmoninarum ATCC 33209] gi|189043843|sp|A9WSR1|RPOA_RENSM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|162954334|gb|ABY23849.1| DNA-directed RNA polymerase alpha chain [Renibacterium salmoninarum ATCC 33209] Length = 336 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVV----SDNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L + P + Sbjct: 301 LVELGLSLKDSPPGFD 316 >gi|317050555|ref|YP_004111671.1| DNA-directed RNA polymerase subunit alpha [Desulfurispirillum indicum S5] gi|316945639|gb|ADU65115.1| DNA-directed RNA polymerase, alpha subunit [Desulfurispirillum indicum S5] Length = 354 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 149/323 (46%), Positives = 209/323 (64%), Gaps = 3/323 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + NW E+I+P + ++ IAEPL RGF TLGNALRRVL+SSL GAA+T Sbjct: 1 MMMNWNEVIRPRAL-VCDTKTATDSYGKFIAEPLERGFGITLGNALRRVLLSSLEGAAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 A++ID VLHE S++ GV ED+TDIILN+K + K+ K +T+ G VTA ++ Sbjct: 60 AIRIDNVLHEFSTVSGVVEDVTDIILNVKQLRFKLLSPGEKVLTLKASSVGPVTAASLEC 119 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D++VLN D VI L DA + MEL V G Y A+ ++ +D I +I +D+L++P+ Sbjct: 120 PPDVKVLNSDCVIATLGREDAELNMELRVDIGRAYRLAEENKKADDVIDMIPVDSLFNPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+YTVE AR Q ++DKL + + TDGS+ ED+VA A++I++DQL +FINFE+ ++ Sbjct: 180 VKVNYTVEQARVVQDTNFDKLILEVWTDGSVKPEDAVAFAAKIIKDQLAIFINFEDVEEP 239 Query: 241 VK-EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V E + S L K VEELELSVRS NCL +I + DL+ R+E ++L+ NFG Sbjct: 240 VALESVEDGSEELFALLSKSVEELELSVRSYNCLNNIDIRTIADLVARSENELLKTKNFG 299 Query: 300 RKSLVEIKGVLGTMGLFLGMNLP 322 +KSL+EIK +L M L LGM+L Sbjct: 300 KKSLLEIKEILKEMNLTLGMDLD 322 >gi|299820982|ref|ZP_07052871.1| DNA-directed RNA polymerase subunit alpha [Listeria grayi DSM 20601] gi|299818003|gb|EFI85238.1| DNA-directed RNA polymerase subunit alpha [Listeria grayi DSM 20601] Length = 314 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETIEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S I GV ED+T +ILNIK + LK+ D K + I +GPGVVTAGDI +D+E+ Sbjct: 61 ALHEFSVIDGVVEDVTTMILNIKKLALKIYSDDEKTLEIDVQGPGVVTAGDINYDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A + L ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y V Sbjct: 121 LNPDLHIATLSDNAKFHVRLNATRGRGYTPADLNKHENMPIGVLPVDSIFSPVIRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ +YDKLS + TDGSI+ E++V+L ++IL + L +F+N + ++ + I Sbjct: 181 ENTRVGQSTNYDKLSFDVLTDGSISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 VKLADLGLSL 310 >gi|125975413|ref|YP_001039323.1| DNA-directed RNA polymerase, alpha subunit [Clostridium thermocellum ATCC 27405] gi|158513382|sp|A3DJK1|RPOA_CLOTH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|125715638|gb|ABN54130.1| DNA-directed RNA polymerase subunit alpha [Clostridium thermocellum ATCC 27405] Length = 315 Score = 357 bits (916), Expect = 2e-96, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 203/311 (65%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL G A+T+++IDG Sbjct: 3 EIEKP-KIECV-VCSEDNRYGKFVVEPLERGYGITLGNSLRRILLSSLPGVAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE S+I GV ED+T+IILNIK ++L G+ K + I G G V A DI+ D+E+ Sbjct: 61 ILHEFSTIPGVIEDVTEIILNIKELSLNFHGEGPKVIYIDAEGEGEVKAKDIKADADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+H I L D + ME+T+ KG GYV A+ ++ PIG+I +D++++P+ KV+YTV Sbjct: 121 LNPEHKIATLSGDHRLYMEMTIDKGRGYVSAEKNKHPGQPIGVIPVDSIFTPVHKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL++ + T+GSI +++++L ++IL + L +FI+ + K + + Sbjct: 181 ENTRVGQVTDYDKLTLEVWTNGSIKPDEAISLGAKILSEHLNLFIDLSDNAKNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + DLI RTE DM+++ N GRKSL E+ Sbjct: 241 EETKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEDLISRTEEDMMKVRNLGRKSLEEVV 300 Query: 308 GVLGTMGLFLG 318 L +GL L Sbjct: 301 NKLKALGLSLA 311 >gi|301300224|ref|ZP_07206436.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus salivarius ACS-116-V-Col5a] gi|300852165|gb|EFK79837.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus salivarius ACS-116-V-Col5a] Length = 314 Score = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 135/312 (43%), Positives = 202/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I +E+ N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDG Sbjct: 3 EFEKPK----IHKIEEDNNYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + L + + + + I GP VTAGDIQ+ +D+EV Sbjct: 59 VLHEFSTIPGVLEDVTLIILNLKKVALSIESEDSQALEINVTGPMEVTAGDIQSNSDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNP+ IC + A + + + +KG GYV A ++ ++ PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALADDMPIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ + K + + Sbjct: 179 QVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLALFVDLTDEAKNAEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 299 VKAKLADLGLSL 310 >gi|237749540|ref|ZP_04580020.1| DNA-directed RNA polymerase subunit alpha [Oxalobacter formigenes OXCC13] gi|229380902|gb|EEO30993.1| DNA-directed RNA polymerase subunit alpha [Oxalobacter formigenes OXCC13] Length = 325 Score = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 147/326 (45%), Positives = 207/326 (63%), Gaps = 8/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP I + R+++ EP RG+ HTLGNALRRVL+SS+ G A T V I GV Sbjct: 5 FLKPR---IINVESLGAGRSVVEMEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S++ GV ED+ D++LN+KG+ K+ +T+ K G GVV A DI+ +D+E++ Sbjct: 62 VHEYSTLDGVQEDVVDLLLNLKGVVFKLHNRDSITLTLKKSGAGVVLASDIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKVSY 185 NP+HVI NL + + M++ V KG GYVP R D I +DA +SP+++VSY Sbjct: 122 NPEHVIANLTDNGKLDMQIKVEKGRGYVPGNVRRLSEDANKTIGRIILDASFSPVRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D DKL + I+T+G I+ E+++ ++RIL DQL +F E E + Sbjct: 182 AVESARVEQRTDLDKLIINIETNGVISAEEAIRQSARILVDQLSVFAALE--GTETTSEA 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRKSL E Sbjct: 240 LTQVPAVDPILLRPVDDLELTVRSANCLKAENINYIGDLIQRSENELLKTPNLGRKSLNE 299 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL + GL LGM L +WPP E+ Sbjct: 300 IKEVLASRGLTLGMRLDNWPPAGFEK 325 >gi|319778699|ref|YP_004129612.1| DNA-directed RNA polymerase alpha subunit [Taylorella equigenitalis MCE9] gi|317108723|gb|ADU91469.1| DNA-directed RNA polymerase alpha subunit [Taylorella equigenitalis MCE9] Length = 327 Score = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 209/326 (64%), Gaps = 7/326 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP I V+ E ++ EP RGF HTLGNALRR+L+SS+ G A T VQI GV Sbjct: 5 FLKPRTI---VVNPITEFHAKVVMEPFERGFGHTLGNALRRILLSSMTGYAATEVQIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE +SI+GV ED+ DI+LN+KG+ K+ G +T+ K PG + A DI+ +D+E++ Sbjct: 62 VHEYASIQGVQEDVVDILLNLKGVVFKLHGREEVTLTLSKSEPGEIRASDIELPHDVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKH---HRTENDPIGLITIDALYSPIKKVSY 185 NP+HVI NL + M + V +G GYVP + IG I +DA YSPI++VSY Sbjct: 122 NPNHVIANLQEGGRLDMHIKVEQGRGYVPGNVRALREDRHHSIGRIILDASYSPIRRVSY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR GQ D DKL + I+T+G +T ED+V A+RIL DQ+ +F + E + E Sbjct: 182 EVENARVGQRTDQDKLILDIETNGVLTPEDAVRQAARILMDQISVFASL-EGSPNMYEAP 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + +P LL+ V++LEL+VRS NCL+ EN+ Y+GDLIQ+TE ++L+ N GRKSL E Sbjct: 241 ARGTPQIDPVLLRSVDDLELTVRSANCLKAENVFYIGDLIQKTENELLKTPNLGRKSLNE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEE 331 IK VL GL LGM L +WPP ++ Sbjct: 301 IKDVLTARGLSLGMKLENWPPIGLDR 326 >gi|294789219|ref|ZP_06754458.1| DNA-directed RNA polymerase, alpha subunit [Simonsiella muelleri ATCC 29453] gi|294482960|gb|EFG30648.1| DNA-directed RNA polymerase, alpha subunit [Simonsiella muelleri ATCC 29453] Length = 327 Score = 356 bits (915), Expect = 2e-96, Method: Composition-based stats. Identities = 152/332 (45%), Positives = 214/332 (64%), Gaps = 8/332 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP I+ L R + +P RGF HTLGNALRR+L+SS+ G A T Sbjct: 1 MQNSTTEFLKPRQIDVDTL---SATRAKVSMQPFERGFGHTLGNALRRILLSSMNGFAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I VLHE S++ GV ED+ DI+LNIKGI K+ + V++ K G GVV AGDI+ Sbjct: 58 EVSIANVLHEYSTLDGVQEDVVDILLNIKGIVFKLHNRTEVTVSLKKSGAGVVRAGDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSP 179 +D+E++NPDHV+C+L + + ME+ V +G GY + E + IG I +DA +SP Sbjct: 118 SHDVEIINPDHVLCHLAENGNIEMEIKVEQGRGYQSVSGRRQGKEQNKIGAIQLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I +VS+ VE+AR Q D D L + I+T+G+I E++V A+RIL DQ+ +F + + Sbjct: 178 ISRVSFDVEAARVEQRTDLDSLILDIETNGAIDPEEAVRAAARILIDQMSIFADLQGTPV 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EV+E+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++L+ N G Sbjct: 238 EVEEEKA---PPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL + GL LG L WPP +E+ Sbjct: 295 RKSLNEIKEVLASKGLTLGSKLEAWPPAGLEK 326 >gi|242278684|ref|YP_002990813.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio salexigens DSM 2638] gi|259494166|sp|C6C1B1|RPOA_DESAD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|242121578|gb|ACS79274.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio salexigens DSM 2638] Length = 346 Score = 356 bits (914), Expect = 2e-96, Method: Composition-based stats. Identities = 157/336 (46%), Positives = 223/336 (66%), Gaps = 3/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP + + + E I EPL RGF T+GN+LRRVL+SS++GAA AV Sbjct: 13 RNWAELVKPEQL--VRDPKSNELYGKFICEPLERGFGTTIGNSLRRVLLSSMQGAAAVAV 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +I+GV HE ++I+GV ED+T+I+LNIK I M+ D + +T+ GVVTA DIQ Sbjct: 71 KIEGVQHEFTTIEGVMEDVTEIVLNIKQIRFAMTTDEPQFLTLRVNKQGVVTAADIQENQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +++VLNP+ +I L + M + G GYVPA H + IG I +D+ +SPI+KV Sbjct: 131 NVKVLNPEQIIATLSEKMDMEMTFEIRMGKGYVPADMHEGLVNEIGHIILDSSFSPIRKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE AR GQ+ +YDKL + + TDGS+T ED++A +++IL+DQL +FINF+E E +E Sbjct: 191 AYSVEQARVGQMTNYDKLIIEVFTDGSVTPEDAIAYSAKILKDQLSVFINFDEMGSEQEE 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 L NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 251 SKES-DLDLNPNLFKSIDELELSVRATNCLKAANIRIVGELVQRTEQTMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI+ VL +M L GM L D+ + E L +K +++ Sbjct: 310 DEIRRVLDSMELKFGMVLEDFDKKHQEWLKRKEKNE 345 >gi|330722390|gb|EGH00238.1| DNA-directed RNA polymerase alpha subunit [gamma proteobacterium IMCC2047] Length = 335 Score = 356 bits (914), Expect = 2e-96, Method: Composition-based stats. Identities = 151/335 (45%), Positives = 214/335 (63%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P +I+ +G N ++ EP RGF HTLGN+LRR+L+SS+ GAAI Sbjct: 1 MSRPVTEFLTPKHIQVEEVG---VNHAKVVLEPFERGFGHTLGNSLRRILLSSMPGAAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGV HE S+I+GV ED+ DI+LN+KG+ + M+G +T+ K G V AGDIQ Sbjct: 58 EVSIDGVQHEYSAIEGVQEDVIDILLNLKGVAVAMNGRDEATLTLNKTEAGPVLAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH--RTENDPIGLITIDALYSP 179 +DIE+ NP+HVI NL+ + M + VS G GY A+ E IG + +DA YSP Sbjct: 118 DHDIEIANPEHVIANLNAKGKLNMSIKVSSGRGYESAESRDLDGETRSIGTLQLDATYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +V+Y VESAR Q D DKL + I+++G+I E+ + A+ ILQ QL F++ E K+ Sbjct: 178 VTRVAYVVESARVEQRTDLDKLVLDIESNGTIDPEECIRRAATILQQQLTAFVDLEADKE 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +++ + P LL+ V++LEL+VRS NCL+ EN+ Y+GDLIQRTE D+L+ N G Sbjct: 238 PEQQEDEDEVDP---ILLRPVDDLELTVRSANCLKAENLYYIGDLIQRTEVDLLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 +KSL EIK VL + GL LGM L WPP S++ + Sbjct: 295 KKSLTEIKDVLASKGLSLGMRLEKWPPASLKNDDR 329 >gi|317126889|ref|YP_004093171.1| DNA-directed RNA polymerase, subunit alpha [Bacillus cellulosilyticus DSM 2522] gi|315471837|gb|ADU28440.1| DNA-directed RNA polymerase, alpha subunit [Bacillus cellulosilyticus DSM 2522] Length = 314 Score = 356 bits (914), Expect = 2e-96, Method: Composition-based stats. Identities = 132/310 (42%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + + EPL RG+ TLGN+LRR+L+SSL G+A+T+VQ DG Sbjct: 3 EIEKP-KIEAVEV-SEDGSYGKFVVEPLERGYGTTLGNSLRRILLSSLPGSAVTSVQFDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K + LK+ D K + I G GVVTA D +D+EV Sbjct: 61 VLHEFSTIEGVVEDITSIILNLKKLALKIYSDEEKTLEIEATGEGVVTAADFMHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A M++ ++G GYVPA+ +++E PIG+I +D++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLSKGAQFHMKVAANRGRGYVPAEGNKSEELPIGVIPVDSIYTPVARVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + TDGS E++V+L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQITNYDKLTLDVWTDGSTRPEEAVSLGAKILTEHLNIFVGLTDQAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTHKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAELGLGL 310 >gi|271962664|ref|YP_003336860.1| RNA polymerase subunit alpha [Streptosporangium roseum DSM 43021] gi|270505839|gb|ACZ84117.1| RNA polymerase, alpha chain, N terminal domain protein [Streptosporangium roseum DSM 43021] Length = 344 Score = 356 bits (914), Expect = 2e-96, Method: Composition-based stats. Identities = 126/320 (39%), Positives = 188/320 (58%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P +E EE R+ I EPL GF +T+GN+LRR L+SS+ GAA+T+++I+GVL Sbjct: 11 QRPTLLE----ESLEETRSKFIIEPLEPGFGYTIGNSLRRTLLSSIPGAAVTSIRIEGVL 66 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TDIILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 67 HEFSTVPGVKEDVTDIILNLKELVVSSEHDEPVVMYLRKQGPGEVTAADIAPPAGVEVHN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ A + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 127 PELRIATLNGKAKLEMELTVERGRGYVSAAQNKQPGQEIGRIPIDSIYSPVLKVTYKVEA 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T + D+VA A + L + G+ + + + Sbjct: 187 TRVEQRTDFDRLILDVETKPCMKPRDAVASAGKTLVELFGLARELNVEAEGIDIGPSPTD 246 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 247 AALAADLALPIEELNLTVRSYNCLKREGIHTVGELVARSEQDLLDIRNFGAKSIEEVKQK 306 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L M L L + P + P ++ Sbjct: 307 LHEMTLALKDSPPGFDPSAV 326 >gi|61215897|sp|Q6AD21|RPOA_LEIXX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 332 Score = 356 bits (914), Expect = 2e-96, Method: Composition-based stats. Identities = 122/316 (38%), Positives = 187/316 (59%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----ENISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIKG+ + D + K G G VTA DI +E+ N Sbjct: 61 HEFSTVPGVKEDVTEIILNIKGLVVSSEHDEPITAYLRKTGAGQVTAADISAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ A +ELT+ +G GYV A+ +R E G I ID++YSP+ KV+Y VE+ Sbjct: 121 PELVIATLNDKAKFEVELTIERGRGYVSAQQNRNEYSEAGQIPIDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T +I+ D++A A R L + G+ + ++ Sbjct: 181 TRAGERTDFDRLVVDVETKPAISPRDAIASAGRTLVELFGLARELNSAAEGIEIGPAPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K Sbjct: 241 QVLSSELSMPIEDLDLSVRSYNCLKREGINTVSELVSLSETQLMNIRNFGQKSVDEVKDK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L MGL L ++P + Sbjct: 301 LTEMGLSLKDSVPGFD 316 >gi|16801816|ref|NP_472084.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua Clip11262] gi|16804644|ref|NP_466129.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes EGD-e] gi|46908778|ref|YP_015167.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes str. 4b F2365] gi|47093972|ref|ZP_00231706.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes str. 4b H7858] gi|47097177|ref|ZP_00234742.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes str. 1/2a F6854] gi|116873972|ref|YP_850753.1| DNA-directed RNA polymerase subunit alpha [Listeria welshimeri serovar 6b str. SLCC5334] gi|217966195|ref|YP_002351873.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes HCC23] gi|224499278|ref|ZP_03667627.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes Finland 1988] gi|224503600|ref|ZP_03671907.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL R2-561] gi|226225152|ref|YP_002759259.1| RNA polymerase (alpha subunit) [Listeria monocytogenes Clip81459] gi|254825033|ref|ZP_05230034.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-194] gi|254829055|ref|ZP_05233742.1| rpoA [Listeria monocytogenes FSL N3-165] gi|254830963|ref|ZP_05235618.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 10403S] gi|254854189|ref|ZP_05243537.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL R2-503] gi|254899943|ref|ZP_05259867.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes J0161] gi|254912851|ref|ZP_05262863.1| rpoA [Listeria monocytogenes J2818] gi|254931124|ref|ZP_05264483.1| rpoA [Listeria monocytogenes HPB2262] gi|254937231|ref|ZP_05268928.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes F6900] gi|254992726|ref|ZP_05274916.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-064] gi|255520569|ref|ZP_05387806.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-175] gi|284800508|ref|YP_003412373.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 08-5578] gi|284993694|ref|YP_003415462.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 08-5923] gi|290891791|ref|ZP_06554788.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-071] gi|300763643|ref|ZP_07073641.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes FSL N1-017] gi|54039273|sp|P66700|RPOA_LISIN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042184|sp|P66699|RPOA_LISMO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215961|sp|Q71WH2|RPOA_LISMF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|123461447|sp|A0ALU2|RPOA_LISW6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765254|sp|B8DB34|RPOA_LISMH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|259494169|sp|C1KZF5|RPOA_LISMC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|16412094|emb|CAD00684.1| rpoA [Listeria monocytogenes EGD-e] gi|16415291|emb|CAC97981.1| rpoA [Listeria innocua Clip11262] gi|46882051|gb|AAT05344.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes serotype 4b str. F2365] gi|47014436|gb|EAL05404.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes str. 1/2a F6854] gi|47017633|gb|EAL08432.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes str. 4b H7858] gi|116742850|emb|CAK21974.1| DNA-directed RNA polymerase, alpha subunit [Listeria welshimeri serovar 6b str. SLCC5334] gi|217335465|gb|ACK41259.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes HCC23] gi|225877614|emb|CAS06328.1| Putative RNA polymerase (alpha subunit) [Listeria monocytogenes serotype 4b str. CLIP 80459] gi|258601464|gb|EEW14789.1| rpoA [Listeria monocytogenes FSL N3-165] gi|258607581|gb|EEW20189.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL R2-503] gi|258609836|gb|EEW22444.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes F6900] gi|284056070|gb|ADB67011.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 08-5578] gi|284059161|gb|ADB70100.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 08-5923] gi|290558385|gb|EFD91902.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-071] gi|293582672|gb|EFF94704.1| rpoA [Listeria monocytogenes HPB2262] gi|293590849|gb|EFF99183.1| rpoA [Listeria monocytogenes J2818] gi|293594275|gb|EFG02036.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-194] gi|300515920|gb|EFK42969.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes FSL N1-017] gi|307572195|emb|CAR85374.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes L99] gi|328468090|gb|EGF39096.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 1816] gi|328469778|gb|EGF40695.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes 220] Length = 314 Score = 356 bits (914), Expect = 3e-96, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETIEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S I+GV ED+T +ILNIK + LK+ D K + I +GPGVVTA DI +D+E+ Sbjct: 61 ALHEFSVIEGVVEDVTTMILNIKKLALKIYSDEEKTLEIDMQGPGVVTAADINYDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A + L ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y V Sbjct: 121 LNPDLHIATLSDNAKFHVRLNATRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ +YDKL+ + TDGSI+ E++V+L ++IL + L +F+N + ++ + I Sbjct: 181 ENTRVGQSTNYDKLTFDVLTDGSISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 VKLADLGLSL 310 >gi|20808632|ref|NP_623803.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter tengcongensis MB4] gi|22257018|sp|Q8R7Y2|RPOA_THETN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|20517265|gb|AAM25407.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit [Thermoanaerobacter tengcongensis MB4] Length = 315 Score = 356 bits (913), Expect = 3e-96, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 198/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE + E+ + EPL RG+ TLGN+LRRVL+SS+ GAA +V+IDG Sbjct: 3 EIIEP-KIEIVE-QSEDGRYGKFVVEPLERGYGITLGNSLRRVLLSSIPGAAPKSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+ +IILN+K + +K+ D I G G VTAG I+ ++E+ Sbjct: 61 VLHEFSTLPGVKEDVVEIILNLKEVAVKLHSDEPVIGRIDVEGKGEVTAGHIKGGPELEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPDH I L D + ME+ KG GYVPA+ ++ N PIG+I +D++++PI+KV+YTV Sbjct: 121 LNPDHHIATLSDDGKIHMEIVFVKGKGYVPAEKNKEPNQPIGVIPVDSIFTPIRKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G V DYDKL++ + T+G+IT +++V++A+ +L FI+F K + Sbjct: 181 ENTRVGHVTDYDKLTLEVWTNGTITPKEAVSMAADMLIKYFQKFISFTGEYKSPDVFVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N G+KSL E+K Sbjct: 241 QEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKIRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLAALGLSL 310 >gi|114330598|ref|YP_746820.1| DNA-directed RNA polymerase subunit alpha [Nitrosomonas eutropha C91] gi|122314408|sp|Q0AIH1|RPOA_NITEC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114307612|gb|ABI58855.1| DNA-directed RNA polymerase subunit alpha [Nitrosomonas eutropha C91] Length = 335 Score = 356 bits (913), Expect = 4e-96, Method: Composition-based stats. Identities = 142/332 (42%), Positives = 215/332 (64%), Gaps = 9/332 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P IE R ++ EP RGF +TLGNALRRVL+SS+ G A T + I Sbjct: 4 NSFLTPRIIEVH---NLSPLRAKVVMEPFERGFGYTLGNALRRVLLSSIPGCAPTKISIS 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I G+ ED+ D+ILN+KG+ LK+ + +++ K G+VTAGDI++ +D+E Sbjct: 61 GVVHEYSTIDGLQEDIVDLILNLKGVVLKLHSKNSTVLSLKKDTEGIVTAGDIESSHDVE 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---ITIDALYSPIKKV 183 ++NP+HVI ++ + ++TV KG GY+P+ + E+ + I +DA +SP+++V Sbjct: 121 IVNPEHVIAHITSGGRIEAQITVEKGRGYLPSVNRSREDKSLSSIGDILLDASFSPVRRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SYT+E+AR Q D DKL + I+T+GS+ E+++ A+R+L +Q F + E ++ Sbjct: 181 SYTIENARVEQRTDLDKLIIDIETNGSVDPEEAIRYAARVLVEQFSFFADLESTLLPTEQ 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTEA++LR N GRKSL Sbjct: 241 ---PRAPAIDPILLRPVDDLELTVRSANCLKVENIFYIGDLIQRTEAELLRTPNLGRKSL 297 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 EIK VL + L LGM L +WPP ++E K+ Sbjct: 298 NEIKEVLASRDLSLGMKLENWPPANLENYVKE 329 >gi|326383232|ref|ZP_08204920.1| DNA-directed RNA polymerase subunit alpha [Gordonia neofelifaecis NRRL B-59395] gi|326197982|gb|EGD55168.1| DNA-directed RNA polymerase subunit alpha [Gordonia neofelifaecis NRRL B-59395] Length = 350 Score = 356 bits (913), Expect = 4e-96, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 192/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVIAE----NRSKFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILN+KG+ + D + + K+GPG VT DI + V N Sbjct: 61 HEFTTVPGVKEDVTNIILNLKGLVVSSEEDEPVTMYVRKQGPGAVTGADIVPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELVVERGRGYVPAVQNKATGAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+T D++A A + L + G+ + ++ + + Sbjct: 181 TRVEQRTDFDRLVLDVETKNSMTARDALASAGKTLVELFGLARELNVEAEGIEIGPSPQE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +E+LEL+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K Sbjct: 241 ADHIAAFSLPIEDLELTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L ++GL L + + P + Sbjct: 301 LHSLGLALKDSPASFDPSQV 320 >gi|269955462|ref|YP_003325251.1| DNA-directed RNA polymerase subunit alpha [Xylanimonas cellulosilytica DSM 15894] gi|269304143|gb|ACZ29693.1| DNA-directed RNA polymerase, alpha subunit [Xylanimonas cellulosilytica DSM 15894] Length = 334 Score = 356 bits (913), Expect = 4e-96, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 191/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ ENRT EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVI----SENRTRFAIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK + + D + + K+G G VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKNLVVSSENDEPVVMYLRKQGAGAVTAADIVPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +ELTV +G GYV A +++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELTVERGRGYVSAAQNKSLDAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +IT D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EEL L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 SALAADLALPIEELNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + D+ P Sbjct: 301 LAELGLALKDSPLDFDPS 318 >gi|308272953|emb|CBX29557.1| DNA-directed RNA polymerase subunit alpha [uncultured Desulfobacterium sp.] Length = 340 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 148/327 (45%), Positives = 216/327 (66%), Gaps = 6/327 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NWQE+I P+ ++ N + EPL RGF T+GNALRR+++SSL GAAI Sbjct: 6 LMYMNWQEMIMPDKVQVTT---NMPNYDKFVCEPLERGFGLTIGNALRRIMLSSLYGAAI 62 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+ID V HE S I GV ED+++IILN+K + K + D K V I G +TA DI Sbjct: 63 VSVKIDSVFHEFSVIPGVLEDVSEIILNLKCVRFKTADDEPKTVRIDATGECEITARDII 122 Query: 121 TVND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + + EVLNPD I +L DAV++ +TV G GY ++ ++ E+DP+G I ID+++SP Sbjct: 123 SDDGKCEVLNPDIHIASLSKDAVLKANMTVKVGKGYSLSESNKNEDDPVGTIPIDSVFSP 182 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--P 237 +K+V+Y V +AR GQ DYDKL++ + TDGS++ ++++ +++I+++Q+ +FINF+E Sbjct: 183 VKRVNYVVGNARVGQRTDYDKLTIEVWTDGSLSPVEALSYSAKIIKEQMSIFINFDEKLE 242 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + K+ + FN L + VEELELSVRS NCL+ NI + L+ +TEA+MLR N Sbjct: 243 PEVEKKSEKRQKPQFNENLYRSVEELELSVRSANCLKNANIFKIYQLVNKTEAEMLRTKN 302 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDW 324 FGRKSL EIK VL MGL LGM L ++ Sbjct: 303 FGRKSLNEIKEVLSEMGLSLGMKLEEF 329 >gi|307694123|ref|ZP_07636360.1| DNA-directed RNA polymerase subunit alpha [Ruminococcaceae bacterium D16] Length = 316 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 131/314 (41%), Positives = 194/314 (61%), Gaps = 4/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEE-NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ KP + + + + EPL RG+ TLGN+LRR+L+SSL G A+T+++I Sbjct: 3 EIEKPR---IDCVENPGDASYGKYVVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S+I G+ ED+T+I+LNIK I K+ + +K V I G VTAGDI+ D+E Sbjct: 60 GVQHEFSTIPGIKEDVTEIVLNIKSIIAKLHCEENKTVHIEASGECEVTAGDIKCDADVE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ I L DA + MELT+S G GYVPA ++ IGLI +D++Y+P++KV+YT Sbjct: 120 ILNPELHIATLGPDATLSMELTLSHGRGYVPADRNKPAQTIIGLIPVDSIYTPVRKVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R G DYDKL++ + TDG+I D+V+L +RIL D +F + E + Sbjct: 180 VENTRVGDATDYDKLTLEVWTDGTIDARDAVSLGARILCDHFALFTDLSETMGSRSTVVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + +++++LSVRS NCL+ NI + DLI +TE +M+++ N GRKSL E+ Sbjct: 240 KAETQRDKVMEMTIDDMDLSVRSYNCLKRANINTVEDLISKTEEEMMKVRNLGRKSLEEV 299 Query: 307 KGVLGTMGLFLGMN 320 L MGL L + Sbjct: 300 INKLAMMGLSLASD 313 >gi|302519632|ref|ZP_07271974.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. SPB78] gi|318058101|ref|ZP_07976824.1| DNA-directed RNA polymerase subunit alpha [Streptomyces sp. SA3_actG] gi|318076046|ref|ZP_07983378.1| DNA-directed RNA polymerase subunit alpha [Streptomyces sp. SA3_actF] gi|302428527|gb|EFL00343.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. SPB78] Length = 340 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 130/322 (40%), Positives = 195/322 (60%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L MGL L + P + P S + Sbjct: 301 LAGMGLALKDSPPGFDPTSAAD 322 >gi|220913400|ref|YP_002488709.1| DNA-directed RNA polymerase subunit alpha [Arthrobacter chlorophenolicus A6] gi|325964132|ref|YP_004242038.1| DNA-directed RNA polymerase, subunit alpha [Arthrobacter phenanthrenivorans Sphe3] gi|254765243|sp|B8HCX4|RPOA_ARTCA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|219860278|gb|ACL40620.1| DNA-directed RNA polymerase, alpha subunit [Arthrobacter chlorophenolicus A6] gi|323470219|gb|ADX73904.1| DNA-directed RNA polymerase, alpha subunit [Arthrobacter phenanthrenivorans Sphe3] Length = 336 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 123/316 (38%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKSLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDAEIGRIPVDSIYSPVLKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L + P + Sbjct: 301 LVELGLSLKDSPPGFD 316 >gi|154498913|ref|ZP_02037291.1| hypothetical protein BACCAP_02905 [Bacteroides capillosus ATCC 29799] gi|150271753|gb|EDM98979.1| hypothetical protein BACCAP_02905 [Bacteroides capillosus ATCC 29799] Length = 315 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 195/313 (62%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + EPL RG+ TLGN+LRR+L+SSL G A+T+++I G Sbjct: 3 EIEKPR-IECVE-NPGDGSYGKYVVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIKIAG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE SI GV ED+T+I+LN+K I K+ + K V I G VTAGDI+ ++EV Sbjct: 61 VQHEFCSIPGVKEDVTEIVLNVKSIIAKLHCEGVKTVYIEASGECEVTAGDIKADGEVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L DA + MELT+S G GYVPA ++ + IG+I +D++Y+P++KV+YTV Sbjct: 121 LNPDLHIATLGPDASLNMELTLSHGRGYVPADRNKPAQNIIGVIPVDSVYTPVRKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R G D+DKL++ + T+G+IT D+V+L +RIL D +F + E + Sbjct: 181 EPTRVGDQTDFDKLTLEVWTNGTITARDAVSLGARILCDHFVLFTDLSETMGNKSTVVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ NI + DLI +TE +M+++ N GRKSL E+ Sbjct: 241 AEAQRDKVLEMTIEELDLSVRSFNCLKRANINTVEDLISKTEDEMMKVRNLGRKSLEEVV 300 Query: 308 GVLGTMGLFLGMN 320 L MGL L + Sbjct: 301 NKLAMMGLSLASD 313 >gi|116671486|ref|YP_832419.1| DNA-directed RNA polymerase subunit alpha [Arthrobacter sp. FB24] gi|158512270|sp|A0JZ49|RPOA_ARTS2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116611595|gb|ABK04319.1| DNA-directed RNA polymerase subunit alpha [Arthrobacter sp. FB24] Length = 336 Score = 355 bits (912), Expect = 4e-96, Method: Composition-based stats. Identities = 123/316 (38%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVLKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L + P + Sbjct: 301 LVELGLSLKDSPPGFD 316 >gi|289435872|ref|YP_003465744.1| DNA-directed RNA polymerase subunit alpha [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|315304917|ref|ZP_07875021.1| DNA-directed RNA polymerase, alpha subunit [Listeria ivanovii FSL F6-596] gi|289172116|emb|CBH28662.1| DNA-directed RNA polymerase subunit alpha [Listeria seeligeri serovar 1/2b str. SLCC3954] gi|313626708|gb|EFR95737.1| DNA-directed RNA polymerase, alpha subunit [Listeria ivanovii FSL F6-596] gi|313631790|gb|EFR98970.1| DNA-directed RNA polymerase, alpha subunit [Listeria seeligeri FSL N1-067] gi|313636142|gb|EFS02005.1| DNA-directed RNA polymerase, alpha subunit [Listeria seeligeri FSL S4-171] Length = 314 Score = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETIEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S I+GV ED+T +ILNIK + LK+ D K + I +GPGVVTA DI +D+E+ Sbjct: 61 ALHEFSVIEGVVEDVTTMILNIKKLALKIYSDEEKTLEIDMQGPGVVTAADINYDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A + L ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y V Sbjct: 121 LNPDLHIATLSDNAKFHVRLNATRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL+ + TDGSI+ E++V+L ++IL + L +F+N + ++ + I Sbjct: 181 ENTRVGQLTNYDKLTFDVLTDGSISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 VKLADLGLSL 310 >gi|257095015|ref|YP_003168656.1| DNA-directed RNA polymerase subunit alpha [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257047539|gb|ACV36727.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 324 Score = 355 bits (912), Expect = 5e-96, Method: Composition-based stats. Identities = 148/332 (44%), Positives = 208/332 (62%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + L KP I+ L ++ EP RG+ HTLGNALRR+L+SS+ G A T Sbjct: 1 MQSS--GLFKPRIIDVQSL---SPVHARVVMEPFERGYGHTLGNALRRILLSSMPGYAPT 55 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGVLHE S+I GV ED+ DI+LN+KG+ K+ + + K G GVV A DI+ Sbjct: 56 EVSIDGVLHEYSTIDGVQEDVVDILLNLKGVVFKLHNREEVVLHLRKEGKGVVRAADIEV 115 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY--VPAKHHRTENDPIGLITIDALYSP 179 +D+E++NP+H+I +L + MEL V K GY + IG + +DA +SP Sbjct: 116 SHDVEIINPEHIIAHLSAGGKLAMELKVEKSRGYLAGNLREFGDGGKSIGKLVLDASFSP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++VSY VESAR Q D DKL M I+T+G+I E+++ A+RIL +QL +F + Sbjct: 176 VRRVSYAVESARVEQRTDLDKLIMDIETNGAIEPEEAIRTAARILMEQLSVFADLAGTAM 235 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ K++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G Sbjct: 236 PIEY---QKTVQVDPLLLRPVDDLELTVRSANCLKAENIYYIGDLIQRTENELLKTPNLG 292 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 RKSL EIK VL GL LGM L +WPP +E+ Sbjct: 293 RKSLNEIKEVLAARGLTLGMKLENWPPAGLEK 324 >gi|119961601|ref|YP_948627.1| DNA-directed RNA polymerase subunit alpha [Arthrobacter aurescens TC1] gi|158512966|sp|A1R8R5|RPOA_ARTAT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119948460|gb|ABM07371.1| DNA-directed RNA polymerase, alpha subunit [Arthrobacter aurescens TC1] Length = 336 Score = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 123/316 (38%), Positives = 190/316 (60%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVV----SENRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILNIK +++ D + K+GPGVVTA DI +E N Sbjct: 61 HEFTTVPGVKEDVTEIILNIKNLSVSSEHDEPVVAYLRKQGPGVVTAADIAPPAGVEFHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ +ELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNSKGKFELELTIERGRGYVSAAQNKSGDSEIGRIPVDSIYSPVMKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAIAPRDAVASAGTTLVELFGLARELNTAAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADMALPIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L + P + Sbjct: 301 LVELGLSLKDSPPGFD 316 >gi|307266986|ref|ZP_07548502.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter wiegelii Rt8.B1] gi|326390633|ref|ZP_08212188.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter ethanolicus JW 200] gi|306917971|gb|EFN48229.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter wiegelii Rt8.B1] gi|325993311|gb|EGD51748.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter ethanolicus JW 200] Length = 315 Score = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 196/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE + E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EMIEP-KIEIVE-QSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+ +IILN+K + +K+ D I G G VTAG I+ DIE+ Sbjct: 61 VLHEFSTLPGVKEDVVEIILNLKEVAVKLHSDEPVVGRIDVEGKGEVTAGHIKGSADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPDH I L D + ME+ KG GYVP+ ++ N PIG+I +D++++P+K+VSY V Sbjct: 121 LNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKEPNQPIGVIPVDSIFTPVKRVSYNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G V DYDKL++ + T+G+IT ++++++AS +L FI+F K ++ Sbjct: 181 ENTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDMLIKYFQKFISFTGEYKSSDIFVDK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N G+KSL E+K Sbjct: 241 PEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKVRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEALGLSL 310 >gi|156973075|ref|YP_001443982.1| DNA-directed RNA polymerase subunit alpha [Vibrio harveyi ATCC BAA-1116] gi|166229282|sp|A7N0H8|RPOA_VIBHB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|156524669|gb|ABU69755.1| hypothetical protein VIBHAR_00754 [Vibrio harveyi ATCC BAA-1116] Length = 330 Score = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 145/335 (43%), Positives = 217/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+ Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 329 >gi|147676684|ref|YP_001210899.1| DNA-directed RNA polymerase subunit alpha [Pelotomaculum thermopropionicum SI] gi|146272781|dbj|BAF58530.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Pelotomaculum thermopropionicum SI] Length = 315 Score = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 207/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+IDG Sbjct: 3 EIEKP-KIEIVEM-SDDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+TDIILN+K + LK+ GD K + + GVV A DI D+E+ Sbjct: 61 VLHEFSTIPGVVEDVTDIILNLKNLCLKIYGDEEKVLRVEASTEGVVKAKDIIHDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L +A + ME+TV+KG GYV A+ ++ + IG+I +D++++P++KV+YTV Sbjct: 121 MNPDLTIATLAENARLYMEITVAKGRGYVSAERNKKGDHIIGVIPVDSVFTPVRKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + TDGSI +++ +L+++IL + L +FI E +V+ + Sbjct: 181 ENTRVGQITDYDKLTLEVWTDGSIRPDEATSLSAKILSEHLRLFIGLTETVSDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +EEL+LSVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ Sbjct: 241 EEEHKDRVLEMTIEELDLSVRSYNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLHELGLSL 310 >gi|289641138|ref|ZP_06473306.1| DNA-directed RNA polymerase, alpha subunit [Frankia symbiont of Datisca glomerata] gi|289509079|gb|EFD30010.1| DNA-directed RNA polymerase, alpha subunit [Frankia symbiont of Datisca glomerata] Length = 350 Score = 355 bits (911), Expect = 5e-96, Method: Composition-based stats. Identities = 124/317 (39%), Positives = 188/317 (59%), Gaps = 4/317 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P IE E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLIE----ESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+TD+ILN+K + + D + + K+GPGVVTA DI +EV + Sbjct: 61 HEFSTVPGVKEDVTDLILNLKELVVSSENDEPTVMYLRKQGPGVVTAADIAPPAGVEVHS 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + L+ + +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 LDLALATLNDKGKLEIELTVERGRGYVSAAQNKQPGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI+ D++A A + L G+ + V + Sbjct: 181 TRVEQRTDFDRLIVDVETKQSISPRDAMASAGKTLVGLFGLAQELNAEAEGVDIGPSAAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EE++L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AALAADLALPIEEMDLTVRSYNCLKREGIHTIGELVSRSEADLLDIRNFGQKSIDEVKTK 300 Query: 310 LGTMGLFLGMNLPDWPP 326 L M L L + P + P Sbjct: 301 LAAMALQLKDSPPGFDP 317 >gi|134298121|ref|YP_001111617.1| DNA-directed RNA polymerase subunit alpha [Desulfotomaculum reducens MI-1] gi|172044239|sp|A4J139|RPOA_DESRM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|134050821|gb|ABO48792.1| DNA-directed RNA polymerase subunit alpha [Desulfotomaculum reducens MI-1] Length = 315 Score = 355 bits (911), Expect = 6e-96, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKP-KIEIVE-QSEDNTYGKFVVEPLERGYGITLGNSLRRILLSSLPGAAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +++ GV ED+TDIILN+K + LK+ D K + + + G VTAGDI D+E+ Sbjct: 61 VLHEFATVPGVQEDVTDIILNLKNLCLKIHSDEEKVLRVEAQTEGPVTAGDIIHDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD + LD + ME++V+KG GY A+ ++ IG+I ID++Y+P+++V+Y V Sbjct: 121 LNPDLHLATLDTGGRLFMEISVNKGRGYSSAEKNKKGEHIIGVIPIDSIYTPVRRVNYNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + T+GSI +++ +L+++IL + L +FI E +V+ + Sbjct: 181 ENTRVGQITDYDKLTLEVWTNGSIRPDEATSLSAKILSEHLRLFIGLTETVNDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +EEL++SVRS NCL+ I + +LIQR E DM+++ N G+KSL E+ Sbjct: 241 EEEQKDKILEMTIEELDMSVRSYNCLKRAGINTVEELIQRNEEDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLHELGLSL 310 >gi|158319572|ref|YP_001512079.1| DNA-directed RNA polymerase, alpha subunit [Alkaliphilus oremlandii OhILAs] gi|172048250|sp|A8MLG9|RPOA_ALKOO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158139771|gb|ABW18083.1| DNA-directed RNA polymerase, alpha subunit [Alkaliphilus oremlandii OhILAs] Length = 317 Score = 355 bits (911), Expect = 6e-96, Method: Composition-based stats. Identities = 141/310 (45%), Positives = 213/310 (68%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP +E + + E EPL RG+ TLGN+LRR+++SSL GAA+T+V+IDG Sbjct: 5 EMEKP-KVEVVEINAEN-TYGKFTVEPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +II+N+KG++++M G+ K V I +G GV+TAGDI D+E+ Sbjct: 63 VLHEFSTIPGVKEDVAEIIINLKGLSIRMHGNEPKTVRIEAKGEGVITAGDIIADADVEI 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 L+PD I LD DAV+ MELT++KG GYVPA++++T PIG++ ID++++P+ KVSY V Sbjct: 123 LSPDTHIATLDTDAVLNMELTIAKGRGYVPAENNKTPGMPIGVLPIDSIFTPVTKVSYHV 182 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV DYDKL + + TDGSI +++++LA++I+ + L +FI + +V+ + Sbjct: 183 ENTRVGQVTDYDKLVIEVFTDGSIVPDEAISLAAKIMNEHLNLFITLTDHVNDVEIMVQK 242 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q++E DM+++ N GRKSL E++ Sbjct: 243 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVDELAQKSEEDMMKVRNLGRKSLEEVQ 302 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 303 KKLEELGLGL 312 >gi|313606573|gb|EFR83374.1| DNA-directed RNA polymerase, alpha subunit [Listeria monocytogenes FSL F2-208] Length = 314 Score = 355 bits (911), Expect = 7e-96, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETIEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S I+GV ED+T +ILNIK + LK+ D K + I +GPG+VTA DI +D+E+ Sbjct: 61 ALHEFSVIEGVVEDVTTMILNIKKLALKIYSDEEKTLEIDMQGPGIVTAADINYDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A + L ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y V Sbjct: 121 LNPDLHIATLSDNAKFHVRLNATRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ +YDKL+ + TDGSI+ E++V+L ++IL + L +F+N + ++ + I Sbjct: 181 ENTRVGQSTNYDKLTFDVLTDGSISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 VKLADLGLSL 310 >gi|27262232|gb|AAN87397.1| DNA-directed RNA polymerase alpha chain [Heliobacillus mobilis] Length = 315 Score = 355 bits (910), Expect = 7e-96, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 199/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+T+V+I+G Sbjct: 3 EIEKP-KIECVD-RSEDATYGKFVVEPLERGYGVTLGNSLRRILLSSLPGAAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED TDIILN+K +++KM D + + + G GVVT DI D+E+ Sbjct: 61 VLHEFSTIPGVVEDTTDIILNLKLLSIKMYTDEPRIIRVEAEGEGVVTGKDIICDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I LD + MELTV K GY+ A H+ IG+I +DA +SP++KV+Y V Sbjct: 121 LNPDQPIATLDKGGRLFMELTVEKDRGYMTATKHKKSEHVIGVIPVDANFSPVRKVNYRV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ+ +YD+L + + ++GS+T E++++L+++I+ D L +F+ E + V+ + Sbjct: 181 EDTRVGQITNYDRLILEVWSNGSLTPEEAISLSAKIMNDHLKLFVGLTESTENVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + P + L +EEL+LSVRS NCL+ I + DL +TE DM+++ N GRKSL E+ Sbjct: 241 EERPQDKVLDMTIEELDLSVRSYNCLKRAGINSVRDLTLKTEEDMIKVRNLGRKSLEEVD 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLNALGLSL 310 >gi|292669831|ref|ZP_06603257.1| DNA-directed RNA polymerase subunit alpha [Selenomonas noxia ATCC 43541] gi|292648628|gb|EFF66600.1| DNA-directed RNA polymerase subunit alpha [Selenomonas noxia ATCC 43541] Length = 319 Score = 355 bits (910), Expect = 7e-96, Method: Composition-based stats. Identities = 131/315 (41%), Positives = 196/315 (62%), Gaps = 6/315 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IE + E+ + EPL G+ T GN+LRR+L+SSL GAA+T++QID Sbjct: 2 TDIEKP-KIEIAEI-SEDGRYGRFVCEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV +D+T I+L +K + ++M G + I G VTA DI+ +DIE Sbjct: 60 GVLHEFSTIPGVRDDVTSIVLALKQLCIRMQGSELHTLRIEAEGEREVTAADIECGSDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ I L +++E+TV +G GYVPA ++ D IG+I ID+++SP+++V+YT Sbjct: 120 ILNPELHIATLGATGKLKIEMTVERGRGYVPADKNKKSEDSIGVIPIDSIFSPVQRVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVK 242 VE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E ++EV Sbjct: 180 VEDTRVGNVTDYDRLILDVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGTMLEEEEEVP 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKS Sbjct: 240 NFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKS 299 Query: 303 LVEIKGVLGTMGLFL 317 L E+K L +GL L Sbjct: 300 LDEVKKKLEELGLSL 314 >gi|28377858|ref|NP_784750.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum WCFS1] gi|254556043|ref|YP_003062460.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum JDM1] gi|300767846|ref|ZP_07077756.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308180036|ref|YP_003924164.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum subsp. plantarum ST-III] gi|38258532|sp|Q88XW0|RPOA_LACPL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|28270691|emb|CAD63597.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus plantarum WCFS1] gi|254044970|gb|ACT61763.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum JDM1] gi|300494831|gb|EFK29989.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum subsp. plantarum ATCC 14917] gi|308045527|gb|ADN98070.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus plantarum subsp. plantarum ST-III] Length = 314 Score = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 144/312 (46%), Positives = 202/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN----IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EV Sbjct: 59 VLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y Sbjct: 119 LNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + Sbjct: 179 QVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L +TEADM+++ N GRKSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKTEADMMKVRNLGRKSLEE 298 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 299 VKAKLADLGLSL 310 >gi|15828059|ref|NP_302322.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium leprae TN] gi|221230536|ref|YP_002503952.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium leprae Br4923] gi|7388099|sp|Q9X798|RPOA_MYCLE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|4539112|emb|CAB39833.1| putative DNA-directed RNA polymerase alpha chain [Mycobacterium leprae] gi|13093612|emb|CAC30912.1| [alpha] subunit of RNA polymerase [Mycobacterium leprae] gi|219933643|emb|CAR72054.1| [alpha] subunit of RNA polymerase [Mycobacterium leprae Br4923] Length = 347 Score = 355 bits (910), Expect = 8e-96, Method: Composition-based stats. Identities = 118/306 (38%), Positives = 187/306 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+KG+ + D + + K+GPG VTAGDI + + NP I L+ + Sbjct: 75 EIILNLKGLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTLHNPGMRIATLNDKGKI 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 EL V +G GYVPA +R IG I +D++YSP+ KV+Y V++ R Q D+DKL + Sbjct: 135 EAELVVERGRGYVPAVQNRALGAEIGRIPVDSIYSPVLKVTYKVDATRVEQRTDFDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SIT D++A A + L + G+ + ++ + + +++L Sbjct: 195 DVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 254 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 255 DLTVRSYNCLKREGVHTVGELVSRTESDLLDIRNFGQKSIDEVKVKLHQLGLSLKDSPDS 314 Query: 324 WPPESI 329 + P + Sbjct: 315 FDPSEV 320 >gi|289579114|ref|YP_003477741.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter italicus Ab9] gi|297545301|ref|YP_003677603.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|289528827|gb|ADD03179.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter italicus Ab9] gi|296843076|gb|ADH61592.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 315 Score = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 196/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE + E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EIIEP-KIEIVE-QAEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+ +IILN+K I +K+ D I G G VTAG I+ DIE+ Sbjct: 61 VLHEFSTLPGVKEDVVEIILNLKEIAVKLHSDEPVVGRIDVEGKGEVTAGHIKGSADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPDH I L D + ME+ KG GYVP+ ++ N PIG+I +D++++P+KKVSY V Sbjct: 121 LNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKEPNQPIGVIPVDSIFTPVKKVSYNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G V DYDKL++ + T+G+IT ++++++AS +L FI+F K ++ Sbjct: 181 ENTRVGNVTDYDKLTLEVWTNGTITPKEAISMASDMLIRYFQKFISFSGEYKSSDIFVDK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N G+KSL E+K Sbjct: 241 PDKKIEKPLDMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKVRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLQALGLSL 310 >gi|172056167|ref|YP_001812627.1| DNA-directed RNA polymerase subunit alpha [Exiguobacterium sibiricum 255-15] gi|171988688|gb|ACB59610.1| DNA-directed RNA polymerase, alpha subunit [Exiguobacterium sibiricum 255-15] Length = 314 Score = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 199/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L + + EPL RGF TLGN+LRR+L+SSL GAA+TAVQIDG Sbjct: 3 EIEKP-KIETVEL-SDNATFGKFVVEPLERGFGTTLGNSLRRILLSSLPGAAVTAVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + LK+ + K + I +G GVVTA +I +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTQIILNLKKLALKVYSEEEKTLEIDIQGAGVVTAANITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L A + M LT +G GYV A+ ++ ++ PIG+I ID++Y+PI++V+Y V Sbjct: 121 LNPELHIATLAEGASLHMRLTARRGRGYVQAEDNKRDDMPIGVIPIDSIYTPIQRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ +DKL++ + TDGSI E++V+L ++I+ + L +F+ + + + Sbjct: 181 EKTRVGQDASFDKLTLDVWTDGSIRPEEAVSLGAKIMTEHLNIFVGLTDEALHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKSEDEMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLDELGLGL 310 >gi|154684661|ref|YP_001419822.1| DNA-directed RNA polymerase subunit alpha [Bacillus amyloliquefaciens FZB42] gi|308172034|ref|YP_003918739.1| RNA polymerase subunit alpha [Bacillus amyloliquefaciens DSM 7] gi|171854997|sp|A7Z0R5|RPOA_BACA2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52313146|emb|CAH55603.1| DNA-directed RNA polymerase alpha chain [Bacillus amyloliquefaciens FZB42] gi|154350512|gb|ABS72591.1| RpoA [Bacillus amyloliquefaciens FZB42] gi|307604898|emb|CBI41269.1| RNA polymerase (alpha subunit) [Bacillus amyloliquefaciens DSM 7] gi|328551844|gb|AEB22336.1| DNA-directed RNA polymerase subunit alpha [Bacillus amyloliquefaciens TA208] gi|328910100|gb|AEB61696.1| DNA-directed RNA polymerase subunit alpha [Bacillus amyloliquefaciens LL3] Length = 314 Score = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IIL+IK + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTTIILHIKKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A R+ LT +G GY PA ++ ++ PIG+I ID++++P+ ++SY V Sbjct: 121 LNPDLHIATLGENASFRVRLTAQRGRGYTPADSNKRDDQPIGVIPIDSIFTPVSRLSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGS ++++AL S+IL + L +F+ + + + + Sbjct: 181 ENTRVGQVANYDKLTLDVWTDGSTGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|167036829|ref|YP_001664407.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167039548|ref|YP_001662533.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter sp. X514] gi|256752660|ref|ZP_05493512.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter ethanolicus CCSD1] gi|300915201|ref|ZP_07132516.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter sp. X561] gi|307725125|ref|YP_003904876.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter sp. X513] gi|320115251|ref|YP_004185410.1| DNA-directed RNA polymerase subunit alpha [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|238687620|sp|B0K5S1|RPOA_THEPX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238687717|sp|B0KCM8|RPOA_THEP3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166853788|gb|ABY92197.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter sp. X514] gi|166855663|gb|ABY94071.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256748480|gb|EEU61532.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter ethanolicus CCSD1] gi|300888925|gb|EFK84072.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter sp. X561] gi|307582186|gb|ADN55585.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter sp. X513] gi|319928342|gb|ADV79027.1| DNA-directed RNA polymerase, alpha subunit [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 315 Score = 354 bits (909), Expect = 9e-96, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 196/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+I+P IE I E+ + EPL RG+ TLGN+LRRVL+SSL GAA +V+IDG Sbjct: 3 EMIEP-KIEIIE-QSEDGTYGKFVVEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+ +IILN+K + +K+ D I G G VTAG I+ DIE+ Sbjct: 61 VLHEFSTLPGVKEDVVEIILNLKEVAVKLHSDEPVVGRIDVEGRGEVTAGHIKGSADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPDH I L D + ME+ KG GYVP+ ++ N PIG+I +D++++P+K+VSY V Sbjct: 121 LNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKEPNQPIGVIPVDSIFTPVKRVSYNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G V DYDKL++ + T+G++T ++++++AS +L FI+F K ++ Sbjct: 181 ENTRVGHVTDYDKLTLEVWTNGAVTPKEAISMASDMLIKYFQKFISFTGEYKSSDIFVDK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N G+KSL E+K Sbjct: 241 PEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQELTQKTEEEMMKVRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEALGLSL 310 >gi|94676571|ref|YP_588801.1| DNA-directed RNA polymerase subunit alpha [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] gi|119366665|sp|Q1LTB3|RPOA_BAUCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|94219721|gb|ABF13880.1| DNA-directed RNA polymerase, alpha subunit [Baumannia cicadellinicola str. Hc (Homalodisca coagulata)] Length = 327 Score = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 215/330 (65%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVD---IEQLSLTHAKVILEPLERGFGHTLGNALRRILLSSIPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDG+LHE S+ +G+ ED+ +I+LN+K + +K+ + +T+ K G G VTA +I Sbjct: 58 EVEIDGILHEYSTKEGIREDIIEILLNLKELAVKVQSKDNVILTLNKSGLGPVTAANIIH 117 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK-HHRTENDPIGLITIDALYSP 179 +D++++ P H++C+L +A + M + V +G GYVPA + PIG + +DA YSP Sbjct: 118 DSDVQIIKPQHILCHLTEENASINMRIKVQRGRGYVPASARIHKYDRPIGRLLVDACYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++ +SY VE+AR Q D DKL + I+T+G+I E+++ A+ IL +QL F++ + + Sbjct: 178 VENISYNVEAARVEQRTDLDKLILEIETNGTIDPEEAIRRAATILAEQLEAFVDLRDISQ 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 P---EVKEEKPEFDPVLLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP Sbjct: 295 KKSLTEIKDVLASRGLSLGMRLENWPPLGF 324 >gi|94266328|ref|ZP_01290030.1| DNA-directed RNA polymerase, alpha subunit [delta proteobacterium MLMS-1] gi|93453082|gb|EAT03561.1| DNA-directed RNA polymerase, alpha subunit [delta proteobacterium MLMS-1] Length = 365 Score = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 149/336 (44%), Positives = 217/336 (64%), Gaps = 5/336 (1%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +NW +LI P ++E E + +PL RGFA T+GN+LRR+L+SS++G AIT+ Sbjct: 32 YRNWHDLIIPESLEVDQ-ENHSERFGKFVCQPLERGFATTIGNSLRRILLSSIQGVAITS 90 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +IDGVLHE+S+I GV ED T+IILN+K + L++ + + V I K+ GV+TA DI Sbjct: 91 AKIDGVLHELSTIPGVKEDATEIILNLKEVRLRLHSEKPRMVKIDKKKKGVITAADIVGD 150 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +EV+NP+ IC + D EL V G GYV A+ +++E IG+I +DA+++PI+ Sbjct: 151 -QVEVMNPEQHICTITGDGHFVAELEVRWGKGYVSAERNKSEEQTIGVIALDAIFTPIRN 209 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV- 241 V AR GQ DYDKL + I TDGSI ED++A ++IL++QL +FINF+E + Sbjct: 210 VKVITSQARVGQQTDYDKLILEITTDGSIRPEDALAYGAKILKEQLQVFINFDEERVVPV 269 Query: 242 -KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + N L + VE+LELSVRS NCLR I ++G+L+Q++EA+ML+ NFGR Sbjct: 270 KSDSEPGEKPKLNENLYRSVEDLELSVRSANCLRNAEINHIGELVQKSEAEMLKTKNFGR 329 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW-PPESIEELAKK 335 KSL EIK +L M L+LGM + W PP + E+ ++ Sbjct: 330 KSLNEIKQLLAEMDLYLGMKIDGWEPPPAAEQETEE 365 >gi|295425627|ref|ZP_06818314.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus amylolyticus DSM 11664] gi|295064643|gb|EFG55564.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus amylolyticus DSM 11664] Length = 312 Score = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 196/310 (63%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK + D K + + GP VTA D++ +D+EV Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSNSDEQKVIELDVEGPATVTADDLKVDSDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M++ V G GYV A +++E+ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMQIAVKNGRGYVAASDNKSEDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A+ IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSINPNDALSFAANILVEHFKVFESADADNKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDNKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|295838431|ref|ZP_06825364.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. SPB74] gi|197695771|gb|EDY42704.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. SPB74] Length = 340 Score = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 129/322 (40%), Positives = 195/322 (60%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + +ELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNAKGKLELELTVERGRGYVSAVQNKQAGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L MGL L + P + P S + Sbjct: 301 LAGMGLALKDSPPGFDPTSAAD 322 >gi|331000670|ref|ZP_08324323.1| DNA-directed RNA polymerase, alpha subunit [Parasutterella excrementihominis YIT 11859] gi|329570882|gb|EGG52593.1| DNA-directed RNA polymerase, alpha subunit [Parasutterella excrementihominis YIT 11859] Length = 346 Score = 354 bits (909), Expect = 1e-95, Method: Composition-based stats. Identities = 152/347 (43%), Positives = 206/347 (59%), Gaps = 22/347 (6%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + L+KP +IE + EP G+AHTLGNALRRVL+SS+ G A T Sbjct: 1 MSVNALLKPRSIEVETAEG-NPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEA 59 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QI GV+HE S I GV ED+ DI+LN+KGI K+ +T+ K G GVVTA D + Sbjct: 60 QIAGVVHEYSQIDGVKEDVVDILLNVKGIIFKLENRDEVTITLRKEGEGVVTAADFDLPH 119 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSP 179 D+++LNP+HVI NL + M+L + KG GY P ++D IG I +DA +SP Sbjct: 120 DVQILNPEHVIANLS-GGKLDMQLKIEKGRGYQPGDMRALKDDYSKGTIGRIIMDASFSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---- 235 I +V+Y VE+AR Q D DKL M I+T+G+I E+++ A+ ILQDQL +F Sbjct: 179 ILRVAYRVENARVEQRTDLDKLVMNIETNGAILPEEALRQAAHILQDQLSVFGGLPTIGL 238 Query: 236 ------------EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 +P+ V+ + P +P L + V++LEL+VRS NCL+ ENI Y+GD Sbjct: 239 EPVAPQPAFGAMQPQAPVEAPMAKPQPPVDPILRRPVDDLELTVRSANCLKAENIYYIGD 298 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 LIQRTE ++L+ N GRKSL EIK VL GL LGM L +WPP ++ Sbjct: 299 LIQRTENELLKTPNLGRKSLNEIKEVLAAHGLTLGMKLENWPPVGLD 345 >gi|213964907|ref|ZP_03393106.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium amycolatum SK46] gi|213952443|gb|EEB63826.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium amycolatum SK46] Length = 341 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 127/323 (39%), Positives = 193/323 (59%), Gaps = 6/323 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----DYIDSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I GV ED++DIILNIKG+ L D V + + G G VTA DI+ +E+ N Sbjct: 61 HEFTTIPGVKEDVSDIILNIKGLVLSSEFDEPATVYLRREGAGAVTAADIECPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PDH I L+ + +E+ V +G GYVPA + IG I +D +YSP+ KVSY VE+ Sbjct: 121 PDHHIATLNESGRLEIEMIVERGRGYVPATPNS--GGEIGRIPMDQIYSPVLKVSYKVEA 178 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A + L + G+ E + ++ + + Sbjct: 179 TRVEQRTDFDKLIIDVETKNSITARDAMASAGKTLVELFGLARELNEAAEGIEIGPSPRE 238 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +E+L+ S+RS NCL+ E I +G+L RTE+D+L + NFG KS+ E+K Sbjct: 239 AEDVAAYQTPIEDLDFSMRSYNCLKREEIHTVGELAARTESDLLDIRNFGDKSINEVKEK 298 Query: 310 LGTMGLFLGMNLPDWPPESIEEL 332 L +GL L + ++ P ++ +L Sbjct: 299 LAELGLALKDSPNNFDPAAVADL 321 >gi|325560586|gb|ADZ31263.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus sp. SL1108] Length = 298 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 129/297 (43%), Positives = 195/297 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGV+HE S+I G Sbjct: 2 ITKVDEGTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVVHEFSTIDG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILN+K + LK+ GD K V I +GP VTA DI +D+EVLNP+ IC + Sbjct: 62 VLEDVTQIILNVKELALKIEGDEDKTVEIDVQGPATVTAADIVADSDVEVLNPEQYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +T+ KG GYV A ++ ++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 122 AEGGHFHVRMTIKKGRGYVAADQNKVDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 181 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 182 FDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 241 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVRS NCL+ I + +L +TEADM+++ N GRKSL E+K L +G Sbjct: 242 MTIEELDLSVRSYNCLKRAGINTVQELTNKTEADMMKVRNLGRKSLEEVKNKLSDLG 298 >gi|323490649|ref|ZP_08095854.1| DNA-directed RNA polymerase subunit alpha [Planococcus donghaensis MPA1U2] gi|323395741|gb|EGA88582.1| DNA-directed RNA polymerase subunit alpha [Planococcus donghaensis MPA1U2] Length = 314 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 198/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEIDNNAKF-GKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+ IILNIK + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVEEDVATIILNIKKLALKIYSDEEKVIEIDVKGDGTVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + + +RM + ++G GY A ++ E+ PIG+I ID++Y+P+ +V++ V Sbjct: 121 LNPDLYIATIAKNGHLRMRMYANRGRGYARADQNKREDLPIGVIPIDSIYTPVSRVNFQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +DKLS+ + TDGSI ++++AL ++I + L +F+ + + + + Sbjct: 181 ENTRVGQLAHFDKLSLDVWTDGSIGPKEAIALGAKIFTEHLNIFVGLTDEAQTAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVHELASKSEDDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 VKLEDLGLGL 310 >gi|16077211|ref|NP_388024.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. subtilis str. 168] gi|221307956|ref|ZP_03589803.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. subtilis str. 168] gi|221312277|ref|ZP_03594082.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. subtilis str. NCIB 3610] gi|221317211|ref|ZP_03598505.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. subtilis str. JH642] gi|221321474|ref|ZP_03602768.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. subtilis str. SMY] gi|296333140|ref|ZP_06875594.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305672843|ref|YP_003864514.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. spizizenii str. W23] gi|321313815|ref|YP_004206102.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis BSn5] gi|133395|sp|P20429|RPOA_BACSU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|142463|gb|AAA22217.1| RNA polymerase alpha-core-subunit [Bacillus subtilis] gi|1044991|gb|AAB06826.1| RNA polymerase alpha-core-subunit [Bacillus subtilis] gi|2632410|emb|CAB11919.1| RNA polymerase (alpha subunit) [Bacillus subtilis subsp. subtilis str. 168] gi|116733896|gb|ABK20007.1| DNA-directed RNA polymerase alpha subunit [synthetic construct] gi|291482515|dbj|BAI83590.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. natto BEST195] gi|296149756|gb|EFG90651.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. spizizenii ATCC 6633] gi|305411086|gb|ADM36204.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis subsp. spizizenii str. W23] gi|320020089|gb|ADV95075.1| DNA-directed RNA polymerase subunit alpha [Bacillus subtilis BSn5] Length = 314 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IIL+IK + LK+ D K + I +G G VTA DI +D+E+ Sbjct: 61 VLHEFSTIEGVVEDVTTIILHIKKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A R+ LT +G GY PA ++ ++ PIG+I ID++Y+P+ +VSY V Sbjct: 121 LNPDLHIATLGENASFRVRLTAQRGRGYTPADANKRDDQPIGVIPIDSIYTPVSRVSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGS ++++AL S+IL + L +F+ + + + + Sbjct: 181 ENTRVGQVANYDKLTLDVWTDGSTGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|323700832|ref|ZP_08112744.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio sp. ND132] gi|323460764|gb|EGB16629.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio desulfuricans ND132] Length = 346 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 151/336 (44%), Positives = 224/336 (66%), Gaps = 3/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW +L+KP + + + + I EPL RG+A T+GNA+RRVL+SS++G AI + Sbjct: 13 RNWSQLVKPEAL--VRDSKSSKTYGKFICEPLERGYATTIGNAMRRVLLSSMQGCAIVSA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I+GV HE +++ GV ED+T+++LN+K + + M+ D +R+ + G VTAG IQ Sbjct: 71 SIEGVQHEFTTLPGVLEDMTEVVLNLKQVRIAMTTDEPQRLVLEANKKGQVTAGMIQENQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ +LN D +I L + ++MEL V G GYVPA H D IG + +DA YSP+KKV Sbjct: 131 NVTILNKDQLIATLTENRPLKMELEVRMGKGYVPADMHEGLTDEIGSMVLDASYSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE AR GQ+ +YDKL + + TDGS+T ED+ A +++IL+DQL +FINF+E E E Sbjct: 191 AYSVEQARVGQMTNYDKLILEVWTDGSVTPEDACAYSAKILKDQLSVFINFDESSSETHE 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + S+ NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 251 EED-NSIDLNPNLFKSIDELELSVRATNCLKAANIQLVGELVQRTEQTMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI+ VL M L GM++ D+ + E L +K +++ Sbjct: 310 DEIRRVLDGMALKFGMSVEDFDKKYQEWLKRKEKNE 345 >gi|303256475|ref|ZP_07342489.1| DNA-directed RNA polymerase, alpha subunit [Burkholderiales bacterium 1_1_47] gi|302859966|gb|EFL83043.1| DNA-directed RNA polymerase, alpha subunit [Burkholderiales bacterium 1_1_47] Length = 346 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 152/347 (43%), Positives = 205/347 (59%), Gaps = 22/347 (6%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + L+KP +IE + EP G+AHTLGNALRRVL+SS+ G A T Sbjct: 1 MSVNALLKPRSIEVETAEG-NPYSATVTMEPFETGYAHTLGNALRRVLLSSMVGFAPTEA 59 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QI GV+HE S I GV ED+ DI+LN+KGI K+ +T+ K G GVVTA D + Sbjct: 60 QIAGVVHEYSQIDGVKEDVVDILLNVKGIIFKLENRDEVTITLRKEGEGVVTAADFDLPH 119 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALYSP 179 D+++LNP+HVI NL + M+L + KG GY P ++D IG I +DA +SP Sbjct: 120 DVQILNPEHVIANLS-GGKLDMQLKIEKGRGYQPGDMRALKDDYSKGTIGRIIMDASFSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE---- 235 I +V+Y VE+AR Q D DKL M I+T+G+I E+++ A+ ILQDQL +F Sbjct: 179 ILRVAYRVENARVEQRTDLDKLVMNIETNGAILPEEALRQAAHILQDQLSVFGGLPTIGL 238 Query: 236 ------------EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 +P+ V+ + P +P L + V++LEL+VRS NCL+ ENI Y+GD Sbjct: 239 EPVAPQPAFGAMQPQAPVEAPMAKPQPPVDPILRRPVDDLELTVRSANCLKAENIYYIGD 298 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 LIQRTE ++L+ N GRKSL EIK VL GL LGM L +WPP + Sbjct: 299 LIQRTENELLKTPNLGRKSLNEIKEVLAAHGLTLGMKLENWPPVGFD 345 >gi|116628988|ref|YP_814160.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus gasseri ATCC 33323] gi|238853457|ref|ZP_04643835.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri 202-4] gi|282852675|ref|ZP_06262017.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri 224-1] gi|311111214|ref|ZP_07712611.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri MV-22] gi|122274014|sp|Q046A0|RPOA_LACGA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116094570|gb|ABJ59722.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus gasseri ATCC 33323] gi|238833897|gb|EEQ26156.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri 202-4] gi|282556417|gb|EFB62037.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri 224-1] gi|311066368|gb|EFQ46708.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus gasseri MV-22] Length = 312 Score = 354 bits (908), Expect = 1e-95, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEEAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K I GP +VTA D++ +DIEV Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVTGPAIVTAADLKVDSDIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC++ + M + + G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICSIADGGHLHMNVAIKNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ + + + Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDDKNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLAELGLSL 308 >gi|311896536|dbj|BAJ28944.1| putative DNA-directed RNA polymerase subunit alpha [Kitasatospora setae KM-6054] Length = 340 Score = 353 bits (907), Expect = 1e-95, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPGVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELVLATLNGKGKLEMELTVERGRGYVSAVQNKASGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKPAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|315037556|ref|YP_004031124.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus amylovorus GRL 1112] gi|325956029|ref|YP_004286639.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus acidophilus 30SC] gi|312275689|gb|ADQ58329.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus amylovorus GRL 1112] gi|325332594|gb|ADZ06502.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus acidophilus 30SC] gi|327182852|gb|AEA31299.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus amylovorus GRL 1118] Length = 312 Score = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|268316435|ref|YP_003290154.1| DNA-directed RNA polymerase, alpha subunit [Rhodothermus marinus DSM 4252] gi|262333969|gb|ACY47766.1| DNA-directed RNA polymerase, alpha subunit [Rhodothermus marinus DSM 4252] Length = 323 Score = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 204/312 (65%), Gaps = 3/312 (0%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E + + + E + +PL RG+ T+GNALRRVL+SSL G AITAV+IDGV HE S+I Sbjct: 6 EGVRVEEATETFGRFVVQPLERGYGVTIGNALRRVLLSSLPGVAITAVRIDGVQHEFSTI 65 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVI 134 GV ED+ +IILN+KG+ K + + + +GP V TA DI + + EVLNPDH I Sbjct: 66 PGVTEDVAEIILNLKGVRFKAKDTTDANIRLSLKGPHVWTARDIGEATSHYEVLNPDHYI 125 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A V +EL + +G GYVPA+ ++ +DPIG+I IDA+++PIK V YT++ R GQ Sbjct: 126 ATLAEGAEVNLELRMGRGRGYVPAEENKLPDDPIGVIAIDAIFTPIKNVRYTIKPTRVGQ 185 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV--KEDINVKSLPF 252 ++Y++L + I TDGS++ E+++ A+ IL+D + +FI E + K++++ + Sbjct: 186 KIEYERLELEITTDGSVSPEEALVQAATILRDHINLFITMESEPQPEVKKKEVDAEVQRI 245 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L + V+EL+LSVR+ NCL+ NI +GDL++R E++ML+ NFGRKSL E+ VL Sbjct: 246 RELLSQPVDELDLSVRAQNCLKAANIRTIGDLVRRQESEMLKFRNFGRKSLQELIAVLEE 305 Query: 313 MGLFLGMNLPDW 324 GL GM++ + Sbjct: 306 RGLHFGMDVDKY 317 >gi|229818214|ref|ZP_04448496.1| hypothetical protein BIFANG_03512 [Bifidobacterium angulatum DSM 20098] gi|229784465|gb|EEP20579.1| hypothetical protein BIFANG_03512 [Bifidobacterium angulatum DSM 20098] Length = 332 Score = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 127/322 (39%), Positives = 185/322 (57%), Gaps = 5/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVQEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA ++ + D IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDKHIATLAEDGELEIEFTVERGRGYVPASMNKQDADEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNVQAEGVEVGSAPVV 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EEANPEHAVPIEDLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMN-LPDWPPESIE 330 L ++GL L + L D+ P ++E Sbjct: 301 LQSLGLSLKASPLGDFDPNNLE 322 >gi|311070791|ref|YP_003975714.1| DNA-directed RNA polymerase subunit alpha [Bacillus atrophaeus 1942] gi|310871308|gb|ADP34783.1| DNA-directed RNA polymerase subunit alpha [Bacillus atrophaeus 1942] Length = 314 Score = 353 bits (907), Expect = 2e-95, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IIL+IK + LK+ D K + I +G G VTA DI +DIE+ Sbjct: 61 VLHEFSTIEGVVEDVTTIILHIKKLALKIYSDEEKTLEIDVQGEGTVTAADITHDSDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A R+ LT +G GY PA ++ ++ PIG+I ID++++P+ ++SY V Sbjct: 121 LNPDLHIATLGENASFRVRLTAQRGRGYTPADSNKRDDQPIGVIPIDSIFTPVSRLSYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL++ + TDGS ++++AL S+IL + L +F+ + + + + Sbjct: 181 ENTRVGQVANYDKLTLDVWTDGSTGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|15837778|ref|NP_298466.1| DNA-directed RNA polymerase subunit alpha [Xylella fastidiosa 9a5c] gi|28198377|ref|NP_778691.1| DNA-directed RNA polymerase subunit alpha [Xylella fastidiosa Temecula1] gi|182681018|ref|YP_001829178.1| DNA-directed RNA polymerase subunit alpha [Xylella fastidiosa M23] gi|54039280|sp|P66713|RPOA_XYLFT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042190|sp|P66712|RPOA_XYLFA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238691090|sp|B2I8J3|RPOA_XYLF2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|9106142|gb|AAF83986.1|AE003951_11 RNA polymerase alpha subunit [Xylella fastidiosa 9a5c] gi|28056447|gb|AAO28340.1| RNA polymerase, alpha subunit [Xylella fastidiosa Temecula1] gi|182631128|gb|ACB91904.1| DNA-directed RNA polymerase, alpha subunit [Xylella fastidiosa M23] gi|307579487|gb|ADN63456.1| DNA-directed RNA polymerase subunit alpha [Xylella fastidiosa subsp. fastidiosa GB514] Length = 332 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 142/334 (42%), Positives = 220/334 (65%), Gaps = 9/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + ++++P + L ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT Sbjct: 1 MTVTVSQVLRPRGPQIERL---TENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE ++++G+ ED+ +++LN+K + +++ +++FK+G GVVTA DI+T Sbjct: 58 EVEIDGVLHEYTTVEGLQEDVLEVLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +++E++N HVIC+L D + M L + +G GY PA R +D I +DA +S Sbjct: 118 DHNVEIINDGHVICHLTKDTTINMRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VE+AR Q D DKL + I+T+G+I E+++ A+ IL DQL +F +F Sbjct: 178 PVRRVAYVVEAARVEQRTDLDKLIIDIETNGTIDAEEALRTAADILTDQLSVFGDFTHRD 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N Sbjct: 238 RGT---VKPASSGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 G+KSL EIK VLG GL LG+ L +WPP + + Sbjct: 295 GKKSLTEIKEVLGQRGLGLGVKLENWPPPGVSQY 328 >gi|304438389|ref|ZP_07398330.1| DNA-directed RNA polymerase subunit alpha [Selenomonas sp. oral taxon 149 str. 67H29BP] gi|304368755|gb|EFM22439.1| DNA-directed RNA polymerase subunit alpha [Selenomonas sp. oral taxon 149 str. 67H29BP] Length = 319 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 130/315 (41%), Positives = 197/315 (62%), Gaps = 6/315 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IE + E+ I EPL G+ T GN+LRR+L+SSL GAA+T++QID Sbjct: 2 TDIEKP-KIEIAEI-SEDGRYGRFICEPLEPGYGTTFGNSLRRMLLSSLDGAAVTSIQID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV +D+T I+L +K + ++M + + I G VTA DI+ +DIE Sbjct: 60 GVLHEFSTIPGVRDDVTSIVLALKQLCIRMQDSEPRTIRIEAAGAREVTAADIECGSDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ I + +++E+TV +G GYVPA ++ +D IG+I ID+++SP+++V+YT Sbjct: 120 ILNPELHIATMGETGKLKIEMTVERGRGYVPADRNKKPDDVIGVIPIDSIFSPVQRVNYT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVK 242 VE R G V DYD+L + + T+GSI E++V+ A+ IL L +F N + E ++EV Sbjct: 180 VEDTRVGNVTDYDRLILEVWTNGSIRPEEAVSKAAAILVMHLRLFQNMDGSVVEEEEEVP 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +++L+LSVRS NCL+ I + DL Q+TE DM+++ N GRKS Sbjct: 240 NFPPEEVDDSAKVLEMTIDDLDLSVRSFNCLKRAGINTVADLAQKTEDDMMKVRNLGRKS 299 Query: 303 LVEIKGVLGTMGLFL 317 L E+K L +GL L Sbjct: 300 LDEVKKKLEELGLSL 314 >gi|171741248|ref|ZP_02917055.1| hypothetical protein BIFDEN_00323 [Bifidobacterium dentium ATCC 27678] gi|283455392|ref|YP_003359956.1| polA DNA-directed RNA polymerase subunit alpha [Bifidobacterium dentium Bd1] gi|306823542|ref|ZP_07456917.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium dentium ATCC 27679] gi|309802902|ref|ZP_07697003.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium dentium JCVIHMP022] gi|171276862|gb|EDT44523.1| hypothetical protein BIFDEN_00323 [Bifidobacterium dentium ATCC 27678] gi|283102026|gb|ADB09132.1| polA DNA-directed RNA polymerase alpha chain [Bifidobacterium dentium Bd1] gi|304553249|gb|EFM41161.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium dentium ATCC 27679] gi|308220369|gb|EFO76680.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium dentium JCVIHMP022] Length = 331 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 185/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVP 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I +L D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDMHIASLADDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMAVPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +GL L + + ++E Sbjct: 301 LQALGLALKASPLGFDANNLE 321 >gi|71901056|ref|ZP_00683166.1| DNA-directed RNA polymerase [Xylella fastidiosa Ann-1] gi|71729183|gb|EAO31304.1| DNA-directed RNA polymerase [Xylella fastidiosa Ann-1] Length = 332 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 143/334 (42%), Positives = 220/334 (65%), Gaps = 9/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + ++++P + L ENR ++ EPL RG+AHTLGNALRRVL+SS+ G AIT Sbjct: 1 MTVTVSQVLRPRGPQIERL---TENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGFAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE ++++G+ ED+ +++LN+K + +++ +++FK+G GVVTA DI+T Sbjct: 58 EVEIDGVLHEYTTVEGLQEDVLEVLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKT 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYS 178 +++E++N HVIC+L D + M L + +G GY PA R +D I +DA +S Sbjct: 118 DHNVEIINDGHVICHLTKDTTINMRLKIERGFGYQPAVVRRRPDDENRTIGRLILDASFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++V+Y VE+AR Q D DKL + I+T+G+I E+++ A+ IL DQL +F NF Sbjct: 178 PVRRVAYVVEAARVEQRTDLDKLIIDIETNGTIDAEEALRTAADILTDQLSVFGNFTHRD 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N Sbjct: 238 RGT---VKPASSGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 G+KSL EIK VLG GL LG+ L +WPP + + Sbjct: 295 GKKSLTEIKEVLGQRGLGLGVKLENWPPPGVSQY 328 >gi|293380402|ref|ZP_06626473.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus 214-1] gi|290923085|gb|EFE00017.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus 214-1] Length = 312 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDIEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMELAVKNGRGYVAASDNKSDDMPIGVIPVDSLFSPIRKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANAKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|157690927|ref|YP_001485389.1| DNA-directed RNA polymerase subunit alpha [Bacillus pumilus SAFR-032] gi|194017476|ref|ZP_03056087.1| DNA-directed RNA polymerase, alpha subunit [Bacillus pumilus ATCC 7061] gi|172045997|sp|A8F9B2|RPOA_BACP2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157679685|gb|ABV60829.1| DNA-directed RNA polymerase subunit alpha [Bacillus pumilus SAFR-032] gi|194010748|gb|EDW20319.1| DNA-directed RNA polymerase, alpha subunit [Bacillus pumilus ATCC 7061] Length = 314 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILNIK + LK+ + K + I + G VTA DI +DIE+ Sbjct: 61 VLHEFSTIEGVVEDVTTIILNIKKLALKIYSEEEKTLEIDVQDEGTVTAADITHDSDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L +A R+ LT +G GY PA ++ ++ PIG+I ID++Y+P+ +V+Y V Sbjct: 121 LNPDLHIATLGKNASFRVRLTAQRGRGYNPADANKRDDQPIGVIPIDSIYTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ +YDKL++ + TDGS ++++AL S+IL + L +F+ + + + + Sbjct: 181 ENTRVGQITNYDKLTLDVWTDGSTGPKEAIALGSKILTEHLNIFVGLTDEAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 AKLEELGLGL 310 >gi|300362364|ref|ZP_07058540.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus gasseri JV-V03] gi|300353355|gb|EFJ69227.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus gasseri JV-V03] Length = 312 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 141/310 (45%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEEAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + LK D K I GP +VTA D++ +DIEV Sbjct: 59 VLHEFSTIPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVTGPAIVTAADLKVDSDIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC++ + M + + G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICSIADGGHLHMNVAIKNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ + + + Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDDKNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLAELGLSL 308 >gi|169830464|ref|YP_001716446.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Desulforudis audaxviator MP104C] gi|238688212|sp|B1I1B3|RPOA_DESAP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|169637308|gb|ACA58814.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Desulforudis audaxviator MP104C] Length = 315 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 139/310 (44%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E + +PL RG+ TLGN+LRRVL++SL GAA+TAV+IDG Sbjct: 3 EIEKP-KIECVEMDPEG-TYGKFVVDPLERGYGITLGNSLRRVLLASLPGAAVTAVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T++ILN+K + LK+ G+ + + I G G +TAGDI T D+E+ Sbjct: 61 VLHEFSSIPGVREDVTELILNLKSLRLKLYGEEDRLMRIEAEGEGRITAGDIITSPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ DA + MELTV +G GYVPA+ ++ N IG+I +D++++P+ KV++TV Sbjct: 121 LNPDLHIATLEPDARLYMELTVGRGRGYVPAEKNKRGNHVIGVIPVDSIFTPVTKVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + R G D+DKL+M + TDGS+ +++++LA+RI + L +F+ E V+ + Sbjct: 181 DKTRVGHDTDFDKLTMEVWTDGSLRPDEALSLAARITTEHLRLFVGLTESVNNVEIMVTK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EEL+LSVRS NCL+ I + +LIQR E +M+++ N G+KSL E+ Sbjct: 241 EEEKKNKLLEMPIEELDLSVRSYNCLKRAGINTVEELIQRNEEEMMKVRNLGKKSLEEVV 300 Query: 308 GVLGTMGLFL 317 LG +GL L Sbjct: 301 RKLGELGLDL 310 >gi|227894546|ref|ZP_04012351.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ultunensis DSM 16047] gi|227863705|gb|EEJ71126.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ultunensis DSM 16047] Length = 312 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|298531060|ref|ZP_07018461.1| DNA-directed RNA polymerase, alpha subunit [Desulfonatronospira thiodismutans ASO3-1] gi|298509083|gb|EFI32988.1| DNA-directed RNA polymerase, alpha subunit [Desulfonatronospira thiodismutans ASO3-1] Length = 347 Score = 353 bits (906), Expect = 2e-95, Method: Composition-based stats. Identities = 150/336 (44%), Positives = 216/336 (64%), Gaps = 2/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW L+KP+ ++ + E EPL RGF +T GNALRR+L+SSL+GAAI A+ Sbjct: 13 RNWSSLVKPDQVQ--RDEKSTEQYGKFSCEPLERGFGNTFGNALRRILLSSLQGAAIVAI 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +ID HE ++I GV ED+TDI+LN+K + KMS D +++ + G VTA IQT Sbjct: 71 KIDNAPHEFATITGVVEDVTDIVLNLKQVRFKMSRDEPQKLKLVANEKGQVTAKAIQTNQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +I VLNPD I L D + + + V G GYVP++ H ++ IGLI +DA +SPI+KV Sbjct: 131 NIAVLNPDQHIATLSQDIDLVINIEVRMGKGYVPSEQHEDLDEEIGLIPMDATFSPIRKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 SYTVE AR GQ+ +YDKL + I TDGS+ ED++A +++IL+DQL +FINF+E + ++ Sbjct: 191 SYTVEQARVGQMTNYDKLILEIHTDGSVLPEDALAYSAKILKDQLSVFINFDESQTDINV 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +P L K +EELEL VR+ NCLR I +G+LIQ++E D+LR NFGRKSL Sbjct: 251 IDTNSDEGLDPKLFKTIEELELPVRAGNCLRNAGIRLVGELIQQSENDLLRTKNFGRKSL 310 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +I+ V+ MG + ++ + E L +K +D+ Sbjct: 311 EDIRRVIEQMGYDFNTQIDNFDQKYQEWLKRKEDDE 346 >gi|283782779|ref|YP_003373533.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis 409-05] gi|283441001|gb|ADB13467.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis 409-05] Length = 331 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 181/321 (56%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDLHIATLAEDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +IT D+VA A L + G+ + V+ Sbjct: 181 TRVEQRTDFDKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPTH 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 DEADSQLAIPIEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L MGL L + + ++E Sbjct: 301 LQAMGLSLKASPIGFDANNLE 321 >gi|71276504|ref|ZP_00652779.1| DNA-directed RNA polymerase [Xylella fastidiosa Dixon] gi|71900585|ref|ZP_00682712.1| DNA-directed RNA polymerase [Xylella fastidiosa Ann-1] gi|170729724|ref|YP_001775157.1| DNA-directed RNA polymerase subunit alpha [Xylella fastidiosa M12] gi|238687957|sp|B0U5M3|RPOA_XYLFM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71162681|gb|EAO12408.1| DNA-directed RNA polymerase [Xylella fastidiosa Dixon] gi|71729642|gb|EAO31746.1| DNA-directed RNA polymerase [Xylella fastidiosa Ann-1] gi|167964517|gb|ACA11527.1| DNA-directed RNA polymerase [Xylella fastidiosa M12] Length = 332 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 143/326 (43%), Positives = 218/326 (66%), Gaps = 9/326 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P + L ENR ++ EPL RG+AHTLGNALRRVL+SS+ G+AIT V+IDGVL Sbjct: 9 LRPRGPQIERL---TENRAKVVLEPLGRGYAHTLGNALRRVLLSSIPGSAITQVEIDGVL 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++G+ ED+ +++LN+K + +++ +++FK+G GVVTA DI+T +++E++N Sbjct: 66 HEYTTVEGLQEDVLEVLLNLKDVAIRIHSGDTATLSLFKQGAGVVTAADIKTDHNVEIIN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYT 186 HVIC+L D + M L V +G GY PA R +D I +DA +SP+++V+Y Sbjct: 126 DGHVICHLTKDTTINMRLKVERGFGYQPAVVRRRPDDENRTIGRLILDASFSPVRRVAYV 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D DKL + I+T+G+I E+++ A+ IL DQL +F +F + + Sbjct: 186 VEAARVEQRTDLDKLIIDIETNGTIDAEEALRTAADILTDQLSVFGDFTHRDRGT---VK 242 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S +P LL+ +++LEL+VRS NCL+ E+I Y+GDLIQ+TE ++L+ N G+KSL EI Sbjct: 243 PASSGVDPVLLRPIDDLELTVRSANCLKAESIYYIGDLIQKTEVELLKTPNLGKKSLTEI 302 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEEL 332 K VLG GL LG+ L +WPP + + Sbjct: 303 KEVLGQRGLGLGVKLENWPPPGVSQY 328 >gi|124514416|gb|EAY55929.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum rubarum] Length = 324 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 210/324 (64%), Gaps = 3/324 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + ++ P ++ + + + +IAEP RG+ TLGN+LRR+L+SS++GAAITAV Sbjct: 2 NSVRDFQMPKSLSFDR-DTQTDRFLRVIAEPFERGYGTTLGNSLRRILLSSIKGAAITAV 60 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + GV HE S+I GV ED++DIILN+K + +K V + G VTAGDI T Sbjct: 61 RFRGVFHEFSNIPGVLEDVSDIILNLKEVRVKSHEPEPHWVHLKVSGQKYVTAGDISTGG 120 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 I++L+P H I LD A + M+L + G GYV A+ ++TE+ +G+I IDA+++P+KKV Sbjct: 121 VIDILDPGHHIATLDKGASLEMDLRIETGRGYVSAERNKTESLEVGVIPIDAVFTPLKKV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--KEV 241 ++TV+S R G++ DYDKL++ I+TDGS+T E++++ A++IL+D L MF+ + + Sbjct: 181 NFTVDSTRVGRMTDYDKLTLDIETDGSLTPEEALSQAAQILKDHLDMFVIEDTDHLIPDS 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + L + V +LELSVR++NCL+ I +GDLIQ+TE ++L+ NFGRK Sbjct: 241 PKPTMKVEEIGDDLLTRNVLDLELSVRASNCLKNAEIKTVGDLIQKTENELLKTKNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EIK VL MGL LGM L + Sbjct: 301 SLNEIKTVLSNMGLTLGMELTNKD 324 >gi|119366682|sp|Q2GH33|RPOA_EHRCR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 372 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 172/342 (50%), Positives = 239/342 (69%), Gaps = 5/342 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWSKLTKPSSIKVVPSG-ASPNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 90 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI + +K+SG + K +++ +GP V +G I Sbjct: 91 GVEIENVLHEFTSISGVREDVTDILLNISMMRVKLSGMNSKVLSLKVKGPCEVRSGMIPD 150 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALY 177 +D +LN D +IC LD +++ V+ G GYVPA ++ N PI I +ALY Sbjct: 151 TDDCIILNKDLLICTLDQGVDFNIKMYVNAGKGYVPAVKRKSVNKLGDIPINFIATNALY 210 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPIKK S+ VES+R GQ DYD+L M+++TDGSI +++VALA+RILQDQ FINF+E Sbjct: 211 SPIKKASFKVESSRIGQFTDYDRLIMSVETDGSILPDEAVALAARILQDQFQPFINFDET 270 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + K+ +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR N Sbjct: 271 DEPHKKVDAKDTLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRTPN 330 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 331 FGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 372 >gi|317125840|ref|YP_004099952.1| DNA-directed RNA polymerase subunit alpha [Intrasporangium calvum DSM 43043] gi|315589928|gb|ADU49225.1| DNA-directed RNA polymerase subunit alpha [Intrasporangium calvum DSM 43043] Length = 341 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 125/313 (39%), Positives = 193/313 (61%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + +NR+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ Sbjct: 8 VLSEEVVADNRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T++ILNIKG+ + D + + K+GPGVVTAGDI +EV NPD I Sbjct: 68 GVKEDVTEMILNIKGLVVSSEHDEPVVMYLRKQGPGVVTAGDITPPAGVEVHNPDLAIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + MELTV +G GYV A+ +++ + IG I +D++YSP+ V+Y VE+ R Q Sbjct: 128 LNDKGKLEMELTVERGRGYVSAQQNKSGDQEIGRIPVDSIYSPVLAVTYKVEATRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+DKL + ++T S+T D++A + + L + G+ + + + L Sbjct: 188 DFDKLIVDVETKNSMTPRDAMASSGKTLVELFGLARELNVEAEGIDMGPSPTDAALAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K L MGL Sbjct: 248 ALPIEDLDLTVRSYNCLKREGIHTVGELVGRSEADLLDIRNFGAKSIDEVKAKLVGMGLA 307 Query: 317 LGMNLPDWPPESI 329 L + P + P ++ Sbjct: 308 LKDSPPGFDPSAL 320 >gi|152964684|ref|YP_001360468.1| DNA-directed RNA polymerase subunit alpha [Kineococcus radiotolerans SRS30216] gi|189043840|sp|A6W5W5|RPOA_KINRD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|151359201|gb|ABS02204.1| DNA-directed RNA polymerase, alpha subunit [Kineococcus radiotolerans SRS30216] Length = 337 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 126/320 (39%), Positives = 195/320 (60%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEDVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +S+ GV ED+T+I+LN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFTSVPGVKEDVTEIVLNVKNLVVSSEHDEPVVMYLRKQGPGAVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +ELTV +G GYV A ++T IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNAKGKLELELTVERGRGYVSAAQNKTGEQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T +I+ D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLVVDVETKHAISPRDAVASAGKTLTELFGLARELNVEAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L ++E L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG+KS+ E+K Sbjct: 241 AALAADLALEIEALDLTVRSYNCLKREGIHSVGELVSRSEADLLDIRNFGQKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L MGL L + P + P ++ Sbjct: 301 LVGMGLHLKDSPPGFDPSAV 320 >gi|158512702|sp|A1A095|RPOA_BIFAA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 332 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 187/322 (58%), Gaps = 5/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVP 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDMHIATLAEDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMNIPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMN-LPDWPPESIE 330 L ++GL L + L ++ ++E Sbjct: 301 LQSLGLALKASPLGNFDANNLE 322 >gi|42518455|ref|NP_964385.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus johnsonii NCC 533] gi|227888827|ref|ZP_04006632.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus johnsonii ATCC 33200] gi|61215995|sp|Q74L64|RPOA_LACJO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41582740|gb|AAS08351.1| DNA-directed RNA polymerase alpha chain [Lactobacillus johnsonii NCC 533] gi|227850664|gb|EEJ60750.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus johnsonii ATCC 33200] gi|329666718|gb|AEB92666.1| DNA-directed RNA polymerase alpha chain [Lactobacillus johnsonii DPC 6026] Length = 312 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 141/310 (45%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEEAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + LK D K I GP +VTA D++ +DIEV Sbjct: 59 VLHEFSTIPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVTGPAIVTAADLKVDSDIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC++ + M + + G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICSIADGGHLHMNVAIKTGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ + + + Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDDKNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|297242944|ref|ZP_06926882.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis AMD] gi|296889155|gb|EFH27889.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis AMD] Length = 331 Score = 353 bits (905), Expect = 3e-95, Method: Composition-based stats. Identities = 125/321 (38%), Positives = 182/321 (56%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKNGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDLHIATLAEDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +IT D+VA A L + G+ + V+ Sbjct: 181 TRVEQRTDFDKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPTH 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E++ + RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 DEADSQLAIPIEDMNFTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L TMGL L + + ++E Sbjct: 301 LQTMGLSLKASPIGFDANNLE 321 >gi|189183975|ref|YP_001937760.1| DNA-directed RNA polymerase subunit alpha [Orientia tsutsugamushi str. Ikeda] gi|238692016|sp|B3CT29|RPOA_ORITI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189180746|dbj|BAG40526.1| DNA-directed RNA polymerase alpha chain [Orientia tsutsugamushi str. Ikeda] Length = 342 Score = 352 bits (904), Expect = 3e-95, Method: Composition-based stats. Identities = 170/341 (49%), Positives = 228/341 (66%), Gaps = 5/341 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW LIKP ++Y + N M+ EPL RG TLGN+LRRVL+SSLRGAAI Sbjct: 4 FLAKNWSSLIKPTKVQYEAVDN-NPNIKTMVVEPLERGLGLTLGNSLRRVLLSSLRGAAI 62 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++I GV HE+S + GV EDLTDIILNI+ + +KM + + GP VVTAG I Sbjct: 63 TSIKIPGVEHELSPVSGVKEDLTDIILNIRDVIVKMDSVQKCNLRLEVTGPAVVTAGMIT 122 Query: 121 TVN--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 + D+ +LNP HVICNL + M+L +G GYVP + PIG I +DAL++ Sbjct: 123 VTDKQDVTILNPQHVICNLSKGFNLEMDLICEQGKGYVPTSCLHNSDSPIGAIHLDALFN 182 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE++ GQ+ +YDKL +T++T+G + + ++ LA+RIL DQL +FINF + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINF--QE 240 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E ++ ++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 241 VEEEKPEKLELQTINPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPPE++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPENLESLAKKHEDQ 341 >gi|206602703|gb|EDZ39184.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum sp. Group II '5-way CG'] Length = 324 Score = 352 bits (904), Expect = 3e-95, Method: Composition-based stats. Identities = 138/324 (42%), Positives = 210/324 (64%), Gaps = 3/324 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + ++ P ++ + + + +IAEP RG+ TLGN+LRR+L+SS++GAAITAV Sbjct: 2 NSVRDFQMPKSLSFDR-DTQTDRFLRVIAEPFERGYGTTLGNSLRRILLSSIKGAAITAV 60 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + GV HE S+I GV ED++DIILN+K + +K V + G VTAGDI T Sbjct: 61 RFRGVFHEFSNIPGVLEDVSDIILNLKEVRVKSHESEPHWVHLKVSGQKYVTAGDISTGG 120 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 I++L+P H I LD A + M+L + G GYV A+ +++E+ +G+I IDA+++P+KKV Sbjct: 121 VIDILDPGHHIATLDKGASLEMDLRIETGRGYVSAERNKSESLEVGVIPIDAVFTPLKKV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--KEV 241 ++TV+S R G++ DYDKL++ I+TDGS+T E++++ A++IL+D L MF+ + + Sbjct: 181 NFTVDSTRVGRMTDYDKLTLDIETDGSLTPEEALSQAAQILKDHLDMFVIEDTDHLIPDS 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + L + V +LELSVR++NCL+ I +GDLIQ+TE ++L+ NFGRK Sbjct: 241 PKPTMKVEEIGDDLLTRNVLDLELSVRASNCLKNAEIKTVGDLIQKTENELLKTKNFGRK 300 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EIK VL MGL LGM L + Sbjct: 301 SLNEIKTVLSNMGLTLGMELTNKD 324 >gi|327332743|gb|EGE74477.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL097PA1] Length = 338 Score = 352 bits (904), Expect = 3e-95, Method: Composition-based stats. Identities = 122/322 (37%), Positives = 185/322 (57%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G VTA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEVTAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L +GL L + P + P + E Sbjct: 301 LTELGLALKDSAPGFDPLAAAE 322 >gi|148284191|ref|YP_001248281.1| DNA-directed RNA polymerase alpha chain [Orientia tsutsugamushi str. Boryong] gi|172047207|sp|A5CCI9|RPOA_ORITB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146739630|emb|CAM79419.1| DNA-directed RNA polymerase alpha chain [Orientia tsutsugamushi str. Boryong] Length = 342 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 169/341 (49%), Positives = 228/341 (66%), Gaps = 5/341 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW LIKP ++Y + N M+ EPL RG TLGN+LRRVL+SSLRGAAI Sbjct: 4 FLAKNWSSLIKPTKVQYEAVDN-NPNIKTMVVEPLERGLGLTLGNSLRRVLLSSLRGAAI 62 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++I GV HE+S + GV EDLTDIILNI+ + +KM + + GP VVTAG I Sbjct: 63 TSIKIPGVEHELSPVSGVKEDLTDIILNIRDVIVKMDSVQKCNLRLEVTGPAVVTAGMIT 122 Query: 121 TVN--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 + D+ +LNP HVICNL + M+L +G GYVP + PIG I +DAL++ Sbjct: 123 VTDKQDVTILNPQHVICNLSKGFNLEMDLICEQGKGYVPTSCLHNSDSPIGAIHLDALFN 182 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++VSY VE++ GQ+ +YDKL +T++T+G + + ++ LA+RIL DQL +FINF + Sbjct: 183 PVRRVSYKVENSMVGQMTNYDKLIITVETNGVVNPDAALGLAARILLDQLQVFINF--QE 240 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E ++ ++ NP LLKKV ELELSVRS NCL+ ENIVY+GDL+ RTE ML+ ANF Sbjct: 241 VEEEKPEKLELQTINPVLLKKVYELELSVRSQNCLKNENIVYVGDLVARTETQMLKTANF 300 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 GRKSL E+K VL L GM WPP+++E LAKK+ED+ Sbjct: 301 GRKSLNELKKVLANFNLEFGMKDIGWPPDNLESLAKKHEDQ 341 >gi|295396439|ref|ZP_06806601.1| DNA-directed RNA polymerase subunit alpha [Brevibacterium mcbrellneri ATCC 49030] gi|294970741|gb|EFG46654.1| DNA-directed RNA polymerase subunit alpha [Brevibacterium mcbrellneri ATCC 49030] Length = 332 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 121/330 (36%), Positives = 193/330 (58%), Gaps = 4/330 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V + R+ I EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPTLNEEVV----SDYRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+ ILN+K + + D + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVPGVKEDVTEFILNLKSLVVSSEFDEPVVAYLRKQGPGEVTAADISAPGGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I +L+ + + +ELT+ +G GYV A ++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIASLNDEGQLDIELTIERGRGYVSAAQNKNADAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLIIDVETKPSILPRDAVASAGKTLVELFGLARELNVEAEGIDIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AALAADLALAIEDLDLTVRSYNCLKREGIHTVGELVARSEADLMDIRNFGSKSIDEVKQK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L + L L + + +++ ED+ Sbjct: 301 LNELNLSLKDSPNGFGEANLDSDESFVEDE 330 >gi|170780766|ref|YP_001709098.1| DNA-directed RNA polymerase subunit alpha [Clavibacter michiganensis subsp. sepedonicus] gi|189043834|sp|B0RB72|RPOA_CLAMS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|169155334|emb|CAQ00437.1| DNA-directed RNA polymerase alpha chain [Clavibacter michiganensis subsp. sepedonicus] Length = 331 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 187/316 (59%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----ESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIKG+ + D + K+G G VTA DI +E+ N Sbjct: 61 HEFSTVPGVKEDVTEIILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ Sbjct: 121 PELVIATLNEKAKFELELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T +IT D++A A R L + G+ + ++ Sbjct: 181 TRAGERTDFDRLVVDVETKSAITPRDAIASAGRTLTELFGLARELNSAAEGIEIGPAPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K Sbjct: 241 AVLSSELSMPIEDLDLSVRSYNCLKREGIHNVSELVALSETQLMNIRNFGQKSVDEVKDK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L +P + Sbjct: 301 LVELGLSLKDAVPGFD 316 >gi|119025365|ref|YP_909210.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium adolescentis ATCC 15703] gi|118764949|dbj|BAF39128.1| DNA-directed RNA polymerase alpha chain [Bifidobacterium adolescentis ATCC 15703] Length = 344 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 187/322 (58%), Gaps = 5/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV Sbjct: 17 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVP 72 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 73 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 132 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ Sbjct: 133 PDMHIATLAEDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEA 192 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 193 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVA 252 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 253 EETNPEMNIPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEK 312 Query: 310 LGTMGLFLGMN-LPDWPPESIE 330 L ++GL L + L ++ ++E Sbjct: 313 LQSLGLALKASPLGNFDANNLE 334 >gi|313808805|gb|EFS47259.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL087PA2] Length = 338 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 123/329 (37%), Positives = 187/329 (56%), Gaps = 4/329 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G VTA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADITPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +GL L + P + P + E + D Sbjct: 301 LTELGLALKDSAPGFDPLAAAEAYDEAND 329 >gi|317153932|ref|YP_004121980.1| DNA-directed RNA polymerase subunit alpha [Desulfovibrio aespoeensis Aspo-2] gi|316944183|gb|ADU63234.1| DNA-directed RNA polymerase, alpha subunit [Desulfovibrio aespoeensis Aspo-2] Length = 346 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 152/336 (45%), Positives = 222/336 (66%), Gaps = 3/336 (0%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +NW EL+KP + + G+ I EPL RG+A T+GNA+RRVL+SS++G AI A Sbjct: 13 RNWSELVKPEKL--MRDGKSNIRYGKFICEPLERGYATTIGNAMRRVLLSSMQGCAIVAA 70 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I+GV HE +++ GV ED+T+++LN+K + + M+ D +R+ + G V AG IQ Sbjct: 71 SIEGVQHEFTTLPGVLEDMTEVVLNLKQVRIAMTTDEPQRLVLEADKKGQVIAGMIQENQ 130 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++ +LN D +I L D ++MEL V G GYVPA H + IG + +DA YSP+KKV Sbjct: 131 NVRILNTDQLIATLTEDRPLKMELEVRMGKGYVPADMHEGLTEEIGAVILDASYSPVKKV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE AR GQ+ +YDKL + + TDGS+T ED+ A +++IL+DQL +FINF+E E E Sbjct: 191 AYSVEQARVGQMTNYDKLILEVWTDGSVTPEDACAYSAKILKDQLSVFINFDELSSETME 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ NP L K ++ELELSVR+TNCL+ NI +G+L+QRTE ML+ NFGRKSL Sbjct: 251 EVDSSID-LNPNLFKSIDELELSVRATNCLKAANIQLVGELVQRTEQAMLKTKNFGRKSL 309 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI+ VL +M L GM + D+ + E L +K +++ Sbjct: 310 DEIRRVLDSMSLKFGMGVEDFDKKYQEWLKRKEKNE 345 >gi|145596406|ref|YP_001160703.1| DNA-directed RNA polymerase subunit alpha [Salinispora tropica CNB-440] gi|145305743|gb|ABP56325.1| DNA-directed RNA polymerase, alpha subunit [Salinispora tropica CNB-440] Length = 354 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 121/312 (38%), Positives = 189/312 (60%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 23 LSEESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPG 82 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L Sbjct: 83 VKEDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATL 142 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D Sbjct: 143 NGKGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTD 202 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + +++ S+ ++A A L + G+ +E + + + + L Sbjct: 203 FDRLIIDVESKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLA 262 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 263 LPIEELDLTVRSYNCLKREGINTVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGL 322 Query: 318 GMNLPDWPPESI 329 + P++ P ++ Sbjct: 323 KDSAPNFDPANV 334 >gi|212716586|ref|ZP_03324714.1| hypothetical protein BIFCAT_01515 [Bifidobacterium catenulatum DSM 16992] gi|225351019|ref|ZP_03742042.1| hypothetical protein BIFPSEUDO_02601 [Bifidobacterium pseudocatenulatum DSM 20438] gi|212660290|gb|EEB20865.1| hypothetical protein BIFCAT_01515 [Bifidobacterium catenulatum DSM 16992] gi|225158475|gb|EEG71717.1| hypothetical protein BIFPSEUDO_02601 [Bifidobacterium pseudocatenulatum DSM 20438] Length = 332 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 187/322 (58%), Gaps = 5/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVP 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDMHIATLAEDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMAVPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMN-LPDWPPESIE 330 L ++GL L + L ++ ++E Sbjct: 301 LQSLGLALKASPLGNFDTNNLE 322 >gi|161506898|ref|YP_001576852.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus DPC 4571] gi|172048388|sp|A8YXN0|RPOA_LACH4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|160347887|gb|ABX26561.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus helveticus DPC 4571] Length = 312 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + ME+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDMTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|300857219|ref|YP_003782203.1| DNA-directed RNA polymerase subunit alpha [Clostridium ljungdahlii DSM 13528] gi|300437334|gb|ADK17101.1| DNA-directed RNA polymerase alpha chain [Clostridium ljungdahlii DSM 13528] Length = 315 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ N + EPL RG+ TLGNALRR+L+SSL G A ++IDG Sbjct: 3 EIEKP-KIECVET-SEDGNYGKFVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+ ++ILNIK + LKM+G+ K + I +GPG V AGDI+T D+E+ Sbjct: 61 VLHEFSTIRGVKEDVAELILNIKELALKMNGEGPKTIYIDAQGPGEVVAGDIKTDGDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ V+ G GYV + +++E+ PIG I +D++Y+PIK+V++ V Sbjct: 121 INKDLHIATLDDDGKLYMEIAVNGGRGYVSQRKNKSEDMPIGTIPVDSIYTPIKRVNFAV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I +++V+L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSLEVWTNGTILPDEAVSLSAKILIEHFKLFMTLTDHANNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 QKLDALGLSLKQS 313 >gi|73667205|ref|YP_303221.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia canis str. Jake] gi|90110840|sp|Q3YRN2|RPOA_EHRCJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|72394346|gb|AAZ68623.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia canis str. Jake] Length = 372 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 171/342 (50%), Positives = 240/342 (70%), Gaps = 5/342 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWSKLTKPSSIKVESNG-ASPNKADLIVEPLESGFALTLGNALRRVMMSSLRGFAVY 90 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI + +K+SG S+K +++ +GP V +G I Sbjct: 91 GVEIENVLHEFTSISGVREDVTDILLNISMMRVKLSGLSNKVLSLRVKGPCEVRSGMIPD 150 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT----ENDPIGLITIDALY 177 +D +LN D +IC LD D +++ V+ G GYVPA ++ + P+ I +ALY Sbjct: 151 TDDCIILNKDLLICTLDQDVDFNIKMYVNSGKGYVPAVKRKSVSKLSDVPVNFIATNALY 210 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPIKK S+ VES+R GQ DYD+L ++++TDGSI +++VALA+RILQDQ FINF+E Sbjct: 211 SPIKKASFKVESSRIGQFTDYDRLVLSVETDGSILPDEAVALAARILQDQFQPFINFDET 270 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + K+ +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR N Sbjct: 271 DEPHKKIDTKDALPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRTPN 330 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 331 FGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 372 >gi|77165763|ref|YP_344288.1| DNA-directed RNA polymerase subunit alpha [Nitrosococcus oceani ATCC 19707] gi|254434921|ref|ZP_05048429.1| DNA-directed RNA polymerase, alpha subunit [Nitrosococcus oceani AFC27] gi|90110852|sp|Q3J8T8|RPOA_NITOC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|76884077|gb|ABA58758.1| DNA-directed RNA polymerase subunit alpha [Nitrosococcus oceani ATCC 19707] gi|207091254|gb|EDZ68525.1| DNA-directed RNA polymerase, alpha subunit [Nitrosococcus oceani AFC27] Length = 332 Score = 352 bits (904), Expect = 4e-95, Method: Composition-based stats. Identities = 145/333 (43%), Positives = 213/333 (63%), Gaps = 9/333 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +KP ++ + + T + EPL RGF HTLGNALRR+L+SS+ G AI QI Sbjct: 3 VSNFLKPRIVDVQRI---NDYATKVTLEPLERGFGHTLGNALRRILLSSMPGCAIIEAQI 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE ++ +GV ED+T+I+LN+KG+ +K+ G + + +GP VTAGDIQ +D+ Sbjct: 60 DGVLHEYTTKEGVQEDMTEILLNLKGVAVKLHGRDEVTLNLSSKGPVTVTAGDIQLEHDV 119 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH---RTENDPIGLITIDALYSPIKK 182 EV+NP+HVI +L + + + V +G GY A + IG + +DA +SPI++ Sbjct: 120 EVINPEHVIAHLTKSGELNLTMKVVRGRGYQSASMRIPKEEDERSIGHLILDASFSPIRR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y V+SAR Q D DKL + I+T+G+I +++V A+ ILQDQL F+ E + +++ Sbjct: 180 VTYEVDSARVEQRTDLDKLIIEIETNGTIAPDEAVRKAATILQDQLTAFV---ELEGKIE 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N G+KS Sbjct: 237 TAKEKKAAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQKTEVELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 L EIK VL GL LGM L +WPP + E K Sbjct: 297 LTEIKDVLTLRGLSLGMRLENWPPAGLREEETK 329 >gi|282855170|ref|ZP_06264502.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes J139] gi|289427589|ref|ZP_06429301.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes J165] gi|295131352|ref|YP_003582015.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes SK137] gi|282581758|gb|EFB87143.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes J139] gi|289159080|gb|EFD07272.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes J165] gi|291375859|gb|ADD99713.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes SK137] gi|313773118|gb|EFS39084.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL074PA1] gi|313810401|gb|EFS48115.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL083PA1] gi|313812263|gb|EFS49977.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL025PA1] gi|313817984|gb|EFS55698.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL046PA2] gi|313819897|gb|EFS57611.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL036PA1] gi|313823388|gb|EFS61102.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL036PA2] gi|313824859|gb|EFS62573.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL063PA1] gi|313830101|gb|EFS67815.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL007PA1] gi|313832627|gb|EFS70341.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL056PA1] gi|314925754|gb|EFS89585.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL036PA3] gi|314960834|gb|EFT04935.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL002PA2] gi|314964876|gb|EFT08975.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL082PA2] gi|314973050|gb|EFT17146.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL053PA1] gi|314975546|gb|EFT19641.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL045PA1] gi|314979765|gb|EFT23859.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL072PA2] gi|314982217|gb|EFT26310.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL110PA3] gi|314984829|gb|EFT28921.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL005PA1] gi|314986088|gb|EFT30180.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL005PA2] gi|314988703|gb|EFT32794.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL005PA3] gi|315079863|gb|EFT51839.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL078PA1] gi|315083183|gb|EFT55159.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL027PA2] gi|315086863|gb|EFT58839.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL002PA3] gi|315089955|gb|EFT61931.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL072PA1] gi|315090477|gb|EFT62453.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL110PA4] gi|315093710|gb|EFT65686.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL060PA1] gi|315096723|gb|EFT68699.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL038PA1] gi|315104002|gb|EFT75978.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL050PA2] gi|327325137|gb|EGE66943.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL096PA3] gi|327325234|gb|EGE67039.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL096PA2] gi|327325530|gb|EGE67329.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL103PA1] gi|327444034|gb|EGE90688.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL043PA1] gi|327449338|gb|EGE95992.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL013PA2] gi|327449434|gb|EGE96088.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL043PA2] gi|328756317|gb|EGF69933.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL020PA1] gi|328761349|gb|EGF74876.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL099PA1] Length = 338 Score = 352 bits (903), Expect = 4e-95, Method: Composition-based stats. Identities = 123/329 (37%), Positives = 187/329 (56%), Gaps = 4/329 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G VTA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +GL L + P + P + E + D Sbjct: 301 LTELGLALKDSAPGFDPLAAAEAYDEAND 329 >gi|153952889|ref|YP_001393654.1| DNA-directed RNA polymerase subunit alpha [Clostridium kluyveri DSM 555] gi|219853554|ref|YP_002470676.1| hypothetical protein CKR_0211 [Clostridium kluyveri NBRC 12016] gi|189043836|sp|A5N4S5|RPOA_CLOK5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765249|sp|B9DYD7|RPOA_CLOK1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146345770|gb|EDK32306.1| RpoA [Clostridium kluyveri DSM 555] gi|219567278|dbj|BAH05262.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 315 Score = 352 bits (903), Expect = 4e-95, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 209/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ N + EPL RG+ TLGNALRR+L+SSL G A + V+IDG Sbjct: 3 EIEKP-KIECVET-SEDGNYGKFVVEPLERGYGTTLGNALRRILLSSLPGVAASHVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED++++ILNIK + LKM+GD K + I +GPG V AGDI+T D+E+ Sbjct: 61 VLHEFSTVRGVKEDVSELILNIKELALKMNGDGTKTIYIDAQGPGEVVAGDIKTDGDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N + I LD ++ + ME+TV+ G GYV + ++ E+ PIG I +D++Y+PIK+V++ V Sbjct: 121 INGELHIATLDENSRLYMEITVNGGRGYVSQRRNKFEDMPIGTIPVDSIYTPIKRVNFNV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I +++V+L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSLEVWTNGTILPDEAVSLSAKILIEHFKLFMTLTDHANNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMAIEELDLSVRSYNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L T+GL L N Sbjct: 301 QKLDTLGLSLKQN 313 >gi|58336655|ref|YP_193240.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus acidophilus NCFM] gi|227903213|ref|ZP_04021018.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus acidophilus ATCC 4796] gi|75433035|sp|Q5FM65|RPOA_LACAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|58253972|gb|AAV42209.1| RNA-polymerase DNA-directed [Lactobacillus acidophilus NCFM] gi|227869018|gb|EEJ76439.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus acidophilus ATCC 4796] Length = 312 Score = 352 bits (903), Expect = 4e-95, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMELAVKNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|257069480|ref|YP_003155735.1| DNA-directed RNA polymerase subunit alpha [Brachybacterium faecium DSM 4810] gi|256560298|gb|ACU86145.1| DNA-directed RNA polymerase subunit alpha [Brachybacterium faecium DSM 4810] Length = 331 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 119/330 (36%), Positives = 193/330 (58%), Gaps = 4/330 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ENR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVV----SENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T++ILNIK + + D + + + G VTA DI +E+ N Sbjct: 61 HEFSTVPGVKEDITEVILNIKNLVVSSENDEPVVMYLRREEAGRVTAADITPPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +EL V +G GYV A ++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNEKGRLEIELIVERGRGYVSAAQNKGVDGEIGRVPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A + L + G+ + + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKPAISPRDAVASAGKTLVELFGLAHELNQEAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L + +L L+VRS NCL E + +G+L R+EAD+L + NFG+KS+ E+K Sbjct: 241 QALAADLALPINDLNLTVRSYNCLMREGVHTVGELTARSEADLLDIRNFGQKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + + P +++ + + D+ Sbjct: 301 LADLGLSLKDSPAGFDPSALDSYSDDFGDQ 330 >gi|268318877|ref|YP_003292533.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus johnsonii FI9785] gi|262397252|emb|CAX66266.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus johnsonii FI9785] Length = 312 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEEAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K I GP +VTA D++ +DIEV Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVTGPAIVTAADLKVDSDIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC++ + M + + G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICSIADGGHLHMNVAIKTGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ESAR G+ DYDKL++ I TDGSIT D+++ A++IL + +F++ + + + Sbjct: 179 ESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDDKNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELTDKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|227879268|ref|ZP_03997138.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus crispatus JV-V01] gi|256844455|ref|ZP_05549941.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus 125-2-CHN] gi|256849157|ref|ZP_05554590.1| RNA-polymerase DNA-directed [Lactobacillus crispatus MV-1A-US] gi|262047173|ref|ZP_06020131.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus MV-3A-US] gi|295692185|ref|YP_003600795.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus ST1] gi|227861162|gb|EEJ68811.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus crispatus JV-V01] gi|256613533|gb|EEU18736.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus 125-2-CHN] gi|256713933|gb|EEU28921.1| RNA-polymerase DNA-directed [Lactobacillus crispatus MV-1A-US] gi|260572418|gb|EEX28980.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus MV-3A-US] gi|295030291|emb|CBL49770.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus crispatus ST1] Length = 312 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 195/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDIEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMELAVKNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANAKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDKTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|323465848|gb|ADX69535.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus H10] Length = 312 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDFEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + ME+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDMTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|183601970|ref|ZP_02963339.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis HN019] gi|219682882|ref|YP_002469265.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis AD011] gi|241190459|ref|YP_002967853.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis Bl-04] gi|241195865|ref|YP_002969420.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis DSM 10140] gi|183218855|gb|EDT89497.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis HN019] gi|219620532|gb|ACL28689.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium animalis subsp. lactis AD011] gi|240248851|gb|ACS45791.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis Bl-04] gi|240250419|gb|ACS47358.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis DSM 10140] gi|289178183|gb|ADC85429.1| DNA-directed RNA polymerase alpha chain [Bifidobacterium animalis subsp. lactis BB-12] gi|295793446|gb|ADG32981.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium animalis subsp. lactis V9] Length = 331 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 123/321 (38%), Positives = 186/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ G+ ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGIEEDVTEILLNIKGIVLTSEYDEPVVMYLRKAGSGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDLHIATLAEDGELEIEFTVERGRGYVPAQMNKQDGDEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEIGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +P + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EQADPGMSVPIEDLNLTQRSYNCLKREGIHTVGELVNHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L ++GL L + + ++E Sbjct: 301 LQSLGLSLKSSPLGFDTNNLE 321 >gi|88658298|ref|YP_507250.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia chaffeensis str. Arkansas] gi|88599755|gb|ABD45224.1| DNA-directed RNA polymerase, alpha subunit [Ehrlichia chaffeensis str. Arkansas] Length = 341 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 172/342 (50%), Positives = 239/342 (69%), Gaps = 5/342 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 1 MSDHWSKLTKPSSIKVVPSG-ASPNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI + +K+SG + K +++ +GP V +G I Sbjct: 60 GVEIENVLHEFTSISGVREDVTDILLNISMMRVKLSGMNSKVLSLKVKGPCEVRSGMIPD 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDALY 177 +D +LN D +IC LD +++ V+ G GYVPA ++ N PI I +ALY Sbjct: 120 TDDCIILNKDLLICTLDQGVDFNIKMYVNAGKGYVPAVKRKSVNKLGDIPINFIATNALY 179 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPIKK S+ VES+R GQ DYD+L M+++TDGSI +++VALA+RILQDQ FINF+E Sbjct: 180 SPIKKASFKVESSRIGQFTDYDRLIMSVETDGSILPDEAVALAARILQDQFQPFINFDET 239 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + K+ +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR N Sbjct: 240 DEPHKKVDAKDTLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRTPN 299 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 FGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 300 FGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 341 >gi|256852062|ref|ZP_05557449.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 27-2-CHN] gi|260661369|ref|ZP_05862282.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 115-3-CHN] gi|282932823|ref|ZP_06338223.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 208-1] gi|297205063|ref|ZP_06922459.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus jensenii JV-V16] gi|256615474|gb|EEU20664.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 27-2-CHN] gi|260547824|gb|EEX23801.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 115-3-CHN] gi|281303052|gb|EFA95254.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 208-1] gi|297149641|gb|EFH29938.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus jensenii JV-V16] Length = 313 Score = 352 bits (903), Expect = 5e-95, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 197/311 (63%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E+ + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEDAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T I+LN+K + LK D K V + GP VTAGD++ +++ V Sbjct: 59 VLHEFSTIPGVREDVTKIVLNLKKLELKSVADEEKIVELDVEGPATVTAGDLKVDSEVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M++ V G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTVAEGGHLHMQIAVKNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDIN 246 ES R G+ DYDKL++ + TDGSIT D+++ AS+IL + +F + + + Sbjct: 179 ESTRVGKRDDYDKLTLEVWTDGSITPSDALSFASKILIEHFKVFKFSDAQTDFGGEVMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L ++E+DM+R+ N GRKSL E+ Sbjct: 239 KEDDKKERQLEMTIEELDLSVRSYNCLKRAGINTLQELTDKSESDMMRVRNLGRKSLEEV 298 Query: 307 KGVLGTMGLFL 317 K L +GL L Sbjct: 299 KNKLADLGLSL 309 >gi|154486773|ref|ZP_02028180.1| hypothetical protein BIFADO_00598 [Bifidobacterium adolescentis L2-32] gi|154084636|gb|EDN83681.1| hypothetical protein BIFADO_00598 [Bifidobacterium adolescentis L2-32] Length = 332 Score = 351 bits (902), Expect = 6e-95, Method: Composition-based stats. Identities = 125/322 (38%), Positives = 187/322 (58%), Gaps = 5/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I GV Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGVP 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + +E TV +G GYVPA+ ++ +N IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDMHIATLAEDGELEIEFTVERGRGYVPAQMNKQDNAEIGRIPVDSIYSPVLKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNTQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMNIPIEDLNLTQRSYNCLKREGIHTIGELVAHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMN-LPDWPPESIE 330 L ++GL L + L ++ ++E Sbjct: 301 LQSLGLALKASPLGNFDTNNLE 322 >gi|269796227|ref|YP_003315682.1| DNA-directed RNA polymerase subunit alpha [Sanguibacter keddieii DSM 10542] gi|269098412|gb|ACZ22848.1| DNA-directed RNA polymerase subunit alpha [Sanguibacter keddieii DSM 10542] Length = 334 Score = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 196/323 (60%), Gaps = 4/323 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVI----SESRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+IILN+K + + D + + K+G GVVTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTEIILNVKNLVVSSENDEPVVMYLRKQGSGVVTAADIVPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +ELTV +G GYV A+ +++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELTVERGRGYVSAQQNKSFDAEIGRVPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLQLTIRSYNCLKREGIHAVGELVARSEADLLDIRNFGAKSINEVKDK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEEL 332 L +GL L + D+ P + + Sbjct: 301 LAELGLSLKDSPLDFDPTTADYY 323 >gi|88854650|ref|ZP_01129316.1| DNA-directed RNA polymerase alpha subunit [marine actinobacterium PHSC20C1] gi|88815811|gb|EAR25667.1| DNA-directed RNA polymerase alpha subunit [marine actinobacterium PHSC20C1] Length = 331 Score = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 118/316 (37%), Positives = 187/316 (59%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN++RR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLAE----ENISEFRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T++ILNIK + + D + K+G G VTA DI +E+ N Sbjct: 61 HEFSTVAGVKEDVTEVILNIKNLVVSSEHDEPITAYLRKQGAGEVTAADISAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ Sbjct: 121 PELVIATLNDKAKFELELTIERGRGYVTATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T +IT D++A A R L + G+ + ++ Sbjct: 181 TRAGERTDFDRLVVDVETKSAITPRDAIASAGRTLTELFGLARELNTAAEGIEIGPAPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ Sbjct: 241 AVLSTELSMPIEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L MGL L ++P + Sbjct: 301 LVEMGLSLKDSVPGFD 316 >gi|229917331|ref|YP_002885977.1| DNA-directed RNA polymerase subunit alpha [Exiguobacterium sp. AT1b] gi|229468760|gb|ACQ70532.1| DNA-directed RNA polymerase, alpha subunit [Exiguobacterium sp. AT1b] Length = 314 Score = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 198/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TAVQIDG Sbjct: 3 EIEKP-KIETVEI-SEDATFGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTAVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T I+LN+K + LK+ + K + I G VTA DI +D+E+ Sbjct: 61 VLHEFSTIDGVVEDVTQIVLNLKKLALKVYSEEEKTLEINVSSAGAVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I L +A +RM LT +G GYV A+ ++ ++ PIG+I ID++Y+PI++V+Y V Sbjct: 121 LNPELHIATLADNATLRMRLTARRGRGYVQAEDNKRDDMPIGVIPIDSIYTPIQRVNYEV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + R GQ +DKL + + TDGSI E++V+L ++IL + L +F+ + + + Sbjct: 181 DKTRVGQDASFDKLLLDVWTDGSIRPEEAVSLGAKILTEHLNIFVGLTDEALNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKSEEEMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 HKLDELGLGL 310 >gi|281415637|ref|ZP_06247379.1| DNA-directed RNA polymerase subunit alpha [Micrococcus luteus NCTC 2665] Length = 334 Score = 351 bits (902), Expect = 7e-95, Method: Composition-based stats. Identities = 121/318 (38%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 7 QRPTLTEEVV----SDHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 62 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIK +++ D + K+G GVVTA DI +E+ N Sbjct: 63 HEFSTVNGVKEDVTEIILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHN 122 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 123 PDLHIATLNAKGKFDMELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEA 182 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T ++ D+VA A L + G+ + + + + Sbjct: 183 TRVEQRTDFDRLILDVETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEV 242 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + L + +EELEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 243 VEGSADLAQPIEELELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEK 302 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + + P+ Sbjct: 303 LQELGLSLKDSPAGYDPQ 320 >gi|239918173|ref|YP_002957731.1| DNA-directed RNA polymerase, alpha subunit [Micrococcus luteus NCTC 2665] gi|289706559|ref|ZP_06502909.1| DNA-directed RNA polymerase, alpha subunit [Micrococcus luteus SK58] gi|239839380|gb|ACS31177.1| DNA-directed RNA polymerase, alpha subunit [Micrococcus luteus NCTC 2665] gi|289556694|gb|EFD50035.1| DNA-directed RNA polymerase, alpha subunit [Micrococcus luteus SK58] Length = 332 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 121/318 (38%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V ++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPTLTEEVV----SDHRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIK +++ D + K+G GVVTA DI +E+ N Sbjct: 61 HEFSTVNGVKEDVTEIILNIKKLSVSSENDEPVVAYLRKQGAGVVTAADITAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNAKGKFDMELTIERGRGYVTAAQNKSADAEIGRIPVDSIYSPVLKVTFKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T ++ D+VA A L + G+ + + + + Sbjct: 181 TRVEQRTDFDRLILDVETKENMLPRDAVASAGSTLVELFGLARSLNVEAEGIDLGDEPEV 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + L + +EELEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 VEGSADLAQPIEELELTVRSYNCLKREGIHTVGELVGRSEADLMDIRNFGAKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + + P+ Sbjct: 301 LQELGLSLKDSPAGYDPQ 318 >gi|23097600|ref|NP_691066.1| DNA-directed RNA polymerase subunit alpha [Oceanobacillus iheyensis HTE831] gi|33301658|sp|Q8ETV9|RPOA_OCEIH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|22775823|dbj|BAC12101.1| DNA-directed RNA polymerase alpha subunit [Oceanobacillus iheyensis HTE831] Length = 314 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 200/313 (63%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E + EPL RG+ TLGN+LRR+L+SSL GAA+T VQIDG Sbjct: 3 EIEKP-KIETVEI-SENATFGKFVVEPLERGYGATLGNSLRRILLSSLPGAAVTTVQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S++ GV ED+T IILN+K + LK+ + K + I +G G VTA D+ +D+EV Sbjct: 61 ALHEFSTVDGVVEDVTTIILNLKKLALKIYSEEPKTLEIDVQGEGAVTAADLTYDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ + M+L +G GY PA+ ++ ++ PIG+I ID++++P+ +V+Y V Sbjct: 121 MNPDLHIATLNSKGNLHMKLIAERGRGYRPAEENKNDDQPIGVIPIDSIFTPVSRVTYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQV +YDKL+M + TDGSI E++V+L ++I+ + L +F+ + + + + Sbjct: 181 ENTRVGQVANYDKLTMDVSTDGSIRPEEAVSLGAKIITEHLNIFVGLTDEAQNAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVMEMTIEELDLSVRSYNCLKRAGINTVQELANKSEEDMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 VKLEDLGLGLRDD 313 >gi|23466156|ref|NP_696759.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum NCC2705] gi|46190439|ref|ZP_00121528.2| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Bifidobacterium longum DJO10A] gi|189440595|ref|YP_001955676.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum DJO10A] gi|213693062|ref|YP_002323648.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium longum subsp. infantis ATCC 15697] gi|227546502|ref|ZP_03976551.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239621036|ref|ZP_04664067.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. infantis CCUG 52486] gi|296454844|ref|YP_003661988.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. longum JDM301] gi|312133900|ref|YP_004001239.1| rpoa [Bifidobacterium longum subsp. longum BBMN68] gi|317483424|ref|ZP_07942414.1| DNA-directed RNA polymerase [Bifidobacterium sp. 12_1_47BFAA] gi|322689903|ref|YP_004209637.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. infantis 157F] gi|322691844|ref|YP_004221414.1| DNA-directed RNA polymerase alpha subunit [Bifidobacterium longum subsp. longum JCM 1217] gi|41688707|sp|Q8G3Z3|RPOA_BIFLO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|23326893|gb|AAN25395.1| DNA-directed RNA polymerase alpha chain [Bifidobacterium longum NCC2705] gi|189429030|gb|ACD99178.1| DNA-directed RNA polymerase alpha subunit [Bifidobacterium longum DJO10A] gi|213524523|gb|ACJ53270.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium longum subsp. infantis ATCC 15697] gi|227213051|gb|EEI80930.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. infantis ATCC 55813] gi|239516137|gb|EEQ56004.1| DNA-directed RNA polymerase subunit alpha [Bifidobacterium longum subsp. infantis CCUG 52486] gi|296184276|gb|ADH01158.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium longum subsp. longum JDM301] gi|311773194|gb|ADQ02682.1| RpoA [Bifidobacterium longum subsp. longum BBMN68] gi|316915110|gb|EFV36542.1| DNA-directed RNA polymerase [Bifidobacterium sp. 12_1_47BFAA] gi|320456700|dbj|BAJ67322.1| DNA-directed RNA polymerase alpha subunit [Bifidobacterium longum subsp. longum JCM 1217] gi|320459240|dbj|BAJ69861.1| DNA-directed RNA polymerase alpha subunit [Bifidobacterium longum subsp. infantis ATCC 15697] gi|320461239|dbj|BAJ71859.1| DNA-directed RNA polymerase alpha subunit [Bifidobacterium longum subsp. infantis 157F] Length = 331 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 185/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G AGDI + + N Sbjct: 61 HEFTTLPGVQEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEAVAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L D + +E TV +G GYVPA+ ++ +ND IG I +D++YSP+ KVSY VE+ Sbjct: 121 PEQHIATLADDGELEIEFTVERGRGYVPAQMNKQDNDEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNAQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMAVPIEDLNLTQRSYNCLKREGIHTIGELVSHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L T+GL L + + ++E Sbjct: 301 LQTLGLSLKSSPMAFDTNNLE 321 >gi|238855094|ref|ZP_04645422.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 269-3] gi|260664879|ref|ZP_05865730.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii SJ-7A-US] gi|282931913|ref|ZP_06337385.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 208-1] gi|313472571|ref|ZP_07813060.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 1153] gi|238832338|gb|EEQ24647.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 269-3] gi|239530011|gb|EEQ69012.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 1153] gi|260561362|gb|EEX27335.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii SJ-7A-US] gi|281303965|gb|EFA96095.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus jensenii 208-1] Length = 313 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 135/311 (43%), Positives = 197/311 (63%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E+ + EPL RGF TLGN+LRRVL++S+ G A++ +QIDG Sbjct: 3 EFEKPN----ITVVDQEDAYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T I+LN+K + LK D K V + GP VTAGD++ +++ V Sbjct: 59 VLHEFSTVPGVREDVTKIVLNLKKLELKSIADEEKIVELDVEGPATVTAGDLKVDSEVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M++ V G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTVAEGGHLHMQIAVKNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKEDIN 246 ES R G+ DYDKL++ + TDGSIT D+++ AS+IL + +F + + + Sbjct: 179 ESTRVGKKDDYDKLTLEVWTDGSITPSDALSFASKILIEHFKVFKFSDAQTDFGGEVMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L ++E+DM+R+ N GRKSL E+ Sbjct: 239 KEDDKKERQLEMTIEELDLSVRSYNCLKRAGINTLQELTDKSESDMMRVRNLGRKSLEEV 298 Query: 307 KGVLGTMGLFL 317 K L +GL L Sbjct: 299 KNKLADLGLSL 309 >gi|148273768|ref|YP_001223329.1| DNA-directed RNA polymerase subunit alpha [Clavibacter michiganensis subsp. michiganensis NCPPB 382] gi|166229268|sp|A5CU80|RPOA_CLAM3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|147831698|emb|CAN02667.1| DNA-directed RNA polymerase alpha chain [Clavibacter michiganensis subsp. michiganensis NCPPB 382] Length = 331 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 187/316 (59%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----ESISEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIKG+ + D + K+G G VTA DI +E+ N Sbjct: 61 HEFSTVPGVKEDVTEIILNIKGLVVSSEHDEPITAYLRKQGAGQVTAADISAPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ A +ELT+ +G GYV A +R+E G I +D++YSP+ KV+Y VE+ Sbjct: 121 PELVIATLNEKAKFELELTIERGRGYVSATQNRSEFSEAGQIPVDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T +IT D++A A R L + G+ + ++ Sbjct: 181 TRAGERTDFDRLVVDVETKSAITPRDAIASAGRTLTELFGLARELNSAAEGIEIGPAPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E+K Sbjct: 241 AVLSSELSMPIEDLDLSVRSYNCLKREGINNVSELVALSETQLMNIRNFGQKSVDEVKDK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L +P + Sbjct: 301 LVELGLSLKDAVPGFD 316 >gi|330470144|ref|YP_004407887.1| DNA-directed RNA polymerase subunit alpha [Verrucosispora maris AB-18-032] gi|328813115|gb|AEB47287.1| DNA-directed RNA polymerase subunit alpha [Verrucosispora maris AB-18-032] Length = 340 Score = 351 bits (901), Expect = 8e-95, Method: Composition-based stats. Identities = 125/320 (39%), Positives = 190/320 (59%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I GV ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V N Sbjct: 61 HEFTTIPGVKEDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLKLATLNGKGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+ ++A A L + G+ +E + + + + Sbjct: 181 TRVEQRTDFDRLIIDVETKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K Sbjct: 241 AQLAADLALPIEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L MGL L + P++ P + Sbjct: 301 LAGMGLGLKDSAPNFDPAHV 320 >gi|238061094|ref|ZP_04605803.1| DNA-directed RNA polymerase, alpha subunit [Micromonospora sp. ATCC 39149] gi|302869942|ref|YP_003838579.1| DNA-directed RNA polymerase subunit alpha [Micromonospora aurantiaca ATCC 27029] gi|315501403|ref|YP_004080290.1| DNA-directed RNA polymerase, alpha subunit [Micromonospora sp. L5] gi|237882905|gb|EEP71733.1| DNA-directed RNA polymerase, alpha subunit [Micromonospora sp. ATCC 39149] gi|302572801|gb|ADL49003.1| DNA-directed RNA polymerase, alpha subunit [Micromonospora aurantiaca ATCC 27029] gi|315408022|gb|ADU06139.1| DNA-directed RNA polymerase, alpha subunit [Micromonospora sp. L5] Length = 340 Score = 351 bits (901), Expect = 9e-95, Method: Composition-based stats. Identities = 123/312 (39%), Positives = 188/312 (60%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 9 LSEESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L Sbjct: 69 VKEDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D Sbjct: 129 NGKGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLKVTYRVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + ++T S+ ++A A L + G+ +E + + + + L Sbjct: 189 FDRLIIDVETKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 249 LPIEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGL 308 Query: 318 GMNLPDWPPESI 329 + P++ P + Sbjct: 309 KDSAPNFDPAHV 320 >gi|81429352|ref|YP_396353.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus sakei subsp. sakei 23K] gi|90110847|sp|Q38UT7|RPOA_LACSS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78610995|emb|CAI56047.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus sakei subsp. sakei 23K] Length = 312 Score = 351 bits (901), Expect = 9e-95, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E N + EPL RG+ TLGN+LRR+L++SL G A+T +QIDG Sbjct: 3 EFEKPNITKV----DESTNYGKFVVEPLERGYGTTLGNSLRRILLASLPGTAVTDIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIK + LK+ + K + I +GP VTA DI + +D+EV Sbjct: 59 VLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDKTIEIDVKGPATVTAADIISDDDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC + + +TV KG GYV A +++++ PIG++ ID++Y+PI +V+Y V Sbjct: 119 LNTDQYICTVAEGGNFHVRMTVKKGRGYVAAVQNKSDDMPIGVLPIDSIYTPISRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ + K + + Sbjct: 179 ESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVDLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 239 EETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTDKSEADMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLFDLGLGL 308 >gi|308171338|gb|ADO15988.1| RpoA [Vibrio caribbenthicus] Length = 323 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 141/329 (42%), Positives = 215/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MRGSVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +++LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|294790438|ref|ZP_06755596.1| DNA-directed RNA polymerase, alpha subunit [Scardovia inopinata F0304] gi|294458335|gb|EFG26688.1| DNA-directed RNA polymerase, alpha subunit [Scardovia inopinata F0304] Length = 331 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 127/323 (39%), Positives = 189/323 (58%), Gaps = 8/323 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + Q R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ G Sbjct: 9 LTEEQVTPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTTLPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T+I+LNIK + L D + + K G G TA DI + + NPD I L Sbjct: 69 VKEDVTEILLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVIANPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY VE+ R Q D Sbjct: 129 AEDGELEIEFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVVKVSYKVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T +IT D+VA A L + G+F + V+ + +P + Sbjct: 189 FDKLIVDVETKPAITPRDAVASAGSTLVELFGLFHELNNQAEGVEVGPAPVTEEVDPQME 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L L+ RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 249 IPIEDLNLTQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKDKLASMGLSL 308 Query: 318 G--------MNLPDWPPESIEEL 332 ++L D S E+L Sbjct: 309 KQSPLGLGQIDLDDSNFFSPEDL 331 >gi|308235469|ref|ZP_07666206.1| DNA-directed RNA polymerase subunit alpha [Gardnerella vaginalis ATCC 14018] gi|311115142|ref|YP_003986363.1| DNA-directed RNA polymerase subunit alpha [Gardnerella vaginalis ATCC 14019] gi|310946636|gb|ADP39340.1| DNA-directed RNA polymerase subunit alpha [Gardnerella vaginalis ATCC 14019] Length = 331 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 183/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + N Sbjct: 61 HEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L D + +E TV +G GYVPA+ ++ EN IG I +D++YSP+ KVSY VE+ Sbjct: 121 PEMHIATLAEDGELEIEFTVERGRGYVPAQMNKQENSEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +IT D+VA A L + G+ + V+ Sbjct: 181 TRVEQRTDFDKLILDVETKPAITPRDAVASAGSTLVELFGLCRELNVDAEGVEVGPAPVM 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + +E+L L+ RS NCL+ E I +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 GEVDSQMATPIEDLNLTQRSYNCLKREGIHTVGELVVHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +MGL L + + ++E Sbjct: 301 LQSMGLSLKASPLGFDANNLE 321 >gi|258651412|ref|YP_003200568.1| DNA-directed RNA polymerase subunit alpha [Nakamurella multipartita DSM 44233] gi|258554637|gb|ACV77579.1| DNA-directed RNA polymerase, alpha subunit [Nakamurella multipartita DSM 44233] Length = 360 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 121/318 (38%), Positives = 187/318 (58%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +NR+ I EPL GF +TLGN+LRR L+SS+ GA++T++++DGVL Sbjct: 5 QRPSLTE----EPVADNRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T++ILN+K + + D + + K+GPG VTA DI + V N Sbjct: 61 HEFTTVPGVKEDITELILNLKELVVSSEDDEPVTMYLRKQGPGDVTAADIAPPAGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + L + +EL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 SDLKLATLTKKGKLEIELVVERGRGYVPASPNKVVGAEIGRIPVDSIYSPVLKVTYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SIT D++A A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLVLDVETKPSITPRDALASAGTTLVELFGLARELNVDAEGIEIGPSPAE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 A +EE++L+VRS NCL+ E I +G+L+ RTEAD+L + NFG+KS+ E+K Sbjct: 241 ADHIAAFGLPIEEMDLTVRSYNCLKREGIHTVGELVSRTEADLLDIRNFGQKSIDEVKIK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + + P Sbjct: 301 LAGMGLALKDSPAGFDPA 318 >gi|220930993|ref|YP_002507901.1| DNA-directed RNA polymerase, alpha subunit [Halothermothrix orenii H 168] gi|219992303|gb|ACL68906.1| DNA-directed RNA polymerase, alpha subunit [Halothermothrix orenii H 168] Length = 314 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 134/311 (43%), Positives = 204/311 (65%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + +N PL RG+ TLGN+LRRVL+SSL GAAIT+V+I+G Sbjct: 3 EIEKPKIEKVEC----TDNYGKFEVAPLERGYGITLGNSLRRVLLSSLPGAAITSVKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED++++ILN+KG+ LK G+ +++T+ G G VTAGD +T DIEV Sbjct: 59 VRHEFSTIPGVVEDVSEVILNLKGVVLKYKGEDIEKITLNCEGEGEVTAGDFKTSGDIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYT 186 +NPDH I L +++E TV G GYV A+ ++ + IGLI ID+ +SPI++ ++ Sbjct: 119 INPDHHIATLAEGGKLQLEATVEFGRGYVTAEENKEHFDRVIGLIPIDSSFSPIERANFK 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQV DYD+L + + T+GSI+ ED+++LA++I+ + L +F+N + +V+ + Sbjct: 179 VENTRVGQVTDYDRLVLEVYTNGSISPEDAISLAAKIMVEHLELFLNLTDEVTDVEIMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + L +EEL+LSVRS+NCL+ I +G+LI +TE D++++ N G+KSL EI Sbjct: 239 KEEEEKDKILDTTIEELDLSVRSSNCLKRAGINTVGELINKTEDDLMKVRNLGKKSLQEI 298 Query: 307 KGVLGTMGLFL 317 K L + L L Sbjct: 299 KEKLNELDLKL 309 >gi|320352939|ref|YP_004194278.1| DNA-directed RNA polymerase subunit alpha [Desulfobulbus propionicus DSM 2032] gi|320121441|gb|ADW16987.1| DNA-directed RNA polymerase subunit alpha [Desulfobulbus propionicus DSM 2032] Length = 346 Score = 351 bits (900), Expect = 1e-94, Method: Composition-based stats. Identities = 154/338 (45%), Positives = 214/338 (63%), Gaps = 5/338 (1%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 KNW LI P +E G + +PL RGFA T+GN+LRR+++SS+RGAAIT+ Sbjct: 12 YKNWHSLISPEKLEVDE-GTLTSRYGKFVCQPLERGFATTIGNSLRRIMLSSIRGAAITS 70 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+I LHE ++I GVHED+ +IILN+K + LK+ G + V + K GPG V AGDI Sbjct: 71 VRIGNALHEFTTIDGVHEDVAEIILNLKQVRLKLHGPESRTVVLEKNGPGRVLAGDINGG 130 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +EV+NP+ VIC + + R EL V G GYVPA+ ++ E IG+I IDA +SPI + Sbjct: 131 AYVEVMNPELVICTVTSETNFRAELEVHWGKGYVPAEQNKKEGQSIGVIPIDAAFSPIIR 190 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y V AR GQ DYD+L+M I+TDGS+ + ++A A++IL++Q+ +FINF E + Sbjct: 191 VQYVVSQARVGQQTDYDRLTMEIETDGSVEPQSALAYAAKILKEQMTIFINFNEEIAKAP 250 Query: 243 E--DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + D + + P L K VE+LELSVRS NCL+ I Y+G L+ +T+A+ML+ NFGR Sbjct: 251 DSLDSDEDGKAYPPFLDKNVEDLELSVRSANCLKNAQIQYIGQLVNKTDAEMLKTKNFGR 310 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK +L L LGM W E+ +K E+ Sbjct: 311 KSLNEIKALLAEHNLTLGMKYEGWVAP--EKREEKLEE 346 >gi|300114711|ref|YP_003761286.1| DNA-directed RNA polymerase subunit alpha [Nitrosococcus watsonii C-113] gi|299540648|gb|ADJ28965.1| DNA-directed RNA polymerase, alpha subunit [Nitrosococcus watsonii C-113] Length = 332 Score = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 145/333 (43%), Positives = 213/333 (63%), Gaps = 9/333 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +KP ++ + + T + EPL RGF HTLGNALRR+L+SS+ G AI QI Sbjct: 3 VSNFLKPRIVDVQRI---NDYATKVTLEPLERGFGHTLGNALRRILLSSMPGCAIIEAQI 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE ++ +GV ED+T+I+LN+KG+ +K+ G +++ +GP VTAGDIQ +D+ Sbjct: 60 DGVLHEYTTKEGVQEDMTEILLNLKGVAIKLHGRDEVTLSLSSKGPVTVTAGDIQLEHDV 119 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 EV+NP HVI +L + + + V +G GY PA + IG + +DA +SPI++ Sbjct: 120 EVINPKHVIAHLTKSGELNLTMKVVRGRGYQPASVRIPKEEDERSIGHLILDASFSPIRR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y V+SAR Q D DKL + I+T+G+I +++V A+ ILQDQL F+ E + ++ Sbjct: 180 VTYEVDSARVEQRTDLDKLIIEIETNGTIAPDEAVRKAATILQDQLTAFV---ELEGRIE 236 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K+ +P LL+ +++LEL+VRS NCL+ ENI Y+GDLIQ+TE ++L+ N G+KS Sbjct: 237 TAKEKKAAEIDPVLLQPIDDLELTVRSANCLKAENIYYIGDLIQKTEVELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 L EIK VL GL LG+ L +WPP + E K Sbjct: 297 LTEIKDVLTLRGLSLGIRLENWPPAGLREEETK 329 >gi|159039805|ref|YP_001539058.1| DNA-directed RNA polymerase subunit alpha [Salinispora arenicola CNS-205] gi|157918640|gb|ABW00068.1| DNA-directed RNA polymerase, alpha subunit [Salinispora arenicola CNS-205] Length = 340 Score = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 121/312 (38%), Positives = 189/312 (60%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 9 LSEESINETRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ ++++NIK + + D + + K+GPG VTAGDIQ + V NPD + L Sbjct: 69 VKEDVVELVMNIKELCVSSEHDEPVSMYLRKQGPGDVTAGDIQPPAGVSVHNPDLKLATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + MELTV +G GYV A ++ IG I +D++YSP+ +V+Y VE+ R Q D Sbjct: 129 NGKGRLDMELTVERGRGYVTAAQNKQAGAEIGRIPVDSIYSPVLRVTYRVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + +++ S+ ++A A L + G+ +E + + + + L Sbjct: 189 FDRLIIDVESKPSMGPRTALASAGSTLVELFGLARELDETAEGIDIGPSPQDAQLAADLA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+L+VRS NCL+ E I +G+LI RTEAD+L + NFG+KS+ E+K L MGL L Sbjct: 249 LPIEELDLTVRSYNCLKREGINSVGELIGRTEADLLDIRNFGQKSIDEVKMKLAGMGLGL 308 Query: 318 GMNLPDWPPESI 329 + P++ P ++ Sbjct: 309 KDSAPNFDPANV 320 >gi|50843283|ref|YP_056510.1| DNA-directed RNA polymerase subunit alpha [Propionibacterium acnes KPA171202] gi|289424833|ref|ZP_06426615.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes SK187] gi|61215892|sp|Q6A6R1|RPOA_PROAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|50840885|gb|AAT83552.1| DNA-directed RNA polymerase alpha chain [Propionibacterium acnes KPA171202] gi|289154796|gb|EFD03479.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes SK187] gi|313763203|gb|EFS34567.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL013PA1] gi|313793292|gb|EFS41350.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL110PA1] gi|313801064|gb|EFS42332.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL110PA2] gi|313816540|gb|EFS54254.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL059PA1] gi|313828399|gb|EFS66113.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL063PA2] gi|313837983|gb|EFS75697.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL086PA1] gi|314914366|gb|EFS78197.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL005PA4] gi|314917686|gb|EFS81517.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL050PA1] gi|314919582|gb|EFS83413.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL050PA3] gi|314930172|gb|EFS94003.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL067PA1] gi|314957155|gb|EFT01259.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL027PA1] gi|314957796|gb|EFT01899.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL002PA1] gi|314963508|gb|EFT07608.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL082PA1] gi|314969909|gb|EFT14007.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL037PA1] gi|315077129|gb|EFT49196.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL053PA2] gi|315097951|gb|EFT69927.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL059PA2] gi|315100594|gb|EFT72570.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL046PA1] gi|315106083|gb|EFT78059.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL030PA1] gi|327451456|gb|EGE98110.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL087PA3] gi|327451856|gb|EGE98510.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL083PA2] gi|328752070|gb|EGF65686.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL087PA1] gi|328755532|gb|EGF69148.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL025PA2] Length = 338 Score = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 121/322 (37%), Positives = 185/322 (57%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G +TA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L +GL L + P + P + E Sbjct: 301 LTELGLALKDSAPGFDPLAAAE 322 >gi|315109197|gb|EFT81173.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL030PA2] Length = 338 Score = 350 bits (899), Expect = 1e-94, Method: Composition-based stats. Identities = 121/322 (37%), Positives = 185/322 (57%), Gaps = 4/322 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G +TA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEITAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L +GL L + P + P + E Sbjct: 301 LTELGLALKDSAPGFDPLAAAE 322 >gi|320533222|ref|ZP_08033935.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 171 str. F0337] gi|320134562|gb|EFW26797.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 171 str. F0337] Length = 353 Score = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 127/315 (40%), Positives = 188/315 (59%), Gaps = 3/315 (0%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V+ + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV Sbjct: 25 QRPTLTEEVVVE---DRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVP 81 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ N Sbjct: 82 HEFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHN 141 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 142 PELVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEA 201 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 202 TRVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPID 261 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK Sbjct: 262 EAFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSISEIKDK 321 Query: 310 LGTMGLFLGMNLPDW 324 L +GL L + D+ Sbjct: 322 LAELGLSLKGSPVDY 336 >gi|325068059|ref|ZP_08126732.1| DNA-directed RNA polymerase subunit alpha [Actinomyces oris K20] gi|326773990|ref|ZP_08233272.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces viscosus C505] gi|329945757|ref|ZP_08293444.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 170 str. F0386] gi|326636129|gb|EGE37033.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces viscosus C505] gi|328528205|gb|EGF55183.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 170 str. F0386] Length = 333 Score = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 128/315 (40%), Positives = 188/315 (59%), Gaps = 3/315 (0%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V+ + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV Sbjct: 5 QRPTLTEEVVVE---DRRSRFVLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVP 61 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +I GV ED+ IILNIK I L D + + K GP VTAGDI +E+ N Sbjct: 62 HEFRTIPGVKEDVAQIILNIKEIVLSSENDEPVVMYLRKSGPSEVTAGDITPPAGVEIHN 121 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD VI L+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY+VE+ Sbjct: 122 PDLVIATLNEKGKLEIELTVERGRGYVSANQNKDPNAEISRIPVDSIYSPVKKVSYSVEA 181 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 182 TRVEQRTDFDRLIVDVETKSSITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPID 241 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK Sbjct: 242 EAFQQDLALMIDELDLQARSSNALKREGIHTVGELVSRSEADLLDIRNFGAKSISEIKDK 301 Query: 310 LGTMGLFLGMNLPDW 324 L +GL L + D+ Sbjct: 302 LAELGLSLKGSPVDY 316 >gi|291457229|ref|ZP_06596619.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium breve DSM 20213] gi|291381064|gb|EFE88582.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium breve DSM 20213] Length = 331 Score = 350 bits (899), Expect = 2e-94, Method: Composition-based stats. Identities = 123/321 (38%), Positives = 186/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 5 QRPTLTE----ESLNPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI + + + N Sbjct: 61 HEFTTLPGVQEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPSGVTIAN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L D + +E TV +G GYVPA+ ++ + D IG I +D++YSP+ KVSY VE+ Sbjct: 121 PEQHIATLAEDGELEIEFTVERGRGYVPAQMNKQDTDEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ + Sbjct: 181 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNAQAEGVEVGPAPVA 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP + +E+L L+ RS NCL+ E + +G+L+ TE D+L + NFG KS+ E+K Sbjct: 241 EETNPEMAVPIEDLNLTQRSYNCLKREGVHTIGELVSHTEQDLLDIRNFGMKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L T+GL L + + ++E Sbjct: 301 LQTLGLSLKSSPMAFDTNNLE 321 >gi|323357346|ref|YP_004223742.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Microbacterium testaceum StLB037] gi|323273717|dbj|BAJ73862.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Microbacterium testaceum StLB037] Length = 329 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 125/316 (39%), Positives = 186/316 (58%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + E R+ + EPL GF +T+GNALRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----EKVGEFRSRFVIEPLEPGFGYTIGNALRRSLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+T+IILNIK + + D + K G G VTA DI +EV N Sbjct: 61 HEFSTIPGVKEDVTEIILNIKQLVVSSERDEPITAYLRKTGSGEVTAADISAPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD VI L+ A +ELT+ +G GYV A +R E G I ID++YSP+ KVSY VE+ Sbjct: 121 PDLVIATLNDTAKFELELTIERGRGYVSATQNRNEYAEAGQIPIDSIYSPVLKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+DKL + +++ SI D+VA A R L + G+ + ++ Sbjct: 181 TRAGERTDFDKLVLDVESKPSIAPRDAVASAGRTLTELFGLARELNVEAEGIEIGPAPVE 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L+LSVRS NCL+ E I + +L+ +E ++ + NFG+KS+ E++ Sbjct: 241 TVLSNELSMPIEDLDLSVRSYNCLKREGINTVSELVALSETQLMNIRNFGQKSVDEVRDK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L ++GL L ++P + Sbjct: 301 LVSLGLSLKDSVPGFD 316 >gi|89893245|ref|YP_516732.1| DNA-directed RNA polymerase subunit alpha [Desulfitobacterium hafniense Y51] gi|219666518|ref|YP_002456953.1| DNA-directed RNA polymerase subunit alpha [Desulfitobacterium hafniense DCB-2] gi|119366679|sp|Q250K4|RPOA_DESHY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765251|sp|B8G1Z4|RPOA_DESHD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|89332693|dbj|BAE82288.1| hypothetical protein [Desulfitobacterium hafniense Y51] gi|219536778|gb|ACL18517.1| DNA-directed RNA polymerase, alpha subunit [Desulfitobacterium hafniense DCB-2] Length = 315 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ + + EPL RG+ TLGN+LRR+L+SSL G A+T+V+I+G Sbjct: 3 EIEKP-KIECVE-RTDDNSYAKFVVEPLERGYGITLGNSLRRILLSSLPGTAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+TDIILN+K + LK D K + + G GV+ AGDI T DIE+ Sbjct: 61 VLHEFSTVPGVLEDVTDIILNLKSLALKGHTDEPKVLRLEAEGEGVIKAGDIITDADIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I LD D + ME+T +G GYV A ++ + IG+I ID++++PI KV+YTV Sbjct: 121 LNPDLKIATLDKDGRLFMEMTAERGRGYVSADKNKKPDQAIGIIPIDSIFAPIYKVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R G V DYDKL++ + ++GSIT E++ +LA++IL + L +FI + V+ + Sbjct: 181 EDTRVGMVTDYDKLTLEVWSNGSITPEEATSLAAKILSEHLRLFIGLTDKLNNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +E+L+LSVRS NCL+ I + +L Q+TE DM+++ N GRKSL E++ Sbjct: 241 EEEAKDKILEMTIEDLDLSVRSYNCLKRAGINSVEELTQKTEEDMIKVRNLGRKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL Sbjct: 301 SKLKELGLGF 310 >gi|260893344|ref|YP_003239441.1| DNA-directed RNA polymerase, alpha subunit [Ammonifex degensii KC4] gi|260865485|gb|ACX52591.1| DNA-directed RNA polymerase, alpha subunit [Ammonifex degensii KC4] Length = 319 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 190/310 (61%), Gaps = 4/310 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP + L + + EPL RG+ TLGNALRRVL+SS+ GAA+T V+I+GV Sbjct: 4 IEKPR-VSVDSLAPTGD-YGRFVIEPLVRGYGITLGNALRRVLLSSIPGAAVTMVKIEGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+ +IILN++G+ ++M D + + I G V A DI D+E+L Sbjct: 62 LHEFSTLPGVREDVVEIILNLRGLKIRMHTDEERILRIEAAGEREVRARDIIADADVEIL 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPDH I +L + + ME+TV +G GYVPA R + IG I +DA +SP+KKV+Y VE Sbjct: 122 NPDHYIASLAPEGRLFMEMTVRRGRGYVPADRQRH-DHVIGAIPVDADFSPVKKVNYRVE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINV 247 +A GQ DYD+L + + T+G + E++V+LA+RIL + + ++ + Sbjct: 181 NAWVGQNADYDRLILEVWTNGCVRPEEAVSLAARILCEHFQLLTGLSTSTGHLEKIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EEL+LSVRS NCL+ I + DL QRTE +M+++ N G+KSL E+K Sbjct: 241 EEDNKNRLLEMPIEELDLSVRSYNCLKRAGINTILDLTQRTEEEMMKVRNLGKKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLAELGLSL 310 >gi|256390173|ref|YP_003111737.1| DNA-directed RNA polymerase subunit alpha [Catenulispora acidiphila DSM 44928] gi|256356399|gb|ACU69896.1| DNA-directed RNA polymerase, alpha subunit [Catenulispora acidiphila DSM 44928] Length = 341 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 130/330 (39%), Positives = 198/330 (60%), Gaps = 6/330 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E I+ +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEII----DEYRSRFLIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I GV ED+TD+ILNIK + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFTTIPGVKEDVTDLILNIKQLVVSSEIDEPVTMYLRKQGPGTVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ +I L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV Y VE+ Sbjct: 121 PELIIATLNGKGKLEMELTVERGRGYVSAVQNKQAGQEIGRIPIDSIYSPVLKVKYDVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+ D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLVLDVETKQSMRPRDAVASAGKTLVELFGLARELNIEAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+LEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLELTVRSYNCLKREGIHTVGELVARSEADLLDIRNFGAKSIDEVKVK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +MGL L + P + P + + +Y+++ Sbjct: 301 LMSMGLALKDSPPGFDPSLVVDN--QYDEE 328 >gi|157100343|emb|CAP03337.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 141/329 (42%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|255526607|ref|ZP_05393514.1| DNA-directed RNA polymerase, alpha subunit [Clostridium carboxidivorans P7] gi|296187296|ref|ZP_06855692.1| DNA-directed RNA polymerase, alpha subunit [Clostridium carboxidivorans P7] gi|255509715|gb|EET86048.1| DNA-directed RNA polymerase, alpha subunit [Clostridium carboxidivorans P7] gi|296048167|gb|EFG87605.1| DNA-directed RNA polymerase, alpha subunit [Clostridium carboxidivorans P7] Length = 315 Score = 350 bits (898), Expect = 2e-94, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 205/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + + EPL RG+ TLGNALRR+L+SSL G A ++IDG Sbjct: 3 EIEKP-KIECVEV-NEDGSYGKFVVEPLERGYGITLGNALRRILLSSLPGVAANHIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+ +++LNIK + LKM+G+ K + I +GPG V AGDI+T DIE+ Sbjct: 61 VLHEFSTVRGVKEDVAELVLNIKCLALKMNGEGPKTIYIDAQGPGEVVAGDIKTDGDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ V+ G GYV +++E+ PIG I ID++Y+PIK+V++ V Sbjct: 121 INKDLHIATLDDDGKLYMEIQVNTGRGYVSQTKNKSEDMPIGTIAIDSIYTPIKRVNFVV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I E++++L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSLEVWTNGTIMPEEAISLSAKILIEHFKLFMTLTDHANNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 301 QKLEALGLSLKQS 313 >gi|302543333|ref|ZP_07295675.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces hygroscopicus ATCC 53653] gi|302460951|gb|EFL24044.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces himastatinicus ATCC 53653] Length = 340 Score = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|223936403|ref|ZP_03628315.1| DNA-directed RNA polymerase, alpha subunit [bacterium Ellin514] gi|223894921|gb|EEF61370.1| DNA-directed RNA polymerase, alpha subunit [bacterium Ellin514] Length = 333 Score = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 131/323 (40%), Positives = 193/323 (59%), Gaps = 7/323 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + E +AEP G+ HT+GN+LRRVL+SSL GAAI++++IDG +H Sbjct: 1 MPKRLTKDETTS-TETYAKFVAEPFETGYGHTIGNSLRRVLLSSLEGAAISSIKIDGAMH 59 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +++ GV ED+TDI+LN+K + K + + + G VTA DIQ +IE++NP Sbjct: 60 EFTTVDGVVEDVTDIVLNLKKVLFKAHNREPQTLLLSANKDGEVTAADIQVNQNIELVNP 119 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 IC LD +EL V G G+ P ++ N IG+I ID+L+SP+ +V Y VESA Sbjct: 120 KQHICTLDKKKKFEIELEVKVGRGFCPGDENKKPNQAIGVIAIDSLFSPVTRVRYAVESA 179 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R GQ DYD+L + + TDG I+ +D++ AS ILQ L +F+ +++ E +E ++ + Sbjct: 180 RVGQRTDYDRLILEVWTDGRISPDDALTQASAILQHHLDVFVGYDKNAVEFEEVVDKQDE 239 Query: 251 PFNPALL---KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK Sbjct: 240 EKTKLKKLLGMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIK 299 Query: 308 GVLGTMGLFLGMNLPDWPPESIE 330 L +GL LGM+ + PE+++ Sbjct: 300 EKLTALGLSLGMS---FDPEALD 319 >gi|225016257|ref|ZP_03705449.1| hypothetical protein CLOSTMETH_00160 [Clostridium methylpentosum DSM 5476] gi|224950932|gb|EEG32141.1| hypothetical protein CLOSTMETH_00160 [Clostridium methylpentosum DSM 5476] Length = 316 Score = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 199/311 (63%), Gaps = 3/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE L + I EPL RGF TLGN+LRRVL+SSL G A+T+++IDG Sbjct: 3 EIEKPR-IETAELKS-DGTYGRFILEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED+T+I+LNIKG+ K+ GD K V I G VTAGDI+ +++E+ Sbjct: 61 VQHEFSTIPGVKEDVTEIVLNIKGLIAKVHGDVPKTVYIEAEGECEVTAGDIKADSEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYT 186 L+P I LD A + MEL + +G GYV + ++ P IG+I ID++Y+P+ KV+Y+ Sbjct: 121 LDPGMHIATLDEGAKLYMELVIDRGRGYVSSDRNKQIMQPVIGVIPIDSIYTPVLKVNYS 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ+ DYDKL++ I TDG+I+ +++V+LA+++L + L +F++ E + + Sbjct: 181 VENTRVGQITDYDKLTLEIWTDGTISAKEAVSLAAKVLNEHLNLFVDLSEEGYTEQIMVE 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 L +EEL+LSVRS NCL+ I + DL +TE DM+++ N GRKSL E+ Sbjct: 241 KDDKCKEKVLEMTIEELDLSVRSFNCLKRAGINTVEDLTNKTEEDMMKVRNLGRKSLDEV 300 Query: 307 KGVLGTMGLFL 317 L ++G L Sbjct: 301 VLKLKSLGYDL 311 >gi|313112850|ref|ZP_07798496.1| DNA-directed RNA polymerase, alpha subunit [Faecalibacterium cf. prausnitzii KLE1255] gi|310624755|gb|EFQ08064.1| DNA-directed RNA polymerase, alpha subunit [Faecalibacterium cf. prausnitzii KLE1255] Length = 333 Score = 350 bits (897), Expect = 2e-94, Method: Composition-based stats. Identities = 135/320 (42%), Positives = 204/320 (63%), Gaps = 5/320 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 16 MEIERP-KIETASL-SPDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKID 73 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE Sbjct: 74 GVVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 183 +LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV Sbjct: 134 ILNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKV 193 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 194 NYNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEI 253 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 254 MVEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSL 313 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 E+ L ++G L + + Sbjct: 314 EEVMAKLDSLGFKLNTDDDN 333 >gi|87306331|ref|ZP_01088478.1| DNA-directed RNA polymerase alpha subunit [Blastopirellula marina DSM 3645] gi|87290510|gb|EAQ82397.1| DNA-directed RNA polymerase alpha subunit [Blastopirellula marina DSM 3645] Length = 328 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 131/328 (39%), Positives = 192/328 (58%), Gaps = 5/328 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + W+ L P+ + N IAEP RGF T+GN+LRR+L+SSL GAA+T Sbjct: 1 MHIRWRGLELPSVVNC-EAESLSPNYGKFIAEPFERGFGVTIGNSLRRILLSSLEGAAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++ G HE +SI GV ED+T+I+LN K I +K + K VTI K+GP +T DIQ Sbjct: 60 QIKVRGAQHEFTSIPGVVEDMTEIVLNTKAIVVKKHSEMTKVVTIEKQGPCTITGADIQC 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++++N D IC + D ME+ V G GY+PA H T IG+I +DA+YSP+ Sbjct: 120 DPEVDIINKDIHICTITGDIPFMMEMVVESGRGYIPATEHSTAEHEIGIIPVDAVYSPVT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y VE R GQ +YDKL++ I TDGSI E S+ A++IL+ L F+ + E ++ Sbjct: 180 RVRYEVEETRVGQKTNYDKLTLEIWTDGSIHPEYSLVEAAKILRKHLNPFVQYNELGSKI 239 Query: 242 KEDINVKSLPFNPA----LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +S +P L + E+ LSVR++NCL ENI + DL++RTE ++ + N Sbjct: 240 SIPSRTQSSGLDPVLESKLNMSLAEMHLSVRASNCLESENINTVRDLVRRTEDQLMEVRN 299 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 FG +L E++ L +GL LGM + P Sbjct: 300 FGETTLTEVREKLKELGLHLGMRVQSAP 327 >gi|116334243|ref|YP_795770.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus brevis ATCC 367] gi|122269075|sp|Q03PY3|RPOA_LACBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116099590|gb|ABJ64739.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Lactobacillus brevis ATCC 367] Length = 316 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 140/314 (44%), Positives = 201/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E N I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN----IHKIDESNNYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+++GV ED+T IILN+K I LK++G D + + I +GP +TAGDI D+ Sbjct: 59 VLHEFSTVEGVVEDVTQIILNVKKIALKLNGSDDQEETMEINVKGPAQITAGDIVAGADV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 ++LNPD I + A M +T KG GYV A R + PIG++ +D++Y+PI++V Sbjct: 119 DILNPDLYIATVADGATFHMRMTADKGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERV 178 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR GQ DYDKL++ + T+GSI +++ALA++IL + L MF++ + K + Sbjct: 179 NYQVENARVGQRADYDKLTLDVWTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEI 238 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L +TEADM+++ N GRKSL Sbjct: 239 MVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELNNKTEADMMKVRNLGRKSL 298 Query: 304 VEIKGVLGTMGLFL 317 E+K L +GL L Sbjct: 299 EEVKAKLADLGLSL 312 >gi|311111944|ref|YP_003983166.1| DNA-directed RNA polymerase subunit alpha [Rothia dentocariosa ATCC 17931] gi|310943438|gb|ADP39732.1| DNA-directed RNA polymerase subunit alpha [Rothia dentocariosa ATCC 17931] Length = 330 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 121/330 (36%), Positives = 194/330 (58%), Gaps = 9/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVL Sbjct: 5 QRPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILN+K +++ D + K+G G +TA DI+ +E+ N Sbjct: 61 HEFSTVPGVTEDVTEIILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ A EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + Sbjct: 121 PELHIATLNAKANFNAELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 ESMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + P + P +A+ Y+D+ Sbjct: 301 LHELGLALKDSPPGFEP-----VARAYDDE 325 >gi|260102381|ref|ZP_05752618.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus DSM 20075] gi|260083825|gb|EEW67945.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus DSM 20075] gi|328463390|gb|EGF35063.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus MTCC 5463] Length = 312 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDG Sbjct: 3 EFEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++V Sbjct: 59 VLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + ME+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + Sbjct: 179 ESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFATKILVEHFKVFESADADTKFSEVMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L TE+DM+R+ N GRKSL E+K Sbjct: 239 EDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTDMTESDMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLTDLGLSL 308 >gi|317131398|ref|YP_004090712.1| DNA-directed RNA polymerase, alpha subunit [Ethanoligenens harbinense YUAN-3] gi|315469377|gb|ADU25981.1| DNA-directed RNA polymerase, alpha subunit [Ethanoligenens harbinense YUAN-3] Length = 316 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 200/314 (63%), Gaps = 3/314 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE L + + + EPL RG+ TLGN+LRRVL+SSL G A+T V+IDG Sbjct: 3 EIEKPR-IETAELTS-DGSYGRFVVEPLERGYGTTLGNSLRRVLLSSLPGVAVTQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S++ GV ED+T+IILNIKG+ K+ D K V I G VTAGDI+T +++E+ Sbjct: 61 VQHEFSTVPGVKEDVTEIILNIKGLTAKLHSDGPKVVYIDAEGECKVTAGDIKTDSEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYT 186 L+P+ I L A + ME+T+ KG GYV A+ ++ P IG+I +D++Y+P+ KV+Y Sbjct: 121 LDPNMHIATLAAGAKLYMEITLDKGRGYVAAERNKQNLQPAIGVIPVDSIYTPVLKVNYA 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ+ DYDKL++ + TD +I+ +++V++ ++IL + LG+F+ + + + Sbjct: 181 VENTRVGQITDYDKLTLEVWTDATISAKEAVSIGAKILNEHLGLFVALCAETQSTEIMVE 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 L +EEL+LSVRS NCL+ I + DLI RTE DM+++ N GRKSL E+ Sbjct: 241 KDDKSKEKVLEMTIEELDLSVRSFNCLKRAGINTVEDLINRTEDDMMKVRNLGRKSLEEV 300 Query: 307 KGVLGTMGLFLGMN 320 L ++G L + Sbjct: 301 ISKLNSLGFSLKRD 314 >gi|184200289|ref|YP_001854496.1| DNA-directed RNA polymerase subunit alpha [Kocuria rhizophila DC2201] gi|183580519|dbj|BAG28990.1| DNA-directed RNA polymerase alpha subunit [Kocuria rhizophila DC2201] Length = 339 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 125/330 (37%), Positives = 197/330 (59%), Gaps = 7/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ENR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLTE----EAVAENRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+++GV ED+T++ILNIK ++L D + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVEGVKEDVTELILNIKKLSLSSEEDEPVTAWLRKQGPGEVTAADISAPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ + +ELT+ +G GYV A +++ + +G I +D++YSP+ KV++ VE+ Sbjct: 121 PELHIATLNSKGQLEIELTIERGRGYVSASQNKSGDAEVGRIPVDSIYSPVLKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLILDVETKEAISPRDAVASAGTTLVELFGLARELNSSAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+LELSVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AAAAADMALPIEDLELSVRSYNCLKREGIHSVGELVGRSEADLMDIRNFGAKSIDEVKDK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LG +GL L + P + + A ED+ Sbjct: 301 LGELGLALKDSPPGYD---LAAHAASLEDE 327 >gi|257440240|ref|ZP_05615995.1| DNA-directed RNA polymerase, alpha subunit [Faecalibacterium prausnitzii A2-165] gi|257197274|gb|EEU95558.1| DNA-directed RNA polymerase, alpha subunit [Faecalibacterium prausnitzii A2-165] Length = 332 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 135/317 (42%), Positives = 203/317 (64%), Gaps = 5/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 16 MEIERP-KIETASL-SPDGRYGRFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKID 73 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE Sbjct: 74 GVVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 183 +LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV Sbjct: 134 ILNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIVEKNDINTLPVDSIYTPVLKV 193 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 194 NYNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGTEI 253 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 254 MVEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSL 313 Query: 304 VEIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 314 EEVMAKLDSLGFKLNTD 330 >gi|182418825|ref|ZP_02950090.1| DNA-directed RNA polymerase, alpha subunit [Clostridium butyricum 5521] gi|237666885|ref|ZP_04526870.1| DNA-directed RNA polymerase, alpha subunit [Clostridium butyricum E4 str. BoNT E BL5262] gi|182377322|gb|EDT74883.1| DNA-directed RNA polymerase, alpha subunit [Clostridium butyricum 5521] gi|237658084|gb|EEP55639.1| DNA-directed RNA polymerase, alpha subunit [Clostridium butyricum E4 str. BoNT E BL5262] Length = 315 Score = 349 bits (896), Expect = 3e-94, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 208/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I E+ + EPL RG+ TLGNALRR+L+SSL G A T+V+IDG Sbjct: 3 EIEKP-IIECIE-SNEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVAPTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T++ILNIK + LKM+G+ K + I +GPG VT DI+T D+EV Sbjct: 61 VLHEFSTVQGVKEDVTELILNIKSLALKMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + MELTV+ G GYV +++++ PI I +D++Y+P+K+V++TV Sbjct: 121 VNKDLHIATLDSDGRLYMELTVNNGRGYVTQNKNKSDDLPISSIAVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ+ DYDKL++ I T+G+I +++++L+++IL + +F++ + +++ + Sbjct: 181 DNTRVGQITDYDKLTLEIWTNGTIRIDEAISLSAKILIEHFKLFMSLTDNTNDIEVMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ I + +L ++ DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTVEELDLSVRSYNCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L ++ Sbjct: 301 RKLKELGLCLKLS 313 >gi|57239313|ref|YP_180449.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia ruminantium str. Welgevonden] gi|57161392|emb|CAH58316.1| DNA-directed RNA polymerase alpha chain [Ehrlichia ruminantium str. Welgevonden] Length = 358 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 171/344 (49%), Positives = 237/344 (68%), Gaps = 7/344 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 16 MSDHWNKLTKPSSIKVVNHGN-ALNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 74 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI I LK+SG +K +++ +GP V +G I Sbjct: 75 GVEIENVLHEFTSISGVREDVTDILLNISMIRLKLSGMDNKVLSLKVKGPCEVRSGMIAD 134 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT------ENDPIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ + P+ I +A Sbjct: 135 TPDCTILNKDLLICTLDQDVDFNIKMYVNSGKGYVPAVKRKSINKFGLNDVPVNFIATNA 194 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 LYSPIKK S+ VES+R GQ DYD+L M+++TD SI +++VALA+RILQDQ FINF+ Sbjct: 195 LYSPIKKASFRVESSRIGQFTDYDRLIMSVETDHSILPDEAVALAARILQDQFQQFINFD 254 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + ++ LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 255 ETDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRT 314 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 315 PNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 358 >gi|308171332|gb|ADO15985.1| RpoA [Vibrio ichthyoenteri ATCC 700023] Length = 323 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 140/329 (42%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MRGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|317505829|ref|ZP_07963674.1| DNA-directed RNA polymerase [Segniliparus rugosus ATCC BAA-974] gi|316255911|gb|EFV15136.1| DNA-directed RNA polymerase [Segniliparus rugosus ATCC BAA-974] Length = 350 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 121/314 (38%), Positives = 192/314 (61%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I Sbjct: 8 VLTEEVVSEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIA 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T+I+LN+KG+ + D + + K+GPG VTA DI + + + PD I Sbjct: 68 GVKEDVTEIVLNVKGLEVSSVEDEPATLYLRKQGPGPVTAADIVAPSGVTITKPDTHIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + MEL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q Sbjct: 128 LNDKGKLEMELVVERGRGYVPAVQNKDSGAEIGRIPVDSIYSPVLKVTYQVEATRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + +++ SIT D+VA A + L + G+ + ++ S +L Sbjct: 188 DFDRLILDVESKSSITPRDAVASAGKTLVELFGLARELNLAAEGIEIGAVAASTNNIASL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L L+VRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L T+GL Sbjct: 248 ALPIEDLHLTVRSYNCLKREGVHTIGELVARSESDLLDIRNFGQKSIDEVKLKLYTLGLA 307 Query: 317 LGMNLPDWPPESIE 330 L + ++ P +I+ Sbjct: 308 LKDSPANFDPSNID 321 >gi|296394890|ref|YP_003659774.1| DNA-directed RNA polymerase subunit alpha [Segniliparus rotundus DSM 44985] gi|296182037|gb|ADG98943.1| DNA-directed RNA polymerase, alpha subunit [Segniliparus rotundus DSM 44985] Length = 350 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 120/314 (38%), Positives = 191/314 (60%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I Sbjct: 8 VLTEEVVGEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTIA 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T+I+LN+KG+ + D + + K+GPG VTA DI + + P+ I Sbjct: 68 GVKEDVTEIVLNVKGLEVSSVEDEPATLYLRKQGPGPVTAADIVAPAGVTITKPETHIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + MEL V +G GYVPA ++ IG I +D++YSP+ KV+Y VE+ R Q Sbjct: 128 LNDKGKLEMELVVERGRGYVPAVQNKDSGAEIGRIPVDSIYSPVLKVTYQVEATRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T SIT D+VA A + L + G+ + ++ + +L Sbjct: 188 DFDRLILDVETKSSITPRDAVASAGKTLVELFGLARELNLAAEGIEIGSVAAATNNIASL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L L+VRS NCL+ E + +G+L+ R+E+D+L + NFG+KS+ E+K L T+GL Sbjct: 248 GLPIEDLHLTVRSYNCLKREGVHTIGELVARSESDLLDIRNFGQKSIDEVKLKLYTLGLA 307 Query: 317 LGMNLPDWPPESIE 330 L + ++ P +I+ Sbjct: 308 LKDSPANFDPSNID 321 >gi|297625818|ref|YP_003687581.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase subunit alpha) [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] gi|296921583|emb|CBL56137.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase subunit alpha) [Propionibacterium freudenreichii subsp. shermanii CIRM-BIA1] Length = 339 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 127/330 (38%), Positives = 191/330 (57%), Gaps = 7/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V + R+ + EPL GF +TLGN+LRR L+SS+ GA+IT+++I+G Sbjct: 5 QRPTLSEEVV----NDFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASITSIKIEGNQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILN+KG+ L D + + K G G VTA DI +E+ N Sbjct: 61 HEFSTLPGVVEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGAGEVTAADIAVPTGVEIYN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L D + MEL V +G GYV + + + IG I +D+LYSP+ VSY VE+ Sbjct: 121 PDLHIATLADDGSIEMELVVERGRGYVSSTLNNNPDAEIGRIAVDSLYSPVLTVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R D+D+L + ++T SI D+VA A + L + G+F + V+ + Sbjct: 181 TRVETRTDFDRLIVDVETKPSIRPHDAVASAGKTLVELFGLFRELNVEAEGVEMGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + VE+L LSVRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EQLAADMALPVEDLNLSVRSYNCLKREGIHTVGELVSRSEQDLLDIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LG +GL L + P + P + + ++ED+ Sbjct: 301 LGDLGLTLKDSTPGFDPLAAAD---RFEDE 327 >gi|258513668|ref|YP_003189890.1| DNA-directed RNA polymerase subunit alpha [Desulfotomaculum acetoxidans DSM 771] gi|257777373|gb|ACV61267.1| DNA-directed RNA polymerase, alpha subunit [Desulfotomaculum acetoxidans DSM 771] Length = 315 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 135/312 (43%), Positives = 204/312 (65%), Gaps = 3/312 (0%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IE + E+ I EPL RG+ TLGN+LRR+L+SSL G A+T+V+ID Sbjct: 1 MQIEKPR-IECVET-NEDNTYGKFIVEPLERGYGITLGNSLRRILLSSLPGVAVTSVKID 58 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDI 125 GVLHE S++ GV ED+TDIILN+K + LKM G+ K + I +G G V AGDI +D+ Sbjct: 59 GVLHEFSTVPGVREDVTDIILNLKSLRLKMHGEADEKILRIEAQGEGEVRAGDIVPDSDV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNPD I L + + M++T+++G GY A+ ++ IG+I ID++++P+ KV+Y Sbjct: 119 EILNPDMYIATLAANGRLSMDITIARGRGYFSAERNKKGEPIIGVIPIDSIFTPVYKVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +VE+ R GQ DYDKLS+ I TDGSI +++ +LA++I+ + L +FI E K+V+ + Sbjct: 179 SVENTRVGQRTDYDKLSIEIWTDGSIHPDEAASLAAKIMSEHLQLFIGLTEETKDVEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + +EEL+LSVRS NCL+ I + +LIQR E DM+++ N G+KSL E Sbjct: 239 EKEEEKKDKIMEMTIEELDLSVRSYNCLKRACINTVEELIQRNEEDMMKVRNLGKKSLEE 298 Query: 306 IKGVLGTMGLFL 317 + L +G+ L Sbjct: 299 VIQKLNELGVSL 310 >gi|21223108|ref|NP_628887.1| DNA-directed RNA polymerase subunit alpha [Streptomyces coelicolor A3(2)] gi|29831496|ref|NP_826130.1| DNA-directed RNA polymerase subunit alpha [Streptomyces avermitilis MA-4680] gi|182436600|ref|YP_001824319.1| DNA-directed RNA polymerase subunit alpha [Streptomyces griseus subsp. griseus NBRC 13350] gi|239929487|ref|ZP_04686440.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] gi|239943604|ref|ZP_04695541.1| DNA-directed RNA polymerase subunit alpha [Streptomyces roseosporus NRRL 15998] gi|239990057|ref|ZP_04710721.1| DNA-directed RNA polymerase subunit alpha [Streptomyces roseosporus NRRL 11379] gi|256785796|ref|ZP_05524227.1| DNA-directed RNA polymerase subunit alpha [Streptomyces lividans TK24] gi|282860838|ref|ZP_06269904.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. ACTE] gi|289769688|ref|ZP_06529066.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces lividans TK24] gi|290958124|ref|YP_003489306.1| DNA-directed RNA polymerase subunit alpha [Streptomyces scabiei 87.22] gi|291437812|ref|ZP_06577202.1| RNA polymerase alpha subunit [Streptomyces ghanaensis ATCC 14672] gi|291447071|ref|ZP_06586461.1| RNA polymerase alpha subunit [Streptomyces roseosporus NRRL 15998] gi|294630920|ref|ZP_06709480.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. e14] gi|297201756|ref|ZP_06919153.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sviceus ATCC 29083] gi|302553569|ref|ZP_07305911.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces viridochromogenes DSM 40736] gi|302558967|ref|ZP_07311309.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces griseoflavus Tu4000] gi|326777222|ref|ZP_08236487.1| DNA-directed RNA polymerase subunit alpha [Streptomyces cf. griseus XylebKG-1] gi|329938205|ref|ZP_08287656.1| DNA-directed RNA polymerase subunit alpha [Streptomyces griseoaurantiacus M045] gi|41692291|sp|P60312|RPOA_STRCO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41692292|sp|P60313|RPOA1_STRAW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238689027|sp|B1W3Y0|RPOA_STRGG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|3449241|emb|CAA20385.1| DNA-directed RNA polymerase alpha chain [Streptomyces coelicolor A3(2)] gi|29608612|dbj|BAC72665.1| RNA polymerase alpha subunit [Streptomyces avermitilis MA-4680] gi|178465116|dbj|BAG19636.1| RNA polymerase alpha subunit [Streptomyces griseus subsp. griseus NBRC 13350] gi|197710869|gb|EDY54903.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sviceus ATCC 29083] gi|260647650|emb|CBG70755.1| DNA-directed RNA polymerase alpha chain [Streptomyces scabiei 87.22] gi|282564574|gb|EFB70110.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. ACTE] gi|289699887|gb|EFD67316.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces lividans TK24] gi|291340707|gb|EFE67663.1| RNA polymerase alpha subunit [Streptomyces ghanaensis ATCC 14672] gi|291350018|gb|EFE76922.1| RNA polymerase alpha subunit [Streptomyces roseosporus NRRL 15998] gi|292834253|gb|EFF92602.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. e14] gi|297159625|gb|ADI09337.1| DNA-directed RNA polymerase subunit alpha [Streptomyces bingchenggensis BCW-1] gi|302471187|gb|EFL34280.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces viridochromogenes DSM 40736] gi|302476585|gb|EFL39678.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces griseoflavus Tu4000] gi|320009075|gb|ADW03925.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces flavogriseus ATCC 33331] gi|326657555|gb|EGE42401.1| DNA-directed RNA polymerase subunit alpha [Streptomyces cf. griseus XylebKG-1] gi|328884454|emb|CCA57693.1| DNA-directed RNA polymerase alpha subunit [Streptomyces venezuelae ATCC 10712] gi|329302694|gb|EGG46584.1| DNA-directed RNA polymerase subunit alpha [Streptomyces griseoaurantiacus M045] Length = 340 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|300742030|ref|ZP_07072051.1| DNA-directed RNA polymerase, alpha subunit [Rothia dentocariosa M567] gi|300381215|gb|EFJ77777.1| DNA-directed RNA polymerase, alpha subunit [Rothia dentocariosa M567] Length = 330 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 121/330 (36%), Positives = 194/330 (58%), Gaps = 9/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVL Sbjct: 5 QRPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILN+K +++ D + K+G G +TA DI+ +E+ N Sbjct: 61 HEFSTVPGVTEDVTEIILNVKKLSISSENDEPVVAYLRKQGEGELTAADIEVPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ A EL + +G GYV A ++T + IG I +D++YSP+ KV+++V + Sbjct: 121 PELHIATLNAKANFNAELIIERGRGYVSAAQNKTGDAEIGRIPVDSIYSPVLKVTFSVNA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNVAAEGIEVGPSPAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 ESMAADLALPIEDLSMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + P + P +A+ Y+D+ Sbjct: 301 LHELGLALKDSPPGFEP-----VARAYDDE 325 >gi|7388098|sp|Q9X4V6|RPOA_STRGT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|4633288|gb|AAD26700.1|AF118449_1 DNA-dependent RNA polymerase alpha subunit [Streptomyces granaticolor] Length = 340 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNAKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|270284452|ref|ZP_05966137.2| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium gallicum DSM 20093] gi|270276907|gb|EFA22761.1| DNA-directed RNA polymerase, alpha subunit [Bifidobacterium gallicum DSM 20093] Length = 351 Score = 349 bits (895), Expect = 4e-94, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 186/321 (57%), Gaps = 4/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G L Sbjct: 25 QRPTLTE----ESITPQRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGAL 80 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+I+LNIKGI L D + + K G G TAGDI I + N Sbjct: 81 HEFTALPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKSGKGEATAGDITPPAGITIAN 140 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I +L D + +E TV +G GYVPA+ ++ ++D IG I +D++YSP+ KVSY VE+ Sbjct: 141 PEMHIASLAEDGELEIEFTVERGRGYVPAQMNKQDSDEIGRIPVDSIYSPVLKVSYKVEA 200 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T +I+ D+VA A L + G+ + V+ Sbjct: 201 TRVEQRTDFDKLILDVETKPAISPRDAVASAGSTLVELFGLCRELNMQAEGVEVGPAPVV 260 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 NP L +E+L L+ RS NCL+ E I +G+L+ E D+L + NFG KS+ E+K Sbjct: 261 EETNPELAVPIEDLNLTQRSYNCLKREGIHTVGELVAHNEQDLLDIRNFGMKSIDEVKEK 320 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L ++GL L + + ++E Sbjct: 321 LQSLGLSLKASPLGFDTTNLE 341 >gi|182412026|ref|YP_001817092.1| DNA-directed RNA polymerase subunit alpha [Opitutus terrae PB90-1] gi|177839240|gb|ACB73492.1| DNA-directed RNA polymerase, alpha subunit [Opitutus terrae PB90-1] Length = 333 Score = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 134/333 (40%), Positives = 193/333 (57%), Gaps = 4/333 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K + P+ + + G IAEP G+ HT+GN+LRRVL+SS+ GAAI+ Sbjct: 1 MPKRLGKFELPSKLTKVEEGS-TPTYAKFIAEPFEAGYGHTIGNSLRRVLLSSIEGAAIS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++IDGV HE SI GV ED+TDI+LN+K + L + I G+VTA DIQ Sbjct: 60 SIKIDGVNHEFQSIDGVVEDVTDIVLNLKKVLLVSQKRESINLAIRVNKAGIVTAADIQP 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +I+V+NP+ VIC LD E+ + G GY P + ++ E IG+I ID+L+SP++ Sbjct: 120 DPNIQVINPEQVICTLDAKKTFDAEIEIKTGRGYCPGEANKKEEQAIGVIPIDSLFSPVR 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V Y VE+ R GQ+ DYDKL + + TDG IT +D++ A+ IL+ L +F E E Sbjct: 180 LVKYAVEATRVGQITDYDKLVLEVWTDGRITPDDALKQAASILKHHLDVFDRVSEETYEF 239 Query: 242 KEDINVKSLPFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S N V E+ELSVR+ NCL NI +G+L +TE +ML+ NF Sbjct: 240 ENQQSEVSEEQNKLRKLLNMSVNEIELSVRAANCLNNANITTVGELAMKTEQEMLKYRNF 299 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK L +GL LGM + ++ +E Sbjct: 300 GKKSLNEIKEKLEALGLSLGMKFDERLLDTKKE 332 >gi|58579279|ref|YP_197491.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia ruminantium str. Welgevonden] gi|90110841|sp|Q5HAU5|RPOA_EHRRW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|58417905|emb|CAI27109.1| DNA-directed RNA polymerase alpha chain [Ehrlichia ruminantium str. Welgevonden] Length = 374 Score = 349 bits (895), Expect = 5e-94, Method: Composition-based stats. Identities = 171/344 (49%), Positives = 237/344 (68%), Gaps = 7/344 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWNKLTKPSSIKVVNHGN-ALNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 90 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI I LK+SG +K +++ +GP V +G I Sbjct: 91 GVEIENVLHEFTSISGVREDVTDILLNISMIRLKLSGMDNKVLSLKVKGPCEVRSGMIAD 150 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT------ENDPIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ + P+ I +A Sbjct: 151 TPDCTILNKDLLICTLDQDVDFNIKMYVNSGKGYVPAVKRKSINKFGLNDVPVNFIATNA 210 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 LYSPIKK S+ VES+R GQ DYD+L M+++TD SI +++VALA+RILQDQ FINF+ Sbjct: 211 LYSPIKKASFRVESSRIGQFTDYDRLIMSVETDHSILPDEAVALAARILQDQFQQFINFD 270 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + ++ LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 271 ETDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRT 330 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 331 PNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 374 >gi|254391366|ref|ZP_05006569.1| DNA-directed RNA polymerase subunit alpha [Streptomyces clavuligerus ATCC 27064] gi|294814494|ref|ZP_06773137.1| DNA-directed RNA polymerase subunit alpha [Streptomyces clavuligerus ATCC 27064] gi|297192676|ref|ZP_06910074.1| DNA-directed RNA polymerase subunit alpha [Streptomyces pristinaespiralis ATCC 25486] gi|326442883|ref|ZP_08217617.1| DNA-directed RNA polymerase subunit alpha [Streptomyces clavuligerus ATCC 27064] gi|197705056|gb|EDY50868.1| DNA-directed RNA polymerase subunit alpha [Streptomyces clavuligerus ATCC 27064] gi|197721669|gb|EDY65577.1| DNA-directed RNA polymerase subunit alpha [Streptomyces pristinaespiralis ATCC 25486] gi|294327093|gb|EFG08736.1| DNA-directed RNA polymerase subunit alpha [Streptomyces clavuligerus ATCC 27064] Length = 340 Score = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|58617333|ref|YP_196532.1| DNA-directed RNA polymerase subunit alpha [Ehrlichia ruminantium str. Gardel] gi|75432689|sp|Q5FFS1|RPOA_EHRRG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|58416945|emb|CAI28058.1| DNA-directed RNA polymerase alpha chain [Ehrlichia ruminantium str. Gardel] Length = 374 Score = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 171/344 (49%), Positives = 237/344 (68%), Gaps = 7/344 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L KP++I+ + G N+ +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 32 MSDHWNKLTKPSSIKVVNHGN-ALNKADLIIEPLESGFALTLGNALRRVMMSSLRGFAVY 90 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+ VLHE +SI GV ED+TDI+LNI I LK+SG +K +++ +GP V +G I Sbjct: 91 GVEIENVLHEFTSISGVREDVTDILLNISMIRLKLSGMDNKVLSLKVKGPCEVRSGMIAD 150 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT------ENDPIGLITIDA 175 D +LN D +IC LD D +++ V+ G GYVPA ++ + P+ I +A Sbjct: 151 TPDCTILNKDLLICTLDQDVDFNIKMYVNSGKGYVPAVKRKSINKFGLSDVPVNFIATNA 210 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 LYSPIKK S+ VES+R GQ DYD+L M+++TD SI +++VALA+RILQDQ FINF+ Sbjct: 211 LYSPIKKASFRVESSRIGQFTDYDRLIMSVETDHSILPDEAVALAARILQDQFQQFINFD 270 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + ++ LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DMLR Sbjct: 271 ETDEPHQKVDTKDVLPYDSNLLRKVDELELSVRSYNCLKNDNITYIGDLVQKTESDMLRT 330 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 NFGRKSL EI +L +M L LGM + +WPPESIE L+K+Y ++ Sbjct: 331 PNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLSKQYSEE 374 >gi|167629496|ref|YP_001679995.1| DNA-directed RNA polymerase, alpha subunit [Heliobacterium modesticaldum Ice1] gi|238687877|sp|B0TC85|RPOA_HELMI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|167592236|gb|ABZ83984.1| DNA-directed RNA polymerase, alpha subunit [Heliobacterium modesticaldum Ice1] Length = 314 Score = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 200/310 (64%), Gaps = 3/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + ++ + EPL RG+ TLGN+LRR+L++SL GAA+T+V+I+G Sbjct: 3 EIEKP-KIECVA-RSDDATYGKFVVEPLERGYGVTLGNSLRRILLTSLFGAAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED TDIILN+K + +KM + + + + G GVVTA DI T D+E+ Sbjct: 61 VLHEFSTIPGVVEDTTDIILNLKQLAIKMHTEESRTIRVEFEGEGVVTAADILTDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD VI +D + ME+TV K GY+ A HR IG+I IDA +SP++KV+Y V Sbjct: 121 LNPDQVIATVDKG-RLFMEITVEKSRGYITATKHRKSEHAIGVIPIDANFSPVRKVNYRV 179 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ+ +YD+L + + T+GS+T E++++ +++I+ D L +F+ E + V+ + Sbjct: 180 EDTRVGQITNYDRLILEVWTNGSLTPEEAISWSAKIMNDYLKLFVALTENTENVEIMVET 239 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + P + L +EEL+LSVRS NCL+ I + DL +TE DM+++ N GRKSL E+ Sbjct: 240 EERPQDKILEMTIEELDLSVRSYNCLKRAGINTVKDLTNKTEEDMIKVRNLGRKSLEEVD 299 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 300 AKLAALGLSL 309 >gi|256831853|ref|YP_003160580.1| DNA-directed RNA polymerase, alpha subunit [Jonesia denitrificans DSM 20603] gi|256685384|gb|ACV08277.1| DNA-directed RNA polymerase, alpha subunit [Jonesia denitrificans DSM 20603] Length = 334 Score = 348 bits (894), Expect = 5e-94, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 193/323 (59%), Gaps = 4/323 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSEEVI----SDARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+T+IILN+K + L D + + K+G GVVTA DI +EV N Sbjct: 61 HEFSTITGVKEDVTEIILNVKNLVLSSENDEPVVMYLRKQGAGVVTAADIVPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +ELTV +G GYV A+ +++ + IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLHIATLNDKGKLEIELTVERGRGYVSAQQNKSMDAEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI D++A A + L + G+ + ++ + Sbjct: 181 TRVEQRTDFDRLIVDVETKSSIVPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLNLTIRSYNCLKREGIHQVGELVARSEADLLDIRNFGAKSINEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEEL 332 L +GL L + D+ P S + Sbjct: 301 LHELGLSLKDSPLDFQPSSESDY 323 >gi|15617093|ref|NP_240306.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219682400|ref|YP_002468784.1| DNA-directed RNA polymerase alpha subunit [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|11134569|sp|P57566|RPOA_BUCAI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|25288361|pir||H84987 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain [imported] - Buchnera sp. (strain APS) gi|10039158|dbj|BAB13192.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola str. APS (Acyrthosiphon pisum)] gi|219622133|gb|ACL30289.1| DNA-directed RNA polymerase alpha subunit [Buchnera aphidicola str. Tuc7 (Acyrthosiphon pisum)] gi|311086221|gb|ADP66303.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. LL01 (Acyrthosiphon pisum)] gi|311086798|gb|ADP66879.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. TLW03 (Acyrthosiphon pisum)] gi|311087385|gb|ADP67465.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. JF99 (Acyrthosiphon pisum)] gi|311087882|gb|ADP67961.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. JF98 (Acyrthosiphon pisum)] Length = 329 Score = 348 bits (893), Expect = 6e-94, Method: Composition-based stats. Identities = 144/332 (43%), Positives = 217/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVDIEQI---SATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +T+ K G G +TA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDVLEILLNLKALAVKVYGKDETLLTLHKSGIGSITAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A ++M + V +G GY+PA H ++ PIG + +DA Y Sbjct: 118 DGDVEIIKPQHVICHLTDENASIKMRIKVQRGRGYIPASSRVHLEEDSRPIGCLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI ++SY VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPINRISYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDI 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ + + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RE---PEFKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >gi|283457576|ref|YP_003362159.1| DNA-directed RNA polymerase subunit alpha [Rothia mucilaginosa DY-18] gi|283133574|dbj|BAI64339.1| DNA-directed RNA polymerase, alpha subunit [Rothia mucilaginosa DY-18] Length = 330 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 120/330 (36%), Positives = 192/330 (58%), Gaps = 9/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVL Sbjct: 5 QRPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIK +++ D + K+G G +TAGDI+ +E+ N Sbjct: 61 HEFSTVPGVTEDVTEIILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ A EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + Sbjct: 121 PELHLATLNASANFNAELVIERGRGYVTAAQNKAGDSEIGRIPVDSIYSPVLKVTFSVNA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 ESMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + P + P A+ +D+ Sbjct: 301 LTELGLSLKDSPPGFEPA-----ARPLDDE 325 >gi|295101439|emb|CBK98984.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii L2-6] Length = 318 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 135/317 (42%), Positives = 203/317 (64%), Gaps = 5/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 2 MEIERP-KIETASL-SPDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE Sbjct: 60 GVVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 183 +LNP+ I L + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV Sbjct: 120 ILNPEWHIATLGEGGKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 180 NYNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEI 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 240 MVEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 300 EEVMAKLDSLGFKLNTD 316 >gi|294786438|ref|ZP_06751692.1| DNA-directed RNA polymerase, alpha subunit [Parascardovia denticolens F0305] gi|315226001|ref|ZP_07867789.1| DNA-directed RNA polymerase subunit alpha [Parascardovia denticolens DSM 10105] gi|294485271|gb|EFG32905.1| DNA-directed RNA polymerase, alpha subunit [Parascardovia denticolens F0305] gi|315120133|gb|EFT83265.1| DNA-directed RNA polymerase subunit alpha [Parascardovia denticolens DSM 10105] Length = 331 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 186/323 (57%), Gaps = 11/323 (3%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + Q R+ EPL GF +TLGN+LRR L+SS+ GAA+T+V+I G LHE +++ G Sbjct: 9 LTEEQINPQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRISGALHEFTALPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +I+LNIK + L D + + K G G TA DI + V NPD I L Sbjct: 69 VKEDVAEILLNIKELVLTSEYDEPVVMYLRKSGEGEATAADITPPAGVVVANPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E TV +G GYVPA+ ++ E D IG I +D++YSP+ KVSY V+ R Q D Sbjct: 129 AEDGELEIEFTVERGRGYVPAQMNKQEGDEIGRIPVDSIYSPVLKVSYKVDPTRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ ++T SI+ D+VA A L + G+F + V+ +P + Sbjct: 189 FDKLTVDVETKPSISPRDAVASAGSTLVELFGLFHELNNQAEGVEVGPAPVVEEVDPQME 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L L+ RS NCL+ E I +G+L++R+E D+L + NFG+KS+ E+K L +MGL L Sbjct: 249 IPIEDLNLTQRSYNCLKREGIHTIGELVKRSEQDLLDIRNFGQKSIDEVKEKLDSMGLSL 308 Query: 318 G--------MNLPD---WPPESI 329 ++L + PE I Sbjct: 309 KQSPLGLGQIDLEGDNFFSPEDI 331 >gi|119718095|ref|YP_925060.1| DNA-directed RNA polymerase subunit alpha [Nocardioides sp. JS614] gi|158513104|sp|A1SNI8|RPOA_NOCSJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119538756|gb|ABL83373.1| DNA-directed RNA polymerase subunit alpha [Nocardioides sp. JS614] Length = 338 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 124/318 (38%), Positives = 186/318 (58%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +E R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++ID VL Sbjct: 5 QRPTLSE----ETVDEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDNVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+T++ILN+KG+ + D + + K G G VTA DI +EV N Sbjct: 61 HEFSTIEGVKEDVTEVILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L + MEL V +G GYV A ++ ++ IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLKIATLSDKGKLEMELVVERGRGYVSAVQNKGADNEIGRMPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLVIDVETKPSIRPRDAIASAGKTLVELFGLARELNVEAEGIDIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K Sbjct: 241 EQLAADLALPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LVEMGLSLKDSAPGFDPH 318 >gi|295103950|emb|CBL01494.1| DNA-directed RNA polymerase subunit alpha [Faecalibacterium prausnitzii SL3/3] Length = 318 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 136/317 (42%), Positives = 204/317 (64%), Gaps = 5/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 2 MEIERP-KIETASL-SPDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE Sbjct: 60 GVVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 183 +LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV Sbjct: 120 ILNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKV 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 180 NYNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEI 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 240 MVEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 300 EEVMAKLDSLGFKLNTD 316 >gi|261415794|ref|YP_003249477.1| DNA-directed RNA polymerase, alpha subunit [Fibrobacter succinogenes subsp. succinogenes S85] gi|261372250|gb|ACX74995.1| DNA-directed RNA polymerase, alpha subunit [Fibrobacter succinogenes subsp. succinogenes S85] Length = 324 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 137/328 (41%), Positives = 210/328 (64%), Gaps = 5/328 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ W+ L P + + + G+ + + E L RG+ TLGNALRRVL+SSL+GAAI Sbjct: 1 MM---WKSLQMPRSFQKVETGE-DGRYAKFVVEALERGWGITLGNALRRVLLSSLQGAAI 56 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+I+GV E S+I GV ED+TDIILN+K I +K+ D + + + G G VTA D Sbjct: 57 VSVKIEGVDKEFSTIPGVKEDVTDIILNLKSIRVKLLSDHDETLHLDMSGDGEVTAKDFM 116 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++ +L PD I L+ +A + M++ +S G GYV A + ++ PIG+I +DA ++P+ Sbjct: 117 DNPNVTILTPDVHIATLNGNASLSMDVKISCGRGYVVADELKDKDAPIGVIAMDANFNPV 176 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKK 239 +KV+ + R GQ DY++L + I TDGSI ED++A A+++L D L +FINFE + + Sbjct: 177 QKVAMHISDTRVGQKTDYNRLELEITTDGSIDPEDALAYAAKLLVDHLEIFINFEGDLES 236 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +++ + L +V++LELSVRS+NCLR NI +G+L++ E DML+ NFG Sbjct: 237 PEELEMDEERQRIANLLRMRVDDLELSVRSSNCLRMANIHTIGELVRNKENDMLKYKNFG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 RKSLVE+ VL +MGL GM++ D+ + Sbjct: 297 RKSLVELNEVLTSMGLSFGMDVDDYLKD 324 >gi|160942870|ref|ZP_02090109.1| hypothetical protein FAEPRAM212_00346 [Faecalibacterium prausnitzii M21/2] gi|158445771|gb|EDP22774.1| hypothetical protein FAEPRAM212_00346 [Faecalibacterium prausnitzii M21/2] Length = 332 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 136/317 (42%), Positives = 204/317 (64%), Gaps = 5/317 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + +AEPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 16 MEIERP-KIETASL-SPDGRYGKFVAEPLERGFGITLGNSLRRVLLSSLPGVAVTSVKID 73 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ D K V + GP VTA +I+ +DIE Sbjct: 74 GVVHEFSTIEGVKEDVTEIVLNLKGIAAKLYTDGPKTVRVEAVGPCEVTADNIKQGDDIE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKV 183 +LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ KV Sbjct: 134 ILNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKQAIIEKNDINTLPVDSIYTPVLKV 193 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ +DYDKL++ + TDG+I +++V+LA+R+L + L +F+N + + Sbjct: 194 NYNVESTRVGQAIDYDKLTIEVWTDGTINAQEAVSLAARVLTEHLNLFVNLSDEAAGAEI 253 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + AL +EEL+LSVRS NCL+ I + DL+ ++E +M+++ N GRKSL Sbjct: 254 MVEKTNDDKEKALEMTIEELDLSVRSFNCLKRAGINTVEDLVSKSEDEMMKVRNLGRKSL 313 Query: 304 VEIKGVLGTMGLFLGMN 320 E+ L ++G L + Sbjct: 314 EEVMAKLDSLGFKLNTD 330 >gi|307328058|ref|ZP_07607239.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces violaceusniger Tu 4113] gi|306886363|gb|EFN17368.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces violaceusniger Tu 4113] Length = 340 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|187735995|ref|YP_001878107.1| DNA-directed RNA polymerase, alpha subunit [Akkermansia muciniphila ATCC BAA-835] gi|187426047|gb|ACD05326.1| DNA-directed RNA polymerase, alpha subunit [Akkermansia muciniphila ATCC BAA-835] Length = 374 Score = 348 bits (893), Expect = 7e-94, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 190/318 (59%), Gaps = 5/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ +E I + N +AEP G+ HTLGN+LRRVL+ SL GAAIT+V+I G Sbjct: 20 FEVPSRLEKIE-DPNDANHLTFVAEPFENGYGHTLGNSLRRVLLGSLEGAAITSVRIAGA 78 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE SS+ GV ED+T+I+LN+K + K +G + +++ GVVTA DI +V+ Sbjct: 79 QHEFSSLPGVVEDVTEIVLNLKKVKFKHNGKEPRLLSLRVHKQGVVTAADIADDTVYQVV 138 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD +IC LD D + E V G G+ ++ + PIG+I ID+++SP+ +V Y+V+ Sbjct: 139 NPDQIICTLDQDTMFECEFQVRVGRGFATGDENKVPDMPIGVIPIDSIFSPVTRVKYSVQ 198 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ+ DYDKL + + TDG I D++ AS IL+ L +F+N+++ + +E + Sbjct: 199 NTRVGQMTDYDKLILEVWTDGRIAPADAMLQASAILRHHLDVFVNYDDKQVNFEEAPSAV 258 Query: 249 SLPF----NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 L V E+ELSVR+ NCL NI +G L ++E++ML+ NFG+KSL Sbjct: 259 QDEETARLRKLLNMSVNEIELSVRAANCLNNANITTVGQLAMKSESEMLKYRNFGKKSLN 318 Query: 305 EIKGVLGTMGLFLGMNLP 322 EIK L +GL LG+ + Sbjct: 319 EIKDKLLELGLSLGVQVD 336 >gi|310829556|ref|YP_003961913.1| DNA-directed RNA polymerase [Eubacterium limosum KIST612] gi|308741290|gb|ADO38950.1| DNA-directed RNA polymerase [Eubacterium limosum KIST612] Length = 319 Score = 348 bits (893), Expect = 8e-94, Method: Composition-based stats. Identities = 136/316 (43%), Positives = 201/316 (63%), Gaps = 2/316 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I IV E+E + EPL RG+ TLGN+LRR+++SSL G A+T+V+IDG Sbjct: 3 EFEKP--IIEIVEKSEDETYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGVAVTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +I+LN+KG+ ++ D K V I G G +TAGDI T D+E+ Sbjct: 61 VLHEFSTIPGVREDVVEILLNMKGLAAEIFSDEPKTVRIEAEGEGEITAGDIITDADVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A + ME+ + KG GYV + ++ PIG + +D+++SPI+KV++ V Sbjct: 121 LNPDMHIATLAKGATLNMEMRLEKGRGYVASDKNKYPGMPIGTLPVDSIFSPIRKVNFLV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ D+DKL++ + TDG+ T E++++L++++L + L +FI+ + V+ + Sbjct: 181 ENTRVGQITDFDKLTLEVWTDGTTTPEEALSLSAKVLNEHLNLFIDLTDHANSVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + +EELELSVRS+NCLR NI + L Q+TE DM+++ N GRKSL EIK Sbjct: 241 EENEKERIREMSIEELELSVRSSNCLRRANIDTVEKLTQKTEEDMIKVRNLGRKSLNEIK 300 Query: 308 GVLGTMGLFLGMNLPD 323 L +GL L Sbjct: 301 HKLAEIGLSLSQEDEK 316 >gi|313673440|ref|YP_004051551.1| DNA-directed RNA polymerase subunit alpha [Calditerrivibrio nitroreducens DSM 19672] gi|312940196|gb|ADR19388.1| DNA-directed RNA polymerase subunit alpha [Calditerrivibrio nitroreducens DSM 19672] Length = 336 Score = 348 bits (892), Expect = 8e-94, Method: Composition-based stats. Identities = 144/324 (44%), Positives = 210/324 (64%), Gaps = 4/324 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI N++ LIKP +E + + +AEPL RGF T+GN+LRR+L+SS+ G A+ Sbjct: 1 MILMNFKSLIKPKKLE--TSPDNTDRFGVFVAEPLERGFGITIGNSLRRILLSSIEGTAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+ V HE ++I GV ED+ +IILNIK + L ++ KRV I K+G GVV A DI Sbjct: 59 VGVKINDVTHEYTTIPGVLEDVVEIILNIKMLELNLNTHEQKRVYIKKKGEGVVKASDIF 118 Query: 121 TVNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 ++VLNPD I + +A + +EL V +G GYVP++ + + I +I +DA+++P Sbjct: 119 GDPLVQVLNPDQHIATITDPNAELNIELYVERGIGYVPSEDMKGKFSDIHIIPVDAIFTP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK- 238 IK+ ++ VE+AR GQ DYDKL + ++TDGSI ED++ +++IL+D L +FINF+EP Sbjct: 179 IKRANFRVENARVGQSTDYDKLILEVETDGSIAPEDAIGFSAKILKDHLDLFINFDEPDY 238 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E E +++ L K +EELELSVR+ NCL+ I + +L +T+ DML+ NF Sbjct: 239 SEEAEKNEIRNDQILELLDKSIEELELSVRAYNCLKNAEIKTLAELCSKTDNDMLKTKNF 298 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLP 322 GRKSL EIK VL +GL LGM+L Sbjct: 299 GRKSLEEIKKVLSELGLSLGMDLE 322 >gi|308178106|ref|YP_003917512.1| DNA-directed RNA polymerase subunit alpha [Arthrobacter arilaitensis Re117] gi|307745569|emb|CBT76541.1| DNA-directed RNA polymerase alpha chain [Arthrobacter arilaitensis Re117] Length = 333 Score = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 121/316 (38%), Positives = 192/316 (60%), Gaps = 4/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLTEEVVAE----NRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+T+++LNIK +++ D + K+GPG+VTA DI +E N Sbjct: 61 HEFTTVAGVKEDVTELVLNIKNLSVSSEHDEPVVAYLRKQGPGIVTAADITPPAGVEFHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + MELT+ +G GYV A +++ + IG I +D++YSP+ KV++ VE+ Sbjct: 121 PDLHIATLNANGKFDMELTIERGRGYVSAAQNKSADGEIGRIPVDSIYSPVLKVTFRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D+VA A L + G+F + ++ + Sbjct: 181 TRVEQRTDFDRLIVDVETKESITPRDAVASAGTTLVELFGLFRELNTQAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +E+LEL+VRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 AAMAADMALPIEDLELTVRSYNCLKREGIHSVGELVTRSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWP 325 L +GL L + P + Sbjct: 301 LVELGLALKDSPPGFD 316 >gi|207744550|ref|YP_002260942.1| dna-directed rna polymerase alpha chain (rnap alphasubunit) (transcriptase alpha chain) (rna polymerase alpha subunit) protein [Ralstonia solanacearum IPO1609] gi|206595956|emb|CAQ62883.1| dna-directed rna polymerase alpha chain (rnap alphasubunit) (transcriptase alpha chain) (rna polymerase alpha subunit) protein [Ralstonia solanacearum IPO1609] Length = 302 Score = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 140/303 (46%), Positives = 200/303 (66%), Gaps = 4/303 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EP RG+ HTLGNALRRVL+SS+ G A T V I GV+HE S+I GV ED+ +++LN+KG Sbjct: 1 MEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGVVHEYSTIDGVQEDVVNLLLNLKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + K+ V++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V + Sbjct: 61 VVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQ 120 Query: 152 GHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP + ++ +I +DA ++P+++VSY VESAR Q D DKL M I+T+ Sbjct: 121 GRGYVPGNVRKFGDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G I+ E+++ ++RIL DQL +F E + E ++ +P LL+ V++LEL+VR Sbjct: 181 GVISPEEAIRQSARILVDQLSVFAAL-EGTESAAEAAAARAPQIDPILLRPVDDLELTVR 239 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 S NCL+ ENI Y+GDLIQ TE ++L+ N GRKSL EIK VL + GL LGM L +WPP Sbjct: 240 SANCLKAENIYYIGDLIQLTENELLKTPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAG 299 Query: 329 IEE 331 +E+ Sbjct: 300 LEK 302 >gi|219681845|ref|YP_002468231.1| DNA-directed RNA polymerase alpha subunit [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] gi|219624688|gb|ACL30843.1| DNA-directed RNA polymerase alpha subunit [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)] Length = 329 Score = 348 bits (892), Expect = 9e-94, Method: Composition-based stats. Identities = 144/332 (43%), Positives = 216/332 (65%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + ++P ++ + T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIMDFLRPRLVDIEQI---SATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +T+ K G G +TA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDVLEILLNLKALAVKVYGKDETLLTLHKSGIGSITAADIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A ++M + V +G GY+PA H + PIG + +DA Y Sbjct: 118 DGDVEIIKPQHVICHLTDENASIKMRIKVQRGRGYIPASSRVHLEEDARPIGCLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI ++SY VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPINRISYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDI 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ + + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RE---PEFKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK VL + L LGM L +WPP SI Sbjct: 295 LGKKSLTEIKDVLASRSLSLGMRLENWPPSSI 326 >gi|118443967|ref|YP_877227.1| DNA-directed RNA polymerase subunit alpha [Clostridium novyi NT] gi|168187785|ref|ZP_02622420.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum C str. Eklund] gi|158512402|sp|A0PXX5|RPOA_CLONN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118134423|gb|ABK61467.1| DNA-directed RNA polymerase, alpha subunit [Clostridium novyi NT] gi|169294320|gb|EDS76453.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum C str. Eklund] Length = 315 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIECVEA-SEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGGAANSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T++ILNIKG+ LKM+G+ + I +GPG VTA DI + ++E+ Sbjct: 61 VLHEFSTVTGVKEDVTELILNIKGLALKMNGEGPSTIYIDAQGPGEVTAADIISDGNVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ V G GYV ++ E+ PIG I +D++Y+P+K+V++TV Sbjct: 121 MNKDMHIATLDDDGKLYMEINVDNGRGYVTQNKNKKEDLPIGTIPVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I E++++L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSIEVWTNGTIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAALGLGL 310 >gi|21672745|ref|NP_660812.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. Sg (Schizaphis graminum)] gi|22654275|sp|O69232|RPOA_BUCAP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21623391|gb|AAM68023.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola str. Sg (Schizaphis graminum)] Length = 329 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 145/332 (43%), Positives = 214/332 (64%), Gaps = 10/332 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +KP +E + T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIIGFLKPRLVEIEQI---TATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +++ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKELAVKVHGKDEVFMSLNKSGIGSVTASDIIH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ PDH+IC+L D +A ++M + V +G GY+PA H + PIG + +DA Y Sbjct: 118 DGDVEIIKPDHLICHLTDENASIQMRIKVQRGRGYIPASSRIHMEDDLRPIGCLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI ++SY VE+AR Q D DKL + + T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPINRISYNVEAARVEQRTDLDKLIIEMKTNGTIDPEEAIRRAATILSEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K+ ++ + P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N Sbjct: 238 KEPEIKEEKPEFEP---ILLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 G+KSL EIK +L L LGM L WPP SI Sbjct: 295 LGKKSLTEIKDILAARNLSLGMKLEKWPPSSI 326 >gi|331268442|ref|YP_004394934.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum BKT015925] gi|329124992|gb|AEB74937.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum BKT015925] Length = 315 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIECVEA-SEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T++ILNIKG+ LKM+G+ + I +GPG VTA DI + +IEV Sbjct: 61 VLHEFSTVTGVKEDVTELILNIKGLALKMNGEGPSTIYIEAQGPGEVTAADIISDGNIEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ + +G GYV ++ E+ PIG I +D++Y+P+K+V++TV Sbjct: 121 MNKDMHIATLDDDGKLYMEINIDRGRGYVTQNKNKKEDLPIGTIPVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I E++++L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSIEVWTNGTIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAALGLGL 310 >gi|253682321|ref|ZP_04863118.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum D str. 1873] gi|253562033|gb|EES91485.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum D str. 1873] Length = 315 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIECVEA-SEDGTYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T++ILNIKG+ LKM+G+ + I +GPG VTA DI + +IEV Sbjct: 61 VLHEFSTVTGVKEDVTELILNIKGLALKMNGEGPSTIYIEAQGPGEVTAADIISDGNIEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ + +G GYV ++ ++ PIG I +D++Y+P+K+V++TV Sbjct: 121 MNKDMHIATLDDDGKLYMEINIDRGRGYVTQNKNKKDDLPIGTIPVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKLS+ + T+G+I E++++L+++IL + +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLSIEVWTNGTIQPEEAISLSAKILIEHFKLFMTLTDHADNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTIDDMMKVRNLGKKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLAALGLGL 310 >gi|323340399|ref|ZP_08080656.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ruminis ATCC 25644] gi|323092175|gb|EFZ34790.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ruminis ATCC 25644] Length = 314 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 201/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I +E N + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDG Sbjct: 3 EFEKPK----IHKIEESNNHGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T+IILN+K + LK++ + + + GP VTAGDI T +D+E+ Sbjct: 59 VLHEFSTVKGVLEDVTEIILNLKKVALKLNSEEPQSLEFDIVGPKEVTAGDISTNSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A + ++ PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKADDMPIGVLAIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F+N + K + + Sbjct: 179 QVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLALFVNLTDEAKNAEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ +I + L ++E+DM+++ N GRKSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRASINTVQALTNKSESDMMKVRNLGRKSLEE 298 Query: 306 IKGVLGTMGLFL 317 +K L +GL L Sbjct: 299 VKAKLADLGLSL 310 >gi|297618355|ref|YP_003703514.1| DNA-directed RNA polymerase, subunit alpha [Syntrophothermus lipocalidus DSM 12680] gi|297146192|gb|ADI02949.1| DNA-directed RNA polymerase, alpha subunit [Syntrophothermus lipocalidus DSM 12680] Length = 315 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 135/311 (43%), Positives = 201/311 (64%), Gaps = 4/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEEN-RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P + + +N + EPL RGF TLGN+LRRVL+SSL GAAI+ ++ID Sbjct: 3 EIERPR---IECVERTPDNRYGKFVIEPLERGFGITLGNSLRRVLLSSLPGAAISTIKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+I GV ED T+IILN+K + L+ D K V + +RGP V AGDI +IE Sbjct: 60 GVLHEFSTIPGVVEDTTEIILNLKQVVLRYDYDQPKTVFVEQRGPKEVKAGDIIRDAEIE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ I L+ D + ME+TV +G GYV A + + + IGLI ID++++PI KV++T Sbjct: 120 ILNPELHIATLNEDGRLAMEMTVERGRGYVSADQKKKDENVIGLIPIDSIFTPINKVNFT 179 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR G+V DYD+L + + T+GSI+ E++V+L++ IL D L +F + V+ + Sbjct: 180 VENARVGRVTDYDRLMLEVWTNGSISPEEAVSLSAHILIDHLKLFTEINDSYSPVEILVE 239 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + L +EELELSVR++N L+ NI +GDL+++T +M ++ N G+KSL EI Sbjct: 240 KEEDQKDKILDMSIEELELSVRASNGLKRANINTVGDLVEKTREEMSKIRNLGQKSLDEI 299 Query: 307 KGVLGTMGLFL 317 + L +GL Sbjct: 300 ERKLKELGLSF 310 >gi|327451569|gb|EGE98223.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL092PA1] Length = 338 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 186/329 (56%), Gaps = 4/329 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IILN+KG+ L D + + K G G + A DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILNLKGLVLSSEEDEPVAMYLRKTGAGEIPAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNVEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +GL L + P + P + E + D Sbjct: 301 LTELGLALKDSAPGFDPLAAAEAYDEAND 329 >gi|255020793|ref|ZP_05292851.1| DNA-directed RNA polymerase alpha subunit [Acidithiobacillus caldus ATCC 51756] gi|254969789|gb|EET27293.1| DNA-directed RNA polymerase alpha subunit [Acidithiobacillus caldus ATCC 51756] Length = 339 Score = 347 bits (891), Expect = 1e-93, Method: Composition-based stats. Identities = 147/324 (45%), Positives = 206/324 (63%), Gaps = 5/324 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +L++P + + VL R + PL RGF HTLGNALRRVL+SSL+GAA+T V+I+ Sbjct: 5 SDLLRPEHYDLEVL---SPRRARISLGPLERGFGHTLGNALRRVLLSSLKGAAVTEVEIE 61 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE SSI+GV ED+ DI+LN+K + ++ G + VT+ KRGPG+VT DI + IE Sbjct: 62 GVLHEYSSIEGVQEDVVDILLNLKQLAVRAQGRNEVMVTLRKRGPGLVTGADIIAEHGIE 121 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVP-AKHHRTENDPIGLITIDALYSPIKKVSY 185 V NP+ VI L D + M L G GY P A ++ IG++ +DA YSP+ +VS+ Sbjct: 122 VANPEQVIATLTRDVELVMHLRFDTGRGYEPAATRRQSHEKRIGVLALDASYSPVHRVSF 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VESAR Q D D+L + ++T+G + +V A+RIL+ QL +F E E + Sbjct: 182 QVESARVEQRTDLDRLVLDVETNGVVEPLWAVQEAARILRQQLAVFGGA-EAATEREAHA 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 P L + V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N GRKSL E Sbjct: 241 APVHEDLLPLLARPVDDLELTVRSANCLKAEDIFYIGDLVQKTEQELLKAPNLGRKSLTE 300 Query: 306 IKGVLGTMGLFLGMNLPDWPPESI 329 IK VL GL LGM + +WPPE++ Sbjct: 301 IKEVLDKNGLTLGMRIENWPPENL 324 >gi|237786334|ref|YP_002907039.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium kroppenstedtii DSM 44385] gi|237759246|gb|ACR18496.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium kroppenstedtii DSM 44385] Length = 337 Score = 347 bits (890), Expect = 1e-93, Method: Composition-based stats. Identities = 126/313 (40%), Positives = 183/313 (58%), Gaps = 3/313 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I+GVLHE +++ G Sbjct: 9 LTEEYIDSSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIEGVLHEFTTVPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED++DIILNIKG+ L D + I K GPG VTAGDI +E+ NPD I L Sbjct: 69 VTEDVSDIILNIKGLVLSSDSDDPVTMYIRKEGPGEVTAGDIMPPAGVEIHNPDMHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + +EL V +G GYVPA E G I +D +YSP+ KVSY VE+ R Q D Sbjct: 129 NEQGKLDIELVVERGRGYVPAAQATGEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTD 185 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + ++T SIT D++A A L + G+ + ++ + + A Sbjct: 186 FDRLVIDVETKNSITARDAMASAGGTLVELFGLARELNTAAEGIEIGPSPQESEHIQAYG 245 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 246 MPIEDLNFSVRSYNCLKREEIHTVGELASRTESDLLDIRNFGQKSINEVKVKLAGLGLAL 305 Query: 318 GMNLPDWPPESIE 330 + IE Sbjct: 306 KDAPEGYDVSEIE 318 >gi|314924147|gb|EFS87978.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL001PA1] Length = 338 Score = 347 bits (890), Expect = 1e-93, Method: Composition-based stats. Identities = 121/329 (36%), Positives = 185/329 (56%), Gaps = 4/329 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV Sbjct: 5 QRPTLTE----ESISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+G ED+T+IIL ++G L D + + K G G VTA DI + + N Sbjct: 61 HEFSTIEGCVEDVTEIILTLRGFVLPSEEDEPVAMYLRKSGAGEVTAADINPPAGVTIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ I L+ D MEL V +G GYV + + N IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PELHIATLNDDGRFEMELIVERGRGYVSSALNDDPNAEIGRIAVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ Sbjct: 181 TRVEQRTDFDKLVVDVETKPSILPRDAIASAGKTLVELFGLTRELNAEAEGIEIGSGPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +L VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K Sbjct: 241 EEYAESLGTPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +GL L + P + P + E + D Sbjct: 301 LTELGLALKDSAPGFDPLAAAEAYDEAND 329 >gi|313836061|gb|EFS73775.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL037PA2] gi|314929597|gb|EFS93428.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL044PA1] gi|314970628|gb|EFT14726.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium acnes HL037PA3] gi|328906195|gb|EGG25970.1| DNA-directed RNA polymerase, alpha subunit [Propionibacterium sp. P08] Length = 338 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 118/314 (37%), Positives = 181/314 (57%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + E R+ + EPL GF +T+GN+LRR L+SS+ GA++T+++I+GV HE S+I+G Sbjct: 9 LTEETISEFRSKFVIEPLEPGFGYTIGNSLRRTLLSSIPGASVTSIKIEGVQHEFSTIEG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+T+IILN+KG+ L D + + K G G + A DI + + NP I L Sbjct: 69 CVEDVTEIILNLKGLVLSSEEDEPVAMYLRKSGTGEIIAADINPPAGVTIHNPGLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + D MEL V +G GYV + + + IG I +D++YSP+ KV+Y VE+ R Q D Sbjct: 129 NDDGRFEMELVVERGRGYVSSALNDDPSAEIGRIAVDSIYSPVLKVTYKVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SI D+VA A + L + G+ + ++ + +L Sbjct: 189 FDKLVVDVETKPSILPRDAVASAGKTLVELFGLTRELNAEAEGIEIGAGPVDEEYAESLS 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VEEL L+VRS NCL+ E I +G+L+ R+E D+L + NFG KS+ E+K L +GL L Sbjct: 249 TPVEELNLTVRSYNCLKREGIHTVGELVSRSEQDLLAIRNFGSKSIDEVKEKLTELGLAL 308 Query: 318 GMNLPDWPPESIEE 331 + P + P + E Sbjct: 309 KDSAPGFDPLAAAE 322 >gi|261367774|ref|ZP_05980657.1| DNA-directed RNA polymerase, alpha subunit [Subdoligranulum variabile DSM 15176] gi|282570572|gb|EFB76107.1| DNA-directed RNA polymerase, alpha subunit [Subdoligranulum variabile DSM 15176] Length = 319 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 133/320 (41%), Positives = 204/320 (63%), Gaps = 5/320 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+ +P IE L + + EPL RGF TLGN+LRRVL+SSL G A+T+V+ID Sbjct: 2 MEIERP-KIETASL-SPDGRYGKFVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSVKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S+I+GV ED+T+I+LN+KGI K+ G+S K V + GP + AG I+ +D+E Sbjct: 60 GVVHEFSTIEGVREDVTEIVLNLKGIAAKIYGESPKTVRVEAVGPCELIAGSIKGGDDLE 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR---TENDPIGLITIDALYSPIKKV 183 +LNP+ I L A + MELT KG GYVPA+ ++ E + I + +D++Y+P+ K Sbjct: 120 ILNPEWHIATLGEGAKLVMELTFDKGRGYVPAERNKLALIEKNDISTLPVDSIYTPVLKA 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTV+ R GQ+ DYDKL + + TDG+ +++++LA+R+L + L +F+N + E + Sbjct: 180 NYTVDHTRVGQITDYDKLIIEVWTDGTCNAQEALSLAARVLTEHLNLFVNLCDETGETEI 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ AL +EEL+LSVRS NCL+ I +GDLI ++E +M+++ N GRKSL Sbjct: 240 MVDNDDQGREKALEMTIEELDLSVRSFNCLKRAGINTVGDLINKSEDEMMKVRNLGRKSL 299 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 E+ L ++G L + + Sbjct: 300 EEVMAKLDSLGFSLTKDDEN 319 >gi|28212154|ref|NP_783098.1| DNA-directed RNA polymerase subunit alpha [Clostridium tetani E88] gi|41688695|sp|Q890R0|RPOA_CLOTE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|28204598|gb|AAO37035.1| DNA-directed RNA polymerase alpha chain [Clostridium tetani E88] Length = 315 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + E + + EPL RG+ TLGNALRR+L+SSL G A+ +++I+ Sbjct: 3 EIEKP-KIECIEM-TENGSYGKFVVEPLERGYGITLGNALRRILLSSLPGVAVNSIKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T+IILNIK + LKM+G+ K + I +GPGVVTA DI+T +D+E+ Sbjct: 61 VLHEFSTVKGVKEDVTEIILNIKLLALKMTGEGPKTIYIDAKGPGVVTAADIKTDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + +E+TV +G GYV ++ E PIG I ID++Y+P+K+V++TV Sbjct: 121 INKDLHIATLDDDGKLYIEMTVDRGRGYVSQNRNKVEGMPIGTIPIDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + R GQ+ DYDKL++ I T+G+I +D+++L+++IL + +F+ + +V+ + Sbjct: 181 ANTRVGQITDYDKLTLEIWTNGTIMPDDAISLSAKILIEHFKLFMTLTDHADDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +RT DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERTVEDMMKVRNLGRKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L + L L + Sbjct: 301 QKLEALELGLKQS 313 >gi|157100341|emb|CAP03336.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 141/329 (42%), Positives = 214/329 (65%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMAGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|302536278|ref|ZP_07288620.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. C] gi|302445173|gb|EFL16989.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sp. C] Length = 340 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|309812375|ref|ZP_07706130.1| DNA-directed RNA polymerase, alpha subunit [Dermacoccus sp. Ellin185] gi|308433680|gb|EFP57557.1| DNA-directed RNA polymerase, alpha subunit [Dermacoccus sp. Ellin185] Length = 339 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 127/329 (38%), Positives = 193/329 (58%), Gaps = 7/329 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V E+R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV Sbjct: 5 QRPTLSEDVV----SESRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQ 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+T++ILNIKG+ + D + + K+G GVVTA DI +EV N Sbjct: 61 HEFSTIPGVKEDVTEVILNIKGLVVSSEHDEPVVMYLRKQGAGVVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + MELTV +G GYV A +++ IG I +D++YSP+ V+Y VE+ Sbjct: 121 PDLEIATLNDKGSIEMELTVERGRGYVSAALNKSAEQEIGRIPVDSIYSPVLAVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T S+ D++A A L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKNSMAPRDAMASAGSTLVELFGLARELNVEAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+ Sbjct: 241 AALAEDLALPIEDLDLTVRSYNCLKREGIHTVGELVSRSEADLLDIRNFGSKSIHEVADK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L MGL L + P + I + +Y++ Sbjct: 301 LRDMGLQLKDSPPGFDASVIAD---RYDE 326 >gi|284033971|ref|YP_003383902.1| DNA-directed RNA polymerase subunit alpha [Kribbella flavida DSM 17836] gi|283813264|gb|ADB35103.1| DNA-directed RNA polymerase, alpha subunit [Kribbella flavida DSM 17836] Length = 341 Score = 347 bits (890), Expect = 2e-93, Method: Composition-based stats. Identities = 125/331 (37%), Positives = 192/331 (58%), Gaps = 5/331 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V E+R+ + EPL GF +TLGN++RR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPTLTEEVV----GEHRSRFVIEPLEPGFGYTLGNSIRRTLLSSIPGAAVTSIKVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED T +ILN+K + + D + + K+GPG VTA DI +EV N Sbjct: 61 HEFSTVAGVKEDATQLILNLKDLVVSSEHDEPVTMYLRKQGPGDVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + MEL V +G GYV A +++ + IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLKIATLNEKGRLEMELVVERGRGYVSAIQNKSADAEIGRMPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T S+ D+VA A + L + G+ + + + Sbjct: 181 TRVEQRTDFDRLVVDVETKPSMLPRDAVASAGKTLVELFGLARELNVEAEGIDIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K Sbjct: 241 EQMAADLALPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGSKSIDEVKLK 300 Query: 310 LGTMGLFLGMNLPDWP-PESIEELAKKYEDK 339 L MGL L + P + + E ED+ Sbjct: 301 LAEMGLSLKDSPPGFDLRAAAEAYGDDAEDE 331 >gi|167749410|ref|ZP_02421537.1| hypothetical protein EUBSIR_00364 [Eubacterium siraeum DSM 15702] gi|167657582|gb|EDS01712.1| hypothetical protein EUBSIR_00364 [Eubacterium siraeum DSM 15702] Length = 319 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 132/324 (40%), Positives = 208/324 (64%), Gaps = 7/324 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M++K + KP IE + L + + + EPL G+ +TLGN+LRRVL+SSL G A+ Sbjct: 1 MLEK----IEKP-VIETVKL-KPDGTYGMFTLEPLECGYGNTLGNSLRRVLLSSLPGVAV 54 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+IDGV HE S+I GV ED+T+IILNIKG+ KM G+ + V I G VTAGDI+ Sbjct: 55 TSVKIDGVQHEFSTIPGVKEDVTEIILNIKGLIAKMYGECPQTVYIEAEGECDVTAGDIK 114 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSP 179 T ++IE+L+P I L A + ME+T+ KG GYV A+ ++ + P IG+I +D++Y+P Sbjct: 115 TDSEIEILDPGMHIATLGPGAKLYMEITLDKGRGYVSAEKNKQQLQPVIGIIAVDSIYTP 174 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + KV+YTVE+ R GQ DYDKL + + TDG+I+ +++V+ A+++L D L F+ + Sbjct: 175 VLKVNYTVENTRVGQRTDYDKLILEVWTDGTISAKEAVSYAAKLLVDHLQPFVELSDEAI 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + + + L +++L+LSVRS NCL+ NI + DLI +++ DM+++ N G Sbjct: 235 QPELMADKSESGKDKLLEMTIDDLDLSVRSFNCLKRANINTVDDLINKSQGDMMKVRNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPD 323 +KS E++ L ++G L + + Sbjct: 295 KKSFEEVRAKLQSLGFDLASDDDN 318 >gi|311744778|ref|ZP_07718574.1| DNA-directed RNA polymerase subunit alpha [Aeromicrobium marinum DSM 15272] gi|311311895|gb|EFQ81816.1| DNA-directed RNA polymerase subunit alpha [Aeromicrobium marinum DSM 15272] Length = 336 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 123/334 (36%), Positives = 192/334 (57%), Gaps = 8/334 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILN+K + + D + + GVVT +I+ +EV N Sbjct: 61 HEFSTVPGVTEDVTEIILNLKNLVVSSENDEPVVMYLRADTAGVVTGANIEPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ + +EL V +G GYV A ++T ++ IG + ID++YSP+ KV+Y VE+ Sbjct: 121 PDLHVATLNDKGRLEIELVVERGRGYVSAVQNKTGDEEIGRMPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SI D++A A L + G+ + + + Sbjct: 181 TRVEQRTDFDRLVVDVETKKSILPRDAIASAGSTLVELFGLARELNVEAEGIDIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L +VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K Sbjct: 241 EQLAADLALPIEDLNFTVRSYNCLKREGIHTVGELITRSEQDLLDIRNFGSKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESI----EELAKKYEDK 339 L MGL L + + P ++ +E A ED+ Sbjct: 301 LAEMGLALKDSPAGFDPSAVIADYDEDASFAEDE 334 >gi|296130462|ref|YP_003637712.1| DNA-directed RNA polymerase, alpha subunit [Cellulomonas flavigena DSM 20109] gi|296022277|gb|ADG75513.1| DNA-directed RNA polymerase, alpha subunit [Cellulomonas flavigena DSM 20109] Length = 337 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 122/318 (38%), Positives = 191/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E ++ E+R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTEEVI----SEHRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+T+IILNIK + + D + + K+G G VT DI +EV N Sbjct: 61 HEFSTIPGVKEDVTEIILNIKNLVVSSENDEPVVMYLRKQGAGEVTGADIVPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ + +ELTV +G GYV A +++ + IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PELHLATLNEKGKLEIELTVERGRGYVSANQNKSFDAEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + +++ +I+ D++A A R L + G+ + ++ + Sbjct: 181 TRVEQRTDFDKLIVDVESKPAISPRDALASAGRTLVELFGLARELNVEAEGIEIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L+L++RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEDLQLTIRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSITEVKEK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + D+ P Sbjct: 301 LAELGLTLKDSPLDFDPS 318 >gi|254383145|ref|ZP_04998499.1| DNA-directed RNA polymerase alpha subunit [Streptomyces sp. Mg1] gi|194342044|gb|EDX23010.1| DNA-directed RNA polymerase alpha subunit [Streptomyces sp. Mg1] Length = 340 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 129/318 (40%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPSLTEEVV----DEYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TDIILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDIILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I ID++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQLGQEIGRIPIDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLALKDSPPGFDPT 318 >gi|15896355|ref|NP_349704.1| DNA-directed RNA polymerase subunit alpha [Clostridium acetobutylicum ATCC 824] gi|20139603|sp|Q97EK6|RPOA_CLOAB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|15026170|gb|AAK81044.1|AE007807_2 DNA-dependent RNA polymerase alpha subunit [Clostridium acetobutylicum ATCC 824] gi|325510511|gb|ADZ22147.1| DNA-directed RNA polymerase subunit alpha [Clostridium acetobutylicum EA 2018] Length = 315 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 203/313 (64%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + + EPL RG+ TLGN+LRR+L+SSL G A +V+I+G Sbjct: 3 EIEKP-KIECVE-STEDGSYGRFVVEPLERGYGITLGNSLRRILLSSLPGVAANSVRIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T++ILNIK + LKM G+ K + I GPG VT DI+T +EV Sbjct: 61 VLHEFSTVKGVKEDVTELILNIKALCLKMEGEDSKVIYIDAHGPGEVTGADIRTDGSVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ V++G GYV ++ ++ PIG I +D++YSPIK+V++TV Sbjct: 121 INKDLHIATLDEDGKLYMEIEVNRGRGYVTQNKNKRDDMPIGTIAVDSIYSPIKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R Q+ DYDKL++ + +G+I E++++LA++IL + +F+ + +V+ + Sbjct: 181 ENTRVAQITDYDKLTIEVWGNGTIRPEEAISLAAKILIEHFKLFMTLTDHADDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L QR+ DM+++ N GRKSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTQRSMEDMMKVRNLGRKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L +N Sbjct: 301 QKLKALGLSLKLN 313 >gi|291532118|emb|CBK97703.1| DNA-directed RNA polymerase subunit alpha [Eubacterium siraeum 70/3] gi|291558142|emb|CBL35259.1| DNA-directed RNA polymerase subunit alpha [Eubacterium siraeum V10Sc8a] Length = 319 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 133/324 (41%), Positives = 208/324 (64%), Gaps = 7/324 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M++K + KP IE + L + + + EPL G+ +TLGN+LRRVL+SSL G A+ Sbjct: 1 MLEK----IEKP-VIETVKL-KPDGTYGMFTLEPLECGYGNTLGNSLRRVLLSSLPGVAV 54 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+IDGV HE S+I GV ED+T+IILNIKG+ KM G+ K V I G VTAGDI+ Sbjct: 55 TSVKIDGVQHEFSTIPGVKEDVTEIILNIKGLIAKMYGECPKTVYIEAEGECDVTAGDIK 114 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSP 179 T ++IE+L+P I L A + ME+T+ KG GYV A+ ++ + P IG+I +D++Y+P Sbjct: 115 TDSEIEILDPGMHIATLGPGAKLYMEITLDKGRGYVSAEKNKQQLQPVIGIIAVDSIYTP 174 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + KV+YTVE+ R GQ DYDKL + + TDG+I+ +++V+ A+++L D L F+ + Sbjct: 175 VLKVNYTVENTRVGQRTDYDKLILEVWTDGTISAKEAVSYAAKLLVDHLQPFVELSDEAI 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + + + L +++L+LSVRS NCL+ NI + DLI +++ DM+++ N G Sbjct: 235 QPELMADKSESGKDKLLEMTIDDLDLSVRSFNCLKRANINTVDDLINKSQGDMMKVRNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPD 323 +KS E++ L ++G L + + Sbjct: 295 KKSFEEVRAKLQSLGFDLASDDDN 318 >gi|308171334|gb|ADO15986.1| RpoA [Vibrio scophthalmi LMG 19158] Length = 321 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 140/326 (42%), Positives = 212/326 (65%), Gaps = 11/326 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+ Sbjct: 2 SVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVE 58 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 59 IEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDG 118 Query: 124 DIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSP 179 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP Sbjct: 119 DVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 179 VDKIAYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRV 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 239 PEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWP 325 +KSL EIK VL + GL LGM L +WP Sbjct: 296 KKSLTEIKDVLASRGLSLGMRLENWP 321 >gi|29826981|ref|NP_821615.1| DNA-directed RNA polymerase subunit alpha [Streptomyces avermitilis MA-4680] gi|41688664|sp|Q82QR5|RPOA2_STRAW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|29604078|dbj|BAC68150.1| putative RNA polymerase alpha subunit [Streptomyces avermitilis MA-4680] Length = 338 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 194/318 (61%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T++++DGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRVDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L+ +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLVMPIEELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LAGMGLGLKDSPPGFDPT 318 >gi|283780399|ref|YP_003371154.1| DNA-directed RNA polymerase subunit alpha [Pirellula staleyi DSM 6068] gi|283438852|gb|ADB17294.1| DNA-directed RNA polymerase, alpha subunit [Pirellula staleyi DSM 6068] Length = 330 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 125/325 (38%), Positives = 193/325 (59%), Gaps = 5/325 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + W+ P+ + +AEP RGF T+GN+LRR+L+SSL G+AIT Sbjct: 1 MHIRWRGFELPSIVNCDAT-TLTSTYGKFVAEPFERGFGTTIGNSLRRILLSSLEGSAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++I G HE ++I GV ED+TDI+LN+K + +K +S + +T+ K G++T D+Q Sbjct: 60 QIKIRGAQHEFTTIPGVLEDVTDIVLNVKSLVVKNHSESTRVITVEKNTTGLITGADVQV 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +D+E++N +HV+ L + ME+ V G GY+PA H T + IG+I IDA++SPI Sbjct: 120 DSDVEIINKNHVLATLTDNVPFMMEMVVENGRGYIPATEHSTGDHEIGIIPIDAVFSPIT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y VE R GQ +YD+L++ I T+GSI E ++ +++IL+ L F+ + E V Sbjct: 180 RVRYEVEETRVGQKTNYDRLTLEIWTNGSIHPEMALVESAKILRKHLNPFVQYSELGPRV 239 Query: 242 KEDINVKSLPFNPALL----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 S + AL + EL+LSVR+ NCL ENI + DL+Q+TE +L + N Sbjct: 240 HAPSRGGSPVVDGALDGKLAMSLAELKLSVRAMNCLESENIHTVRDLVQKTEDQLLEVRN 299 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLP 322 FG +L E+K L +G++LGM +P Sbjct: 300 FGETTLNEVKDKLHDLGMYLGMRVP 324 >gi|227497208|ref|ZP_03927456.1| DNA-directed RNA polymerase [Actinomyces urogenitalis DSM 15434] gi|226833339|gb|EEH65722.1| DNA-directed RNA polymerase [Actinomyces urogenitalis DSM 15434] Length = 333 Score = 346 bits (889), Expect = 2e-93, Method: Composition-based stats. Identities = 132/308 (42%), Positives = 188/308 (61%), Gaps = 3/308 (0%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V EE+ R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGV Sbjct: 5 QRPTLSEEVV---EEDRRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIDGVP 61 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +I GV ED+T IILNIK I L D + + K GPGVVTAGDI +E+ N Sbjct: 62 HEFRTIAGVKEDVTQIILNIKEIVLSSENDEPVVMYLRKSGPGVVTAGDITPPAGVEIHN 121 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD VI NL+ + +ELTV +G GYV A ++ N I I +D++YSP+KKVSY VE+ Sbjct: 122 PDLVIANLNEKGKLEIELTVERGRGYVSANQNKDPNGEISRIPVDSIYSPVKKVSYAVEA 181 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T SIT D++A A + L + G+ + ++ + Sbjct: 182 TRVEQRTDFDRLVVDVETKASITPRDALASAGKTLVELFGLARELNVEAEGIEVGPSPMD 241 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L ++EL+L RS+N L+ E I +G+L+ R+EAD+L + NFG KS+ EIK Sbjct: 242 QALQQDLALMIDELDLQARSSNALKREGIHTVGELVARSEADLLDIRNFGAKSISEIKEK 301 Query: 310 LGTMGLFL 317 L +GL L Sbjct: 302 LAELGLSL 309 >gi|239980029|ref|ZP_04702553.1| DNA-directed RNA polymerase subunit alpha [Streptomyces albus J1074] gi|291451886|ref|ZP_06591276.1| DNA-directed RNA polymerase subunit alpha [Streptomyces albus J1074] gi|291354835|gb|EFE81737.1| DNA-directed RNA polymerase subunit alpha [Streptomyces albus J1074] Length = 340 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 192/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG + +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNAKGKLEMELTVERGRGYVSAVQNKQAGQEIGRVPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNVDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L M L L + P + P Sbjct: 301 LAGMSLALKDSPPGFDPT 318 >gi|169335657|ref|ZP_02862850.1| hypothetical protein ANASTE_02077 [Anaerofustis stercorihominis DSM 17244] gi|169258395|gb|EDS72361.1| hypothetical protein ANASTE_02077 [Anaerofustis stercorihominis DSM 17244] Length = 315 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN IE + + + EPL RG+ T+GN+LRR+++SSL GAA+T V+I+ Sbjct: 3 EFQKPN-IEIAEI-SADRTYGKFVVEPLERGYGTTIGNSLRRIMLSSLPGAAVTNVKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I GV ED+ IILN+K +++K+ D V I G G VTAGDI +D+E+ Sbjct: 61 VLHEFATIDGVAEDVLQIILNLKDLSVKLHSDGPVDVHIHSEGEGEVTAGDIICDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I +L DAV+ M +T+ G GYVP++ ++ E+ PIG + +D++++P+KK ++ V Sbjct: 121 VNPDLHIASLMADAVLDMTITIDGGTGYVPSEKNKKEDMPIGTLPVDSIFTPVKKANFAV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G V DYDKL++ + TDG+I+ E++V+LA++++ D L +FI+ + Sbjct: 181 ENTRVGNVTDYDKLTIEVWTDGTISPEEAVSLAAKVINDHLQLFIDMNANLPNASLMVER 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L ++ELELSVRS+NCL+ +I + +LI R+E DM ++ N G+KSL EIK Sbjct: 241 EENEKEKVLEMSIDELELSVRSSNCLKRTSINTVEELISRSEEDMSKVRNLGKKSLNEIK 300 Query: 308 GVLGTMGLFL 317 L +GL Sbjct: 301 KKLAEIGLSF 310 >gi|210623215|ref|ZP_03293654.1| hypothetical protein CLOHIR_01604 [Clostridium hiranonis DSM 13275] gi|210153752|gb|EEA84758.1| hypothetical protein CLOHIR_01604 [Clostridium hiranonis DSM 13275] Length = 315 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ I L E+ + EPL RG+ T+GNALRR+L+SSL G A+ AV+I+G Sbjct: 3 EIEKP-KVDIIEL-SEDFRYGKFVVEPLERGYGITIGNALRRILLSSLPGVAVNAVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IIL +K ++ + G+ ++ + I +GP VT DI D+E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIILTLKELSATIDGEGNRTLKIEAQGPCTVTGADIICPPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD + + M++ V KG GYVPA+ ++TEN PIG++ +D++Y+P++KV+Y V Sbjct: 121 INKDLKIATLDEGSKLNMDIHVDKGRGYVPAEENKTENMPIGVLPVDSIYTPVEKVNYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQKSDYDKLTLEVWTNGSINPQEGISLAAKVLVEHLKLFIDLTEHVSNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLDELGLGL 310 >gi|308171330|gb|ADO15984.1| RpoA [Vibrio brasiliensis LMG 20546] Length = 318 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 142/324 (43%), Positives = 212/324 (65%), Gaps = 11/324 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+ Sbjct: 1 TEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIE 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+ Sbjct: 58 GVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDV 117 Query: 126 EVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ Sbjct: 118 EIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVD 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 KIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 EKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWP 325 SL EIK VL + GL LGM L +WP Sbjct: 295 SLTEIKDVLASRGLSLGMRLENWP 318 >gi|269958607|ref|YP_003328394.1| DNA-directed RNA polymerase subunit alpha [Anaplasma centrale str. Israel] gi|269848436|gb|ACZ49080.1| DNA-directed RNA polymerase subunit alpha [Anaplasma centrale str. Israel] Length = 368 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 164/348 (47%), Positives = 233/348 (66%), Gaps = 12/348 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 I +W L +P++I+ + G + +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 21 ISDHWDRLTRPSSIKVVGDGDVSRS-AELIVEPLESGFALTLGNALRRVMMSSLRGFAVY 79 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++++GV HE++S+ GV ED+ D++LN+ + +K+ + + + +GPG VTA I Sbjct: 80 GIEVEGVSHELTSLSGVREDVADLVLNLSMLRVKLLTSESRVLRLVAKGPGEVTAAAIGD 139 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-------TENDPIGLITID 174 +LN D IC L DA M++ V+ G GYVPA +R T G I + Sbjct: 140 SEGCVILNKDLHICTLGKDANFSMKIYVNSGKGYVPASEYRAASRSGATSEAGPGFIATN 199 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ALYSP+KKV++ +ES+R GQ DYDKL ++++TDGSI+ +++VA+++R+LQDQL FI Sbjct: 200 ALYSPVKKVAFRIESSRIGQFTDYDKLVISVETDGSISPDEAVAVSARVLQDQLQAFIGS 259 Query: 235 EEPKKEV----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 EE + E K D +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+ Sbjct: 260 EEVEGESPVRKKVDKEEGALPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQKTES 319 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 DMLR NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 320 DMLRTPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 367 >gi|254517499|ref|ZP_05129555.1| RNA polymerase subunit alpha [Clostridium sp. 7_2_43FAA] gi|226911248|gb|EEH96449.1| RNA polymerase subunit alpha [Clostridium sp. 7_2_43FAA] Length = 315 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I E + EPL RG+ TLGNALRR+L+SSL GAA T+V+IDG Sbjct: 3 EIEKP-IIECIEA-NENGTYGKYVIEPLERGYGITLGNALRRILLSSLPGAAPTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T+IILNIK + L M+G+ K + I +GPGVVT DI+T D+EV Sbjct: 61 VLHEFSTVQGVKEDVTEIILNIKSLALIMNGEGPKTIYIDAQGPGVVTGADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ D I LD +A + ME+TV++G GYV +++E+ P+ I +D++Y+P+K+V++TV Sbjct: 121 VSKDLHIATLDDNAKLYMEITVNRGRGYVTQNKNKSEDLPLSAIAVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ I T+G+I +++++L+++IL + +F++ + +V+ I Sbjct: 181 ENTRVGQITDYDKLTLEIWTNGTIKIDEAISLSAKILIEHFKLFMSLGDSTNDVEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ I + +L ++ DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTVEELDLSVRSYNCLKRAGINTVQELAGKSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 RKLKELGLGL 310 >gi|326332227|ref|ZP_08198507.1| DNA-directed RNA polymerase, alpha subunit [Nocardioidaceae bacterium Broad-1] gi|325949933|gb|EGD41993.1| DNA-directed RNA polymerase, alpha subunit [Nocardioidaceae bacterium Broad-1] Length = 338 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 186/318 (58%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E EE R+ + EPL GF +TLGN+LRR L+SS+ GA++T+++IDGVL Sbjct: 5 QRPTLSE----ESVEEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGASVTSIKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+T+IILN+KG+ + D + + K G G VTA DI +EV N Sbjct: 61 HEFSTIEGVKEDVTEIILNLKGLVVSSEHDEPVTMYLRKSGAGDVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L + +EL V +G GYV A ++ + IG I +D++YSP+ KVSY VE+ Sbjct: 121 PDLKIATLSDKGKIELELVVERGRGYVSAVQNKGAENEIGRIPVDSIYSPVLKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLVIDVETKPSIAPRDAIASAGKTLVELFGLARELNVDAEGIDIGPSPVD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L VE+L+L+VRS NCL+ E I +G+LI R+E D+L + NFG KS+ E+K Sbjct: 241 EQLAADLALPVEDLQLTVRSYNCLKREGIHTVGELISRSEQDLLDIRNFGAKSIDEVKLK 300 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 301 LHEMGLSLKDSAPGFDPS 318 >gi|315640136|ref|ZP_07895258.1| DNA-directed RNA polymerase subunit alpha [Enterococcus italicus DSM 15952] gi|315484113|gb|EFU74587.1| DNA-directed RNA polymerase subunit alpha [Enterococcus italicus DSM 15952] Length = 312 Score = 346 bits (888), Expect = 3e-93, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 198/310 (63%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+IKGV ED+ IILNIKG+ LK+ G+ K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTIKGVREDVAQIILNIKGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC + A LTV G GYV A ++ ++ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICTVSEGATFHARLTVKPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G D+DKL+M I TDGSI D+++LA++I+ + L +F+N + K + + Sbjct: 179 ENTRVGHRDDFDKLTMEIWTDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 AKLHDLGLGL 308 >gi|227530231|ref|ZP_03960280.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus vaginalis ATCC 49540] gi|227349906|gb|EEJ40197.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus vaginalis ATCC 49540] Length = 314 Score = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 138/312 (44%), Positives = 205/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E ++ + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPNIHKV----EETDSYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAITSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + I +GP VTAGDIQ ++EV Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEEQKDLEIDVKGPAEVTAGDIQGDGEVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A R ++ IG++ ID++Y+PI++V+Y Sbjct: 119 LNPDLYIATVADGAELHIKMTADKGRGYLSANDNKARMDDLAIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE+AR GQ DYDKL++ + TDGS+T ++V+L ++IL + L MF+N E + + + Sbjct: 179 TVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLAMFVNLTEEAQNAQVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RTEADM+++ N G+KSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVKELTDRTEADMMKVRNLGQKSLEE 298 Query: 306 IKGVLGTMGLFL 317 IK L +G+ Sbjct: 299 IKLKLNDLGVSF 310 >gi|297204185|ref|ZP_06921582.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sviceus ATCC 29083] gi|197714127|gb|EDY58161.1| DNA-directed RNA polymerase, alpha subunit [Streptomyces sviceus ATCC 29083] Length = 335 Score = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 123/315 (39%), Positives = 193/315 (61%), Gaps = 4/315 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L+ +E+L+L+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 AALAADLVMPIEDLDLTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKEK 300 Query: 310 LGTMGLFLGMNLPDW 324 L +GL L + P + Sbjct: 301 LAGLGLGLKDSPPGF 315 >gi|304413170|ref|ZP_07394643.1| RNA polymerase alpha subunit [Candidatus Regiella insecticola LSR1] gi|304284013|gb|EFL92406.1| RNA polymerase alpha subunit [Candidatus Regiella insecticola LSR1] Length = 335 Score = 346 bits (887), Expect = 3e-93, Method: Composition-based stats. Identities = 146/335 (43%), Positives = 215/335 (64%), Gaps = 11/335 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +E +KP+ I + + +I EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVKEFLKPSLIS----EKISQTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVT 56 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ I+LN+K + +K+ ++ +T+ K G G VTA DI Sbjct: 57 EVEIEGVLHEYSTKEGVKEDILSILLNLKELAVKVQEKENEVILTLEKSGIGPVTAADIT 116 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 + + IE++ P+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 117 SDSKIEIIKPEHVICHLTDKSASINMRIKVQRGRGYVPASTRVHGEEDERPIGRLLVDAC 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSPI++++Y VE+ R D DKL + ++T+G+I E+++ AS IL +QL F++ Sbjct: 177 YSPIERIAYNVEATRYQDRTDLDKLIIEMETNGTIDPEEAIRHASTILSEQLTAFVDISH 236 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K + P P LL+ V++LEL+VRS NCL+ E I ++GDL+QRTE ++L+ Sbjct: 237 NVNTCKTSVEAPDFP--PILLRPVDDLELTVRSANCLKAEAIHFIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL GL LGM L +WPP SI + Sbjct: 295 NLGKKSLTEIKDVLAVHGLSLGMRLENWPPASIAD 329 >gi|224713514|gb|ACN62064.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 309 Score = 346 bits (887), Expect = 4e-93, Method: Composition-based stats. Identities = 140/312 (44%), Positives = 209/312 (66%), Gaps = 7/312 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S Sbjct: 1 KPHLVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYS 60 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 S +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHV Sbjct: 61 SKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHV 120 Query: 134 ICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVES 189 IC+L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+ Sbjct: 121 ICHLTDKNASINMRIRVQRGRGYVPASARIHAQDDDRPIGRLLVDARFSPVDRIAYNVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + Sbjct: 181 ARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEK 237 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 238 PEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 297 Query: 310 LGTMGLFLGMNL 321 L + GL LGM L Sbjct: 298 LASRGLSLGMRL 309 >gi|238898902|ref|YP_002924584.1| RNA polymerase, alpha subunit [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] gi|229466662|gb|ACQ68436.1| RNA polymerase, alpha subunit [Candidatus Hamiltonella defensa 5AT (Acyrthosiphon pisum)] Length = 330 Score = 345 bits (886), Expect = 4e-93, Method: Composition-based stats. Identities = 141/334 (42%), Positives = 217/334 (64%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP + + + + EPL RGF HTLGNALRR+L+SS++G A+T Sbjct: 1 MQGSEIEFLKPRLVNIEQI---SPSHAKITLEPLERGFGHTLGNALRRILLSSMQGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +++LN+KG+ +K+ G + VT+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEVLLNLKGLKVKVQGKNEVTVTLNKSGIGPVLAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALY 177 D+E++ P HVIC L D +A + M++ + +G GYVPA + + PIG + +DA Y Sbjct: 118 NGDVEIVKPQHVICYLTDENASISMKIKIQRGRGYVPASSRMNLEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ ++ IL QL FI+ Sbjct: 178 SPVERIAYVVEAARVEQRTDLDKLVIDMETNGTINPEEAIRFSATILAKQLEAFIDLHHV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQPELKEEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + L LGM L +WPP ++ + Sbjct: 295 LGKKSLTEIKDVLASRALSLGMRLENWPPANLSD 328 >gi|315925227|ref|ZP_07921441.1| DNA-directed RNA polymerase subunit alpha [Pseudoramibacter alactolyticus ATCC 23263] gi|315621461|gb|EFV01428.1| DNA-directed RNA polymerase subunit alpha [Pseudoramibacter alactolyticus ATCC 23263] Length = 318 Score = 345 bits (886), Expect = 4e-93, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 197/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP +V E+ EPL RG+ TLGN+LRR+++SSL G AIT V+IDG Sbjct: 3 EFEKPFI--KLVDRSEDNTYGKFTVEPLERGYGTTLGNSLRRIMLSSLPGVAITTVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I G+ ED+ +I+LN+KG+ M D + V I +G G VTAGDI ++E+ Sbjct: 61 VLHEFSTIPGIKEDVIEILLNLKGLCAVMHTDELQTVRIEAKGAGEVTAGDIIAGPEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + DA + ME+ + G GY P++ ++ + PIG + +D+++SPI+KV + V Sbjct: 121 LNPDMHICTMAGDAELTMEMALEVGRGYRPSEKNKYDGMPIGTLPMDSIFSPIRKVIFRV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQV D+DKL++ I TDG+ + E++++L+++++ D L +FI+ E V+ + Sbjct: 181 EDTRVGQVTDFDKLTLEIWTDGTTSPEEALSLSAKVMNDHLRLFIDLTEEAGSVETIVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + +EELELSVRS+NCLR NI + L Q+TE DM+++ N GRKSL EIK Sbjct: 241 EETERERIREMSIEELELSVRSSNCLRRANIDTVEKLTQKTEEDMMKVRNLGRKSLNEIK 300 Query: 308 GVLGTMGLFL 317 L MGL L Sbjct: 301 HKLAEMGLSL 310 >gi|256847789|ref|ZP_05553234.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus coleohominis 101-4-CHN] gi|256715478|gb|EEU30454.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus coleohominis 101-4-CHN] Length = 313 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 135/311 (43%), Positives = 205/311 (65%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++ IDG Sbjct: 3 EFEKPNIHKV----EETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++L++ + K + + +GP VTAGDIQ D+ V Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLRIDSEDQKNLELDVKGPAEVTAGDIQGDGDVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYT 186 LNPD I + A + +++T KGHGY A ++T + IG++ ID++Y+PI++V+YT Sbjct: 119 LNPDLHIATVADGAELHIQMTADKGHGYSSADDNKTRMDLAIGVLPIDSIYTPIERVNYT 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ DYDKL++ + T+GS+T ++V+LA++IL L MF+N E + + + Sbjct: 179 VENTRVGQNNDYDKLTLDVWTNGSLTPTEAVSLAAKILTSHLAMFVNLTEEAQSAQVMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L K +EE +LSVRS NCL+ +I + DL ++TEADM+++ N G+KSL EI Sbjct: 239 REESHQEKVLDKTIEEFDLSVRSYNCLKRADIQTVKDLTEKTEADMMKVRNLGQKSLDEI 298 Query: 307 KGVLGTMGLFL 317 K L +G+ Sbjct: 299 KIKLNELGVGF 309 >gi|291442292|ref|ZP_06581682.1| RNA polymerase alpha subunit [Streptomyces ghanaensis ATCC 14672] gi|291345187|gb|EFE72143.1| RNA polymerase alpha subunit [Streptomyces ghanaensis ATCC 14672] Length = 336 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 193/318 (60%), Gaps = 4/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 4 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 59 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 60 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHN 119 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 120 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEA 179 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 180 TRVEQRTDFDKLIVDVETKQAMRPRDAMASAGKTLVELFGLARELNIGAEGIDMGPSPTD 239 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 240 AALAADLALPIEELELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAKSIDEVKAK 299 Query: 310 LGTMGLFLGMNLPDWPPE 327 L +GL L + P + P Sbjct: 300 LAGLGLALKDSPPGFAPT 317 >gi|291286339|ref|YP_003503155.1| DNA-directed RNA polymerase, alpha subunit [Denitrovibrio acetiphilus DSM 12809] gi|290883499|gb|ADD67199.1| DNA-directed RNA polymerase, alpha subunit [Denitrovibrio acetiphilus DSM 12809] Length = 335 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 147/324 (45%), Positives = 221/324 (68%), Gaps = 4/324 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ N+ E+IKP IE +G+ + +AEP +GF T+GNALRRVL++++ G A+ Sbjct: 1 MVIMNFHEIIKPRKIE--AVGEVTDRYGEYVAEPYEKGFGITIGNALRRVLLATIEGTAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 V+IDGV +E ++++GV+ED+ DI++NIK ++LK+ +RV I K G G VTAGDI Sbjct: 59 VGVKIDGVSNEFATLEGVYEDVVDILMNIKMLDLKLHTHETRRVYIKKTGEGPVTAGDIT 118 Query: 121 TVNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +E+L PD IC + + + ME V +G GYVPA+ + D I ++++DA+++P Sbjct: 119 GDTMVEILTPDQHICTITDPNKELNMEFVVQRGIGYVPAEELEKDYDEIDMLSVDAVFTP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IKKV+Y V++AR GQ DYD+L++ ++TDGSI ED++ A++I++DQ+ +FINF+EP Sbjct: 179 IKKVNYHVDNARVGQSTDYDRLTLEVETDGSINPEDAIGFAAKIIKDQMNLFINFDEPVV 238 Query: 240 EVKEDINV-KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 EVK+D ++ L K +EELELSVR+ NCL+ NI + +L +T+A+ML+ NF Sbjct: 239 EVKQDEEENQNDQLLDLLDKSIEELELSVRAYNCLKNANIKTLAELCMKTDAEMLKTKNF 298 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLP 322 GRKSL EIK VL +GL LGM+L Sbjct: 299 GRKSLEEIKKVLQELGLSLGMDLE 322 >gi|229829398|ref|ZP_04455467.1| hypothetical protein GCWU000342_01488 [Shuttleworthia satelles DSM 14600] gi|229791829|gb|EEP27943.1| hypothetical protein GCWU000342_01488 [Shuttleworthia satelles DSM 14600] Length = 320 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 130/314 (41%), Positives = 207/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + +++ + EPL RG+ TLGN+LRR+++SS+ G A+T ++I+G Sbjct: 3 DFKKPN-IEIAEI-SDDKKYGKFVVEPLERGYGITLGNSLRRIMLSSMPGVAVTQIKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+I+LNIK + ++ + D K I G G VTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIVLNIKQLAIRSNSQTDEPKVAYIEYEGEGTVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI +L+ D+ + MELT+SKG GYV + ++T++ PIG+I +D++Y+P+++V Sbjct: 121 EIVNPDLVIAHLNGGSDSKLYMELTISKGRGYVSSDKNKTDDTPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE+ R GQV D+DKL++ + T+G+I +++ +LA+++L + L +FI+ E + + Sbjct: 181 NMNVENTRVGQVTDFDKLTLEVWTNGTIGPDEAASLAAKVLSEHLNLFIDLSENARNTEI 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + S + ++ELELSVRS NCL+ I + +L+ +T DM+++ N GRKSL Sbjct: 241 MVEKPSADTASMKMMNIDELELSVRSYNCLKRAGINTVEELVNKTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L MGL L Sbjct: 301 EEVLQKLQEMGLSL 314 >gi|257876158|ref|ZP_05655811.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC20] gi|257810324|gb|EEV39144.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC20] Length = 312 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+ IILNIKG+ LKM GD K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTVKGVREDVAQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC + A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICTVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLHDLGLGL 308 >gi|227505247|ref|ZP_03935296.1| DNA-directed RNA polymerase [Corynebacterium striatum ATCC 6940] gi|227198146|gb|EEI78194.1| DNA-directed RNA polymerase [Corynebacterium striatum ATCC 6940] Length = 336 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 127/315 (40%), Positives = 191/315 (60%), Gaps = 3/315 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+KG+ L D + + K GPGVVTAGDIQ +E+ NPD I +L+ A + Sbjct: 75 EIILNVKGLVLSSDSDEPVVMYLSKEGPGVVTAGDIQPPAGVEIHNPDLHIASLNDTAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MEL V +G GYVPA E G I +D +YSP+ +VSY VE+ R Q D+DKL + Sbjct: 135 DMELVVERGRGYVPAAPTSGEI---GRIPVDQIYSPVLQVSYKVEATRVEQRTDFDKLII 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A L + G+ + ++ + + + A +E+L Sbjct: 192 DVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYSMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L D Sbjct: 252 NFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTPED 311 Query: 324 WPPESIEELAKKYED 338 + P +E + D Sbjct: 312 FDPTQLEGYDAETGD 326 >gi|224370665|ref|YP_002604829.1| DNA-directed RNA polymerase subunit alpha [Desulfobacterium autotrophicum HRM2] gi|259494167|sp|C0Q9U7|RPOA_DESAH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|223693382|gb|ACN16665.1| RpoA [Desulfobacterium autotrophicum HRM2] Length = 340 Score = 345 bits (886), Expect = 5e-93, Method: Composition-based stats. Identities = 138/337 (40%), Positives = 211/337 (62%), Gaps = 7/337 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 ++ NW+E+I P + + EPL +G+ T+GN+LRR+++SSL GAAI Sbjct: 6 LVYMNWREIIMPEKVAV----TTTSTYGKFVCEPLEKGYGITIGNSLRRIILSSLYGAAI 61 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+ LHE S + V ED+++II+N+K + LK+ K +TI +G VTA DI Sbjct: 62 VSVKFSEALHEYSVVSDVREDVSEIIMNLKEVKLKLDDPGDKILTINVKGEKFVTAADII 121 Query: 121 TVND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + + +E+LNP+ I + + M + V G GY A ++ P+G I ID+++SP Sbjct: 122 SGDGRVEILNPEQHIATVSKGGELMMTMLVKTGKGYALAASNKDPEAPVGTIPIDSVFSP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE--P 237 IK+V Y V ++R GQ DYDKL+M I TDGS+T EDSVA A++IL++Q+ FINF+E Sbjct: 182 IKRVKYVVGASRIGQKTDYDKLTMEIWTDGSVTPEDSVAYAAKILKEQMNPFINFDEDIE 241 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + V+++ + FN L + V+ELELSVRS+NCL+ I+ + L+Q+T+ +ML+ N Sbjct: 242 PELVEKEHEGAAKNFNENLYRSVDELELSVRSSNCLKNAQILKIYQLVQKTDNEMLKTKN 301 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 FGRKSL EIK VL +M L LGM+L + P +++ + Sbjct: 302 FGRKSLNEIKEVLTSMDLSLGMDLEGFEPPEEDQIKE 338 >gi|308171336|gb|ADO15987.1| RpoA [Vibrio sinaloensis DSM 21326] Length = 321 Score = 345 bits (885), Expect = 6e-93, Method: Composition-based stats. Identities = 141/325 (43%), Positives = 212/325 (65%), Gaps = 11/325 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+ Sbjct: 3 SVTEFLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 60 IEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDG 119 Query: 124 DIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSP 179 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP Sbjct: 120 DVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSP 179 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 180 VDKIAYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRV 239 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 240 PEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 296 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL EIK VL + GL LGM L +W Sbjct: 297 KKSLTEIKDVLASRGLSLGMRLENW 321 >gi|187933966|ref|YP_001884502.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum B str. Eklund 17B] gi|188589874|ref|YP_001919701.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum E3 str. Alaska E43] gi|251778696|ref|ZP_04821616.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum E1 str. 'BoNT E Beluga'] gi|238689634|sp|B2UYD9|RPOA_CLOBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238691607|sp|B2TIK4|RPOA_CLOBB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|187722119|gb|ACD23340.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum B str. Eklund 17B] gi|188500155|gb|ACD53291.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum E3 str. Alaska E43] gi|243083011|gb|EES48901.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum E1 str. 'BoNT E Beluga'] Length = 315 Score = 345 bits (885), Expect = 6e-93, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 207/313 (66%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I E+ + EPL RG+ TLGNALRR+L+SSL G A ++V+IDG Sbjct: 3 EIEKP-IIECIEA-SEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVATSSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T++ILNIK + L+M+G+ K + I +GPG VT DI+T D+EV Sbjct: 61 VLHEFSTVQGVKEDVTELILNIKSLALRMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD + + MELTV++G GYV ++++ PI I ID++Y+P+KKV++TV Sbjct: 121 VNKDLHIATLDDNGRLYMELTVNRGRGYVTQNKNKSDELPISSIAIDSIYTPVKKVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ+ DYDKL++ I T+G+I +++++L+++IL + +F++ +V+ I Sbjct: 181 DNTRVGQITDYDKLTLEIWTNGTIKIDEAISLSAKILIEHFKLFMSLTNNTNDVEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ I + +L ++ DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTVEELDLSVRSYNCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L +N Sbjct: 301 RKLKELGLCLKLN 313 >gi|150392131|ref|YP_001322180.1| DNA-directed RNA polymerase, alpha subunit [Alkaliphilus metalliredigens QYMF] gi|166991520|sp|A6TWF3|RPOA_ALKMQ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149951993|gb|ABR50521.1| DNA-directed RNA polymerase, alpha subunit [Alkaliphilus metalliredigens QYMF] Length = 315 Score = 345 bits (884), Expect = 7e-93, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP +E + ++ + EPL RG+ TLGN+LRR+++SSL GAA+T+V+I+G Sbjct: 3 EMEKP-KVEVFEI-SDDSTYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE S+I GV ED+T+IILN+K +++ + G+ K + I GPG VTAGDI D+EV Sbjct: 61 ILHEFSTIPGVKEDVTEIILNLKDLSIGIDGNEPKTLRIEMEGPGTVTAGDIIADADVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I LD ++ + ME+ ++KG GYV A++++T PIG+I +D++++P++KVSY V Sbjct: 121 LNPDMYIATLDDNSKLNMEINIAKGRGYVSAENNKTAGMPIGVIPVDSIFTPVRKVSYFV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + R GQV DYDKL + + TDGSI +++++LA++++ + L +FI +E +V+ + Sbjct: 181 GNTRVGQVTDYDKLEIEVFTDGSIKPDEAISLAAKVMSEHLNLFITLKEDVSDVEIMVQK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELSLKSEEDMMKVRNLGKKSLEEVD 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 KKLEELGLGL 310 >gi|255326871|ref|ZP_05367947.1| DNA-directed RNA polymerase, alpha subunit [Rothia mucilaginosa ATCC 25296] gi|255296088|gb|EET75429.1| DNA-directed RNA polymerase, alpha subunit [Rothia mucilaginosa ATCC 25296] Length = 330 Score = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 120/330 (36%), Positives = 192/330 (58%), Gaps = 9/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E +V NR+ EPL GF +T+GN+LRR L+SS+ GAA+T+V+IDGVL Sbjct: 5 QRPTLTEEVV----APNRSRFTIEPLEPGFGYTMGNSLRRTLLSSIPGAAVTSVRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T+IILNIK +++ D + K+G G +TAGDI+ +E+ N Sbjct: 61 HEFSTVPGVTEDVTEIILNIKKLSISSENDEPVVAYLRKQGEGELTAGDIEVPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ A EL + +G GYV A ++ + IG I +D++YSP+ KV+++V + Sbjct: 121 PELHLATLNASANFNAELVIERGRGYVTAAQNKVGDGEIGRIPVDSIYSPVLKVTFSVNA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D L++ ++T +I D+VA A L + G+ + ++ + Sbjct: 181 TRVEQRTDFDSLTLDVETKEAIAPRDAVASAGSTLVELFGLARELNIAAEGIEVGPSPAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E+L +SVRS NCL+ E I +G+L+ R+EAD++ + NFG KS+ E+K Sbjct: 241 ESMAADLALPIEDLNMSVRSYNCLKREGIHTVGELVTRSEADLMDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +GL L + P + P A+ +D+ Sbjct: 301 LIELGLALKDSPPGFEPA-----ARPLDDE 325 >gi|257870543|ref|ZP_05650196.1| DNA directed RNA polymerase [Enterococcus gallinarum EG2] gi|257804707|gb|EEV33529.1| DNA directed RNA polymerase [Enterococcus gallinarum EG2] Length = 312 Score = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 139/310 (44%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+ IILNIKG+ LKM GD K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTVKGVREDVAQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D ICN+ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICNVSEGASFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI ++++LA++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLHDLGLGL 308 >gi|224713516|gb|ACN62065.1| DNA-directed RNA polymerase subunit alpha [Actinobacillus minor] Length = 307 Score = 345 bits (884), Expect = 8e-93, Method: Composition-based stats. Identities = 140/310 (45%), Positives = 208/310 (67%), Gaps = 7/310 (2%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S Sbjct: 1 KPHLVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYS 60 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 S +GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHV Sbjct: 61 SKEGVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHV 120 Query: 134 ICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVES 189 IC+L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+ Sbjct: 121 ICHLTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ V ++ Sbjct: 181 ARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPVVKEEK--- 237 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 238 PEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 297 Query: 310 LGTMGLFLGM 319 L + GL LGM Sbjct: 298 LASRGLSLGM 307 >gi|227520018|ref|ZP_03950067.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis TX0104] gi|227555879|ref|ZP_03985926.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis HH22] gi|229546938|ref|ZP_04435663.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis TX1322] gi|229550527|ref|ZP_04439252.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis ATCC 29200] gi|255971735|ref|ZP_05422321.1| DNA-directed RNA polymerase [Enterococcus faecalis T1] gi|255974735|ref|ZP_05425321.1| DNA-directed RNA polymerase [Enterococcus faecalis T2] gi|256762030|ref|ZP_05502610.1| DNA-directed RNA polymerase [Enterococcus faecalis T3] gi|256855189|ref|ZP_05560550.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis T8] gi|256956836|ref|ZP_05561007.1| DNA-directed RNA polymerase [Enterococcus faecalis DS5] gi|256960643|ref|ZP_05564814.1| DNA-directed RNA polymerase [Enterococcus faecalis Merz96] gi|256964158|ref|ZP_05568329.1| DNA-directed RNA polymerase [Enterococcus faecalis HIP11704] gi|257078506|ref|ZP_05572867.1| DNA-directed RNA polymerase [Enterococcus faecalis JH1] gi|257081523|ref|ZP_05575884.1| DNA-directed RNA polymerase [Enterococcus faecalis E1Sol] gi|257084171|ref|ZP_05578532.1| DNA-directed RNA polymerase [Enterococcus faecalis Fly1] gi|257087998|ref|ZP_05582359.1| DNA-directed RNA polymerase [Enterococcus faecalis D6] gi|257088675|ref|ZP_05583036.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis CH188] gi|257417601|ref|ZP_05594595.1| DNA-directed RNA polymerase [Enterococcus faecalis AR01/DG] gi|257418673|ref|ZP_05595667.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis T11] gi|257421525|ref|ZP_05598515.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis X98] gi|293382732|ref|ZP_06628657.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis R712] gi|293388085|ref|ZP_06632613.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis S613] gi|294781077|ref|ZP_06746428.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis PC1.1] gi|300861766|ref|ZP_07107846.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TUSoD Ef11] gi|307269113|ref|ZP_07550474.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX4248] gi|307274197|ref|ZP_07555405.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0855] gi|307276422|ref|ZP_07557545.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX2134] gi|307278632|ref|ZP_07559702.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0860] gi|307286988|ref|ZP_07567063.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0109] gi|307291671|ref|ZP_07571546.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0411] gi|312901096|ref|ZP_07760384.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0470] gi|312904658|ref|ZP_07763813.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0635] gi|312908627|ref|ZP_07767569.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis DAPTO 512] gi|312909225|ref|ZP_07768082.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis DAPTO 516] gi|312952633|ref|ZP_07771497.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0102] gi|227072566|gb|EEI10529.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis TX0104] gi|227175046|gb|EEI56018.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis HH22] gi|229304246|gb|EEN70242.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis ATCC 29200] gi|229307866|gb|EEN73853.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis TX1322] gi|255962753|gb|EET95229.1| DNA-directed RNA polymerase [Enterococcus faecalis T1] gi|255967607|gb|EET98229.1| DNA-directed RNA polymerase [Enterococcus faecalis T2] gi|256683281|gb|EEU22976.1| DNA-directed RNA polymerase [Enterococcus faecalis T3] gi|256709702|gb|EEU24749.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis T8] gi|256947332|gb|EEU63964.1| DNA-directed RNA polymerase [Enterococcus faecalis DS5] gi|256951139|gb|EEU67771.1| DNA-directed RNA polymerase [Enterococcus faecalis Merz96] gi|256954654|gb|EEU71286.1| DNA-directed RNA polymerase [Enterococcus faecalis HIP11704] gi|256986536|gb|EEU73838.1| DNA-directed RNA polymerase [Enterococcus faecalis JH1] gi|256989553|gb|EEU76855.1| DNA-directed RNA polymerase [Enterococcus faecalis E1Sol] gi|256992201|gb|EEU79503.1| DNA-directed RNA polymerase [Enterococcus faecalis Fly1] gi|256996028|gb|EEU83330.1| DNA-directed RNA polymerase [Enterococcus faecalis D6] gi|256997487|gb|EEU84007.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis CH188] gi|257159429|gb|EEU89389.1| DNA-directed RNA polymerase [Enterococcus faecalis ARO1/DG] gi|257160501|gb|EEU90461.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis T11] gi|257163349|gb|EEU93309.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis X98] gi|291079892|gb|EFE17256.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis R712] gi|291082536|gb|EFE19499.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis S613] gi|294451880|gb|EFG20331.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis PC1.1] gi|295112524|emb|CBL31161.1| DNA-directed RNA polymerase subunit alpha [Enterococcus sp. 7L76] gi|300848291|gb|EFK76048.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TUSoD Ef11] gi|306497290|gb|EFM66832.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0411] gi|306501934|gb|EFM71223.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0109] gi|306504692|gb|EFM73892.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0860] gi|306506902|gb|EFM76049.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX2134] gi|306509159|gb|EFM78221.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0855] gi|306514593|gb|EFM83147.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX4248] gi|310625414|gb|EFQ08697.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis DAPTO 512] gi|310629421|gb|EFQ12704.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0102] gi|310632010|gb|EFQ15293.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0635] gi|311290467|gb|EFQ69023.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis DAPTO 516] gi|311291768|gb|EFQ70324.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0470] gi|315026809|gb|EFT38741.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX2137] gi|315028850|gb|EFT40782.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX4000] gi|315031165|gb|EFT43097.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0017] gi|315035989|gb|EFT47921.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0027] gi|315145362|gb|EFT89378.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX2141] gi|315147145|gb|EFT91161.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX4244] gi|315151097|gb|EFT95113.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0012] gi|315153583|gb|EFT97599.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0031] gi|315156237|gb|EFU00254.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0043] gi|315158618|gb|EFU02635.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0312] gi|315160753|gb|EFU04770.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0645] gi|315165876|gb|EFU09893.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX1302] gi|315168126|gb|EFU12143.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX1341] gi|315171434|gb|EFU15451.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX1342] gi|315172668|gb|EFU16685.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX1346] gi|315573540|gb|EFU85731.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0309B] gi|315579352|gb|EFU91543.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0630] gi|315582112|gb|EFU94303.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX0309A] gi|323479448|gb|ADX78887.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis 62] gi|327534030|gb|AEA92864.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis OG1RF] gi|329577723|gb|EGG59149.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis TX1467] Length = 312 Score = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IEKIDENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTIPGVREDVTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D VIC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDLVICSVAEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI +++++LA++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 LKLHDLGLGL 308 >gi|25027128|ref|NP_737182.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium efficiens YS-314] gi|259506741|ref|ZP_05749641.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium efficiens YS-314] gi|41688706|sp|Q8FS33|RPOA_COREF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|23492408|dbj|BAC17382.1| putative DNA-directed RNA polymerase alpha chain [Corynebacterium efficiens YS-314] gi|259165682|gb|EEW50236.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium efficiens YS-314] Length = 338 Score = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 132/307 (42%), Positives = 196/307 (63%), Gaps = 1/307 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I G+ ED++ Sbjct: 15 DSSRSKFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTINGIKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILNIKG+ L D + + K GPGVVTAGDI+ D+E+ NPD I L+ +A + Sbjct: 75 DIILNIKGLVLSSDSDEPVIMHLSKEGPGVVTAGDIEPPADVEIHNPDLHIATLNENAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA T D IG I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 DIELIVERGRGYVPATMTATGGD-IGRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLII 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A + L + G+ + ++ + + + A +E+L Sbjct: 194 DVETKNSISARDALASAGKTLVELFGLARELNVAAEGIEIGPSPQETEYIAAYSMPIEDL 253 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + SVRS NCL+ E+I +G+L +R E+D+L + NFG+KS+ E+K L +GL L D Sbjct: 254 DFSVRSYNCLKREDIHTVGELAERAESDLLDIRNFGQKSINEVKIKLAGLGLTLKDAPED 313 Query: 324 WPPESIE 330 + P ++E Sbjct: 314 FDPSTLE 320 >gi|18311358|ref|NP_563292.1| DNA-directed RNA polymerase subunit alpha [Clostridium perfringens str. 13] gi|110799041|ref|YP_697065.1| DNA-directed RNA polymerase subunit alpha [Clostridium perfringens ATCC 13124] gi|110802435|ref|YP_699634.1| DNA-directed RNA polymerase subunit alpha [Clostridium perfringens SM101] gi|168205205|ref|ZP_02631210.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens E str. JGS1987] gi|168211876|ref|ZP_02637501.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens B str. ATCC 3626] gi|168215205|ref|ZP_02640830.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens CPE str. F4969] gi|168216660|ref|ZP_02642285.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens NCTC 8239] gi|169347112|ref|ZP_02866054.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens C str. JGS1495] gi|182626919|ref|ZP_02954652.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens D str. JGS1721] gi|119366675|sp|Q0TMS5|RPOA_CLOP1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366676|sp|Q0SQH3|RPOA_CLOPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|124053359|sp|P0C2E6|RPOA_CLOPE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|7707686|dbj|BAA95357.1| RNA polymerase alpha subunit [Clostridium perfringens] gi|18146042|dbj|BAB82082.1| RNA polymerase alpha subunit [Clostridium perfringens str. 13] gi|110673688|gb|ABG82675.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens ATCC 13124] gi|110682936|gb|ABG86306.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens SM101] gi|169296795|gb|EDS78924.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens C str. JGS1495] gi|170663306|gb|EDT15989.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens E str. JGS1987] gi|170710183|gb|EDT22365.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens B str. ATCC 3626] gi|170713403|gb|EDT25585.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens CPE str. F4969] gi|177907709|gb|EDT70324.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens D str. JGS1721] gi|182381168|gb|EDT78647.1| DNA-directed RNA polymerase, alpha subunit [Clostridium perfringens NCTC 8239] Length = 315 Score = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I+ + + EPL RG+ TLGNALRR+L+SSL G A T+V+ID Sbjct: 3 EIEKP-VIQCVE-SNDNGTYGKFEIEPLERGYGITLGNALRRILLSSLPGVAPTSVKIDS 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IILN+K + L M G+ K + I +GPGVVT DI+T D+EV Sbjct: 61 VLHEFSTITGVKEDVTEIILNLKMLALTMEGEGPKTIYIDAQGPGVVTGADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD D + ME+ V++G GYV ++TE+ P+ I ID++Y+P+K+V+++V Sbjct: 121 VNKDLHIATLDNDGKLYMEIVVNRGRGYVTQNKNKTEDLPLSAIAIDSIYTPVKRVNFSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ+ DYDKL++ I T+G+I E++++L+++IL + +F+ + +V+ I Sbjct: 181 QNTRVGQITDYDKLTLEIWTNGTIRIEEAISLSAKILIEHFKLFMTLTDNANDVEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + AL +EEL+LSVRS NCL+ I + +L ++ DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKALEMTIEELDLSVRSYNCLKRAGINTVQELAGKSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 RKLNELGLNL 310 >gi|126697669|ref|YP_001086566.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile 630] gi|254973760|ref|ZP_05270232.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-66c26] gi|255091150|ref|ZP_05320628.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile CIP 107932] gi|255099261|ref|ZP_05328238.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-63q42] gi|255305044|ref|ZP_05349216.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile ATCC 43255] gi|255312804|ref|ZP_05354387.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-76w55] gi|255515563|ref|ZP_05383239.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-97b34] gi|255648658|ref|ZP_05395560.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-37x79] gi|260681875|ref|YP_003213160.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile CD196] gi|260685473|ref|YP_003216606.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile R20291] gi|306518780|ref|ZP_07405127.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-32g58] gi|119366674|sp|Q18CI5|RPOA_CLOD6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|115249106|emb|CAJ66917.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile] gi|260208038|emb|CBA60238.1| DNA-directed RNA polymerase alpha chain [Clostridium difficile CD196] gi|260211489|emb|CBE01629.1| DNA-directed RNA polymerase alpha chain [Clostridium difficile R20291] Length = 315 Score = 344 bits (883), Expect = 1e-92, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IIL +K ++ + G+ + + I +GP +T DI D+E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIILTLKELSATIDGEGSRTLKIEAQGPCSITGADIICPPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 L+ D I LD +A + ME+ V KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY V Sbjct: 121 LSKDLAIATLDDNAKLNMEIFVDKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL + + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQKTDYDKLVLEVWTNGSINPQEGISLAAKVLVEHLNLFIDLTEHVSSVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEELGLGL 310 >gi|239933876|ref|ZP_04690829.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 329 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 123/304 (40%), Positives = 187/304 (61%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 7 DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 66 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 D+ILNIK + + D + + K+GPG+VTA DI +EV NPD V+ L+ + Sbjct: 67 DLILNIKQLVVSSEHDEPVVMYLRKQGPGLVTAADIAPPAGVEVHNPDLVLATLNGKGKL 126 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL + Sbjct: 127 EMELTVERGRGYVSAVQNKQVGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIV 186 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T ++ D++A A + L + G+ + + + L +EEL Sbjct: 187 DVETKQAMRPRDAMASAGKTLVELFGLARELNIGAEGIDMGPSPTDAALAADLALPIEEL 246 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 EL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K L +GL L + P Sbjct: 247 ELTVRSYNCLKREGVHSVGELLARSEADLLDIRNFGAKSIDEVKAKLAGLGLALKDSPPG 306 Query: 324 WPPE 327 + P Sbjct: 307 FAPT 310 >gi|157100339|emb|CAP03335.1| RpoA protein [Vibrio aestuarianus] Length = 323 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 140/329 (42%), Positives = 213/329 (64%), Gaps = 11/329 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGN LRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNXLRRILLSSMXGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEITNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 N G+KSL EIK VL + GL LGM L +WP Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGMRLENWP 323 >gi|296119324|ref|ZP_06837892.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium ammoniagenes DSM 20306] gi|295967716|gb|EFG80973.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium ammoniagenes DSM 20306] Length = 335 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 188/321 (58%), Gaps = 3/321 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + +R+ + EPL GF +T+GN++RR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 9 VTEEYIDSSRSRFVFEPLEPGFGYTIGNSMRRTLLSSIPGAAVTSIKIDGVLHEFTTISG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+++IILN+K + L D + + K GPG VTAGDIQ +E+ NP+ I L Sbjct: 69 VKEDVSEIILNVKNLVLSSDSDEPVVMYLSKEGPGAVTAGDIQPPAGVEIHNPELHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + MEL V +G GYVPA + G I ID +YSP+ KVSY VE+ R Q D Sbjct: 129 NDTAKLDMELVVERGRGYVPAAPTSGDI---GRIPIDQIYSPVLKVSYKVEATRVEQRTD 185 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SI+ D++A A L + G+ + ++ + + + A Sbjct: 186 FDKLIIDVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQESEYIAAYS 245 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L + L L Sbjct: 246 MPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLNLAL 305 Query: 318 GMNLPDWPPESIEELAKKYED 338 D+ P +E + D Sbjct: 306 KDTPEDFDPTQLEGYDAETGD 326 >gi|257866554|ref|ZP_05646207.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC30] gi|257872930|ref|ZP_05652583.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC10] gi|257800512|gb|EEV29540.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC30] gi|257807094|gb|EEV35916.1| DNA directed RNA polymerase [Enterococcus casseliflavus EC10] Length = 312 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+ IILNIKG+ LKM G+ K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTVKGVREDVAQIILNIKGLALKMYGNEEKTLEIDISGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC + A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICTVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLHDLGLGL 308 >gi|313123135|ref|YP_004033394.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. bulgaricus ND02] gi|312279698|gb|ADQ60417.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. bulgaricus ND02] Length = 312 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 125/310 (40%), Positives = 190/310 (61%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E++ + EPL RGF TLGN+LRRVL++S+ G + V+IDG Sbjct: 3 EFKKPN----ITVVDQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EV Sbjct: 59 ILHEFTTVPGVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAEDLKADADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + V G GYVPA +++ IG I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLFSPIEKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + + + Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRKSL E+K Sbjct: 239 ENDQKEKKLEMTIEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|56416980|ref|YP_154054.1| DNA-directed RNA polymerase subunit alpha [Anaplasma marginale str. St. Maries] gi|222475348|ref|YP_002563765.1| DNA-directed RNA polymerase alpha chain (rpoA) [Anaplasma marginale str. Florida] gi|254995156|ref|ZP_05277346.1| DNA-directed RNA polymerase subunit alpha [Anaplasma marginale str. Mississippi] gi|255003330|ref|ZP_05278294.1| DNA-directed RNA polymerase subunit alpha [Anaplasma marginale str. Puerto Rico] gi|255004454|ref|ZP_05279255.1| DNA-directed RNA polymerase subunit alpha [Anaplasma marginale str. Virginia] gi|81599123|sp|Q5PA81|RPOA_ANAMM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56388212|gb|AAV86799.1| DNA-directed RNA polymerase alpha chain [Anaplasma marginale str. St. Maries] gi|222419486|gb|ACM49509.1| DNA-directed RNA polymerase alpha chain (rpoA) [Anaplasma marginale str. Florida] Length = 366 Score = 344 bits (882), Expect = 1e-92, Method: Composition-based stats. Identities = 162/346 (46%), Positives = 233/346 (67%), Gaps = 10/346 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 I +W +L +P++I+ + G + +I EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 21 ISDHWDKLTRPSSIKVVGDGDLSRS-AELIVEPLESGFALTLGNALRRVMMSSLRGFAVY 79 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++++GV HE++S+ GV ED+ D++LN+ + +K+ + + + +GPG +TA I Sbjct: 80 GIEVEGVSHELTSLSGVREDVADLVLNLSMLRVKLLTSESRVLRLVAKGPGEITAAAIGD 139 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-------TENDPIGLITID 174 VLN D IC L D M++ V+ G GYVPA +R T G I + Sbjct: 140 SEGCVVLNKDLHICTLGKDVDFSMKIYVNSGKGYVPASEYRAASRSGATSEVGPGFIATN 199 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ALYSP+KKV++ +ES+R GQ DYD+L ++++TDGSI+ +++VA+++R+LQDQL FI Sbjct: 200 ALYSPVKKVAFRIESSRIGQFTDYDRLVISVETDGSISPDEAVAVSARVLQDQLQSFIGS 259 Query: 235 EEPKKEV--KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 EE + E K D +LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+Q+TE+DM Sbjct: 260 EEVEGESRKKVDKEEGALPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQKTESDM 319 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 LR NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 320 LRTPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 365 >gi|310659474|ref|YP_003937195.1| RNA polymerase subunit alpha [Clostridium sticklandii DSM 519] gi|308826252|emb|CBH22290.1| RNA polymerase, alpha subunit [Clostridium sticklandii] Length = 313 Score = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 201/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP+ I + + +EN EPL RGF T+GN+LRRVL+SSL G A+T++++DG Sbjct: 3 EIEKPS----IEVLELKENYGKFALEPLERGFGITVGNSLRRVLLSSLPGVAVTSIKVDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T++IL +K +++KM D + + I G GV+ AGDI D+E+ Sbjct: 59 VLHEFSTIPGVKEDVTELILTLKELSMKMDSDGARTLKIEHTGEGVIKAGDIICPPDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I L DA + ME+ V KG GYV A+++++++ PIG+I +D++Y+P+ KVSY Sbjct: 119 LNKDLHIATLSEDAKLYMEINVDKGRGYVSAENNKSDDMPIGVIPVDSIYTPVHKVSYLT 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G D+++L + + TDGSI ++ V+L ++IL + L +FI+ + EV+ + Sbjct: 179 ENTRVGTRTDFERLVLEVWTDGSIGAQEGVSLGAKILVEHLNLFIDLTDHLGEVELMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + AL +EEL+LSVRS NCL+ I + +L ++TE DM+++ N G+KSL E+ Sbjct: 239 EEDKKEKALEMTIEELDLSVRSYNCLKRAGINTVEELTEKTEDDMMKVRNLGKKSLEEVI 298 Query: 308 GVLGTMGLFL 317 L +G L Sbjct: 299 QKLEELGFSL 308 >gi|297582477|ref|YP_003698257.1| DNA-directed RNA polymerase subunit alpha [Bacillus selenitireducens MLS10] gi|297140934|gb|ADH97691.1| DNA-directed RNA polymerase, alpha subunit [Bacillus selenitireducens MLS10] Length = 314 Score = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L++SL G+A+T+VQ + Sbjct: 3 EIEKP-KIEAVEL-SEDGTYGKFVVEPLERGYGTTLGNSLRRILLNSLPGSAVTSVQFNN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K ++LK+ + K + I +G GV+TA D+ +D+EV Sbjct: 61 VLHEFSTIEGVVEDVTTIILNLKKLSLKIFSEEEKTLEIEAQGEGVITARDLTHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L A V+M++T +G GYVPA+ + T++ PIG+I +D++++P+ +V+Y V Sbjct: 121 LNPDLHIATLSKGAQVQMKVTAKRGRGYVPAEGNNTDDLPIGVIPVDSIFTPVSRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ ++DKL++ + TDGSI E++ +L ++IL + L +F+ + + + + Sbjct: 181 ENTRVGQITNFDKLTLDVWTDGSIRPEEATSLGAKILNEHLNIFVGLTDQAQHAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E++ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTHKSEEDMMKVRNLGRKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 EKLHELSLGL 310 >gi|300812355|ref|ZP_07092790.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] gi|300496660|gb|EFK31747.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus PB2003/044-T3-4] Length = 312 Score = 343 bits (881), Expect = 2e-92, Method: Composition-based stats. Identities = 125/310 (40%), Positives = 190/310 (61%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E++ + EPL RGF TLGN+LRRVL++S+ G + V+IDG Sbjct: 3 EFKKPN----ITVVDQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EV Sbjct: 59 ILHEFTTVPGVKEDVTKIILNLKKLELRAYTEEVKTIELDVEGPATVTAEDLKADADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + V G GYVPA +++ IG I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLFSPIEKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + + + Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRKSL E+K Sbjct: 239 ENDQKEKKLEMTIEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|104773568|ref|YP_618548.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|119366691|sp|Q1GBJ2|RPOA_LACDA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|103422649|emb|CAI97257.1| DNA-directed RNA polymerase, alpha chain [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] gi|325125200|gb|ADY84530.1| RNA-polymerase DNA-directed [Lactobacillus delbrueckii subsp. bulgaricus 2038] Length = 312 Score = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 126/310 (40%), Positives = 190/310 (61%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E++ + EPL RGF TLGN+LRRVL++S+ G + V+IDG Sbjct: 3 EFKKPN----ITVVDQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EV Sbjct: 59 ILHEFTTVPGVKEDVTKIILNLKKLELRAYTEEVKTIELDVEGPATVTAEDLKADADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + V G GYVPA ++T IG I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKTAEMSIGDIPVDSLFSPIEKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + + + Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRKSL E+K Sbjct: 239 ENDQKEKKLEMTIEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|73913591|gb|AAZ91712.1| RNA polymerase alpha subunit [Corynebacterium stationis] Length = 334 Score = 343 bits (880), Expect = 2e-92, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 188/321 (58%), Gaps = 3/321 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + +R+ I EPL GF +T+GN++RR L+SS+ GAA+T+++I+GVLHE +++ G Sbjct: 9 VTEEFIDSSRSRFIFEPLEPGFGYTIGNSMRRTLLSSIPGAAVTSIKIEGVLHEFTTVNG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+++IILN+K + L D + + K GPG VTAGDIQ +E+ NPD I L Sbjct: 69 VKEDVSEIILNVKSLVLSSDSDEPVVMYLSKEGPGAVTAGDIQPPAGVEIHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + MEL V +G GYVPA + G I ID +YSP+ KVSY VE+ R Q D Sbjct: 129 NDTAKLDMELVVERGRGYVPAAPTSGDI---GRIPIDQIYSPVLKVSYKVEATRVEQRTD 185 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SI+ D++A A L + G+ + ++ + + + A Sbjct: 186 FDKLIIDVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQESEYIAAYS 245 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L + L L Sbjct: 246 MPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLNLAL 305 Query: 318 GMNLPDWPPESIEELAKKYED 338 D+ P +E + D Sbjct: 306 KDTPEDFDPTQLEGYDAETGD 326 >gi|150015072|ref|YP_001307326.1| DNA-directed RNA polymerase subunit alpha [Clostridium beijerinckii NCIMB 8052] gi|189043835|sp|A6LPU0|RPOA_CLOB8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149901537|gb|ABR32370.1| DNA-directed RNA polymerase, alpha subunit [Clostridium beijerinckii NCIMB 8052] Length = 315 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 132/310 (42%), Positives = 206/310 (66%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I E+ + EPL RG+ TLGNALRR+L+SSL G A T+V+IDG Sbjct: 3 EIEKP-IIECIEA-NEDGTYGKYVVEPLERGYGITLGNALRRILLSSLPGVATTSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T++ILNIK + L+M+G+ K + I +GPG VT DI+T D+EV Sbjct: 61 VLHEFSTVQGVKEDVTELILNIKSLALRMNGEGPKVIYIDAKGPGEVTGADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N + I LD D + MELTV+KG GYV ++++ PI I +D++Y+P+K+V++TV Sbjct: 121 VNKNLHIATLDNDGRLYMELTVNKGRGYVTQNKNKSDELPISAIAVDSIYTPVKRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ+ DYDKL++ I T+G+I +++++L+++IL + +F++ + +V+ I Sbjct: 181 DNTRVGQITDYDKLTLEIWTNGTIKIDEAISLSAKILIEHFKLFMSLTDNTNDVEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ I + +L ++ DM+++ N G+KSL E++ Sbjct: 241 EDDKKEKVLEMTVEELDLSVRSYNCLKRAGINTVQELATKSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 RKLKELGLAL 310 >gi|116513565|ref|YP_812471.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] gi|122275665|sp|Q04BY9|RPOA_LACDB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116092880|gb|ABJ58033.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. bulgaricus ATCC BAA-365] Length = 312 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 190/310 (61%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E++ + EPL RGF TLGN+LRRVL++S+ G + V+IDG Sbjct: 3 EFKKPN----ITVVDQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EV Sbjct: 59 ILHEFTTVPGVKEDVTKIILNLKKLELRAYTEEVKTIELDVEGPATVTAEDLKADADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + V G GYVPA ++T IG I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKTAEMSIGDIPVDSLFSPIEKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL+M I T+GSI D++ A+R+L + F + + + + + Sbjct: 179 ESTRVGKREDFDKLTMEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRKSL E+K Sbjct: 239 ENDQKEKKLEMTIEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|257471550|ref|ZP_05635549.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] Length = 324 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 143/327 (43%), Positives = 213/327 (65%), Gaps = 10/327 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + ++P ++ + T + EPL RGF HTLGNALRR+L+SS+ G A+T V+ID Sbjct: 1 MDFLRPRLVDIEQI---SATHTKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S+ +GV ED+ +I+LN+K + +K+ G +T+ K G G +TA DI D+E Sbjct: 58 GVLHEYSTKEGVQEDVLEILLNLKALAVKVYGKDETLLTLHKSGIGSITAADIIHDGDVE 117 Query: 127 VLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKK 182 ++ P HVIC+L D +A ++M + V +G GY+PA H + PIG + +DA YSPI + Sbjct: 118 IIKPQHVICHLTDENASIKMRIKVQRGRGYIPASSRVHLEEDARPIGCLLVDACYSPINR 177 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 +SY VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ Sbjct: 178 ISYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDIRE--- 234 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + F P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 235 PEFKEEKPEFEPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 294 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + L LGM L +WPP SI Sbjct: 295 LTEIKDVLASRSLSLGMRLENWPPSSI 321 >gi|255324779|ref|ZP_05365893.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium tuberculostearicum SK141] gi|311740030|ref|ZP_07713864.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudogenitalium ATCC 33035] gi|255298254|gb|EET77557.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium tuberculostearicum SK141] gi|311305103|gb|EFQ81172.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudogenitalium ATCC 33035] Length = 336 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 126/315 (40%), Positives = 190/315 (60%), Gaps = 3/315 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILNIK + L D + + K GPG VTAGDIQ +E+ NPD I +L+ A + Sbjct: 75 EIILNIKSMVLSSDSDEPVVMYLSKEGPGDVTAGDIQPPAGVEIHNPDLHIASLNDTAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA E G I +D +YSP+ KVSY VE+ R Q D+DKL++ Sbjct: 135 DIELVVERGRGYVPAAPTSGEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLTI 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A L + G+ + ++ + + + A +E+L Sbjct: 192 DVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYGMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L D Sbjct: 252 NFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTPED 311 Query: 324 WPPESIEELAKKYED 338 + P +E + D Sbjct: 312 FDPTQLEGYDAETGD 326 >gi|297163220|gb|ADI12932.1| DNA-directed RNA polymerase subunit alpha [Streptomyces bingchenggensis BCW-1] Length = 337 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 121/317 (38%), Positives = 189/317 (59%), Gaps = 4/317 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V + R+ + EPL GF +TLGN+LRR L+SS+ AA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DAYRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPAAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILN+K + + D + + K+GPG+ TA DI +EV N Sbjct: 61 HEFTTVPGVREDITDLILNLKQLVVSSEHDEPVVMYLRKQGPGLATAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + +ELTV +G GYV A + + IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNAKGKLEIELTVERGRGYVSAVQNTQQGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ D++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKPAMHPRDAIASAGKTLVELFGLARGLNIDAEGIDIGPSPTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E + +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 241 TALASDLALPIEELELTVRSYNCLKREGVHSVGELVARSEADLLDIRNFGAKSIDEVKAK 300 Query: 310 LGTMGLFLGMNLPDWPP 326 L MGL + P + P Sbjct: 301 LAGMGLAFKDSPPGFDP 317 >gi|227502699|ref|ZP_03932748.1| DNA-directed RNA polymerase [Corynebacterium accolens ATCC 49725] gi|306835270|ref|ZP_07468302.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium accolens ATCC 49726] gi|227076429|gb|EEI14392.1| DNA-directed RNA polymerase [Corynebacterium accolens ATCC 49725] gi|304568863|gb|EFM44396.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium accolens ATCC 49726] Length = 336 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 127/315 (40%), Positives = 190/315 (60%), Gaps = 3/315 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILNIK + L D + + K GPG VTAGDIQ +E+ NPD I +L+ A + Sbjct: 75 EIILNIKSMVLSSDSDEPVVMYLSKEGPGDVTAGDIQPPAGVEIHNPDLHIASLNDTAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA E G I ID +YSP+ KVSY VE+ R Q D+DKL++ Sbjct: 135 DIELVVERGRGYVPAAATSGEI---GRIPIDQIYSPVLKVSYKVEATRVEQRTDFDKLTI 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A L + G+ + ++ + + + A +E+L Sbjct: 192 DVETKNSISARDALASAGGTLVELFGLARELNNAAEGIEIGPSPQETEYIAAYGMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L D Sbjct: 252 NFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTPED 311 Query: 324 WPPESIEELAKKYED 338 + P +E + D Sbjct: 312 FDPTQLEGYDAETGD 326 >gi|114778797|ref|ZP_01453604.1| DNA-directed RNA polymerase, alpha subunit [Mariprofundus ferrooxydans PV-1] gi|114550928|gb|EAU53492.1| DNA-directed RNA polymerase, alpha subunit [Mariprofundus ferrooxydans PV-1] Length = 325 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 146/332 (43%), Positives = 219/332 (65%), Gaps = 7/332 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +LI P +I + ++ EPL RG+ T+GN+LRR+L+SSL GAA+T+V +D Sbjct: 1 MQLINPRHISIE--EKVPGRAAKIVFEPLERGYGTTIGNSLRRMLLSSLPGAAVTSVLMD 58 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE SIKGV ED+ DIIL++K ++L+M GD +++ +G +VTA DI+ + Sbjct: 59 GVAHEYDSIKGVREDVMDIILSLKELDLRMEGDEAATISLEIKGSAIVTAADIKCPAGLS 118 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 VLNP+ ++ +L+ DA +++E V KG GY PA + +G + +DA YSPI++VS Sbjct: 119 VLNPELILAHLNDDAHLKIEAVVEKGRGYEPATDREVDERAVGSLLVDASYSPIRRVSTR 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR GQ +YDKL M I+T+GS++ E+++ A++IL+ QL +F++FE + Sbjct: 179 VEAARVGQRTNYDKLIMEIETNGSLSPEEALNSAAKILEAQLAVFVDFENVSIVSE--PE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L++ +E L+LSVRS NCL+ +++ +GDL+QR+E +MLR NFGRKSL EI Sbjct: 237 GPDDTLDNLLIQPIEHLDLSVRSMNCLKSDDVFRVGDLVQRSEQEMLRTPNFGRKSLNEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 K VL MGL LGM+LP+WPP +E A+ ED Sbjct: 297 KEVLENMGLELGMDLPNWPP---QEDAEALED 325 >gi|330831946|ref|YP_004400771.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis ST3] gi|329306169|gb|AEB80585.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis ST3] Length = 312 Score = 343 bits (879), Expect = 3e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K++ + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + LTV+ G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGATFKAVLTVNSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I+T+G+I ED++ L++RIL + LG+F + E K + Sbjct: 179 EPARVGSNDGFDKLTLEINTNGTIVPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EVASDDRMLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKKD 311 >gi|184155965|ref|YP_001844305.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus fermentum IFO 3956] gi|227515513|ref|ZP_03945562.1| DNA-directed RNA polymerase [Lactobacillus fermentum ATCC 14931] gi|260662778|ref|ZP_05863672.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus fermentum 28-3-CHN] gi|183227309|dbj|BAG27825.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus fermentum IFO 3956] gi|227086126|gb|EEI21438.1| DNA-directed RNA polymerase [Lactobacillus fermentum ATCC 14931] gi|260552859|gb|EEX25858.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus fermentum 28-3-CHN] gi|299783528|gb|ADJ41526.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus fermentum CECT 5716] Length = 314 Score = 342 bits (878), Expect = 3e-92, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 201/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDG Sbjct: 3 EFEKPNIHKV----EETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ + K + I +GP VTA DIQ D+ + Sbjct: 59 VLHEFSTVQGVTEDVTQIILNLKQVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LN D I + A + +++T KG GY A R E IG++ ID++Y+PI++V+Y Sbjct: 119 LNSDLHIATVSDGAELHVKMTADKGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE+ R GQ DYDKL++ + T+GS+T ++++LA++IL + L MF+N E + + + Sbjct: 179 TVENTRVGQSNDYDKLTLDVWTNGSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L K +EEL+LSVRS NCL+ +I + DL +RTEADM+++ N G KSL E Sbjct: 239 EREETHQEKVLDKTIEELDLSVRSYNCLKRADIQTVKDLTERTEADMMKVRNLGTKSLDE 298 Query: 306 IKGVLGTMGLFL 317 IK L +G+ Sbjct: 299 IKLKLAELGVGF 310 >gi|29374877|ref|NP_814030.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecalis V583] gi|41688668|sp|Q839D9|RPOA_ENTFA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|29342335|gb|AAO80101.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecalis V583] Length = 312 Score = 342 bits (878), Expect = 3e-92, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 198/310 (63%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IEKIDENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTIPGVREDVTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D VIC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+ +V+Y V Sbjct: 119 LNKDLVICSVAEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVLRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI +++++LA++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 LKLHDLGLGL 308 >gi|227487074|ref|ZP_03917390.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glucuronolyticum ATCC 51867] gi|227541762|ref|ZP_03971811.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glucuronolyticum ATCC 51866] gi|227093148|gb|EEI28460.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glucuronolyticum ATCC 51867] gi|227182468|gb|EEI63440.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glucuronolyticum ATCC 51866] Length = 338 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 123/314 (39%), Positives = 185/314 (58%), Gaps = 1/314 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I Sbjct: 8 VLTEEPIDSARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTIT 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED++DI+LN+KGI L D + + K G G V AGDIQ +E+ NPD + Sbjct: 68 GVKEDVSDIVLNVKGIVLSSDSDEPVVMYLNKEGAGEVKAGDIQPPAGVEIHNPDLHLAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ D + MEL V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q Sbjct: 128 LNDDGRLNMELVVERGRGYVPAAM-NNDVAEIGRIPVDQIYSPVLKVSYKVEATRVEQRT 186 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+DKL + ++T SIT D++A A + L + G+ + ++ + + Sbjct: 187 DFDKLVIDVETKNSITARDAMASAGKTLVELFGLARELNTAAEGIEIGASPLEGDHTASY 246 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+ SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL Sbjct: 247 SMPIEDLDFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKVKLAGLGLT 306 Query: 317 LGMNLPDWPPESIE 330 L D+ ++E Sbjct: 307 LKDAPEDFDVTTVE 320 >gi|32477618|ref|NP_870612.1| DNA-directed RNA polymerase subunit alpha [Rhodopirellula baltica SH 1] gi|41688636|sp|Q7UIC5|RPOA_RHOBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|32448172|emb|CAD77689.1| DNA-directed RNA polymerase alpha chain [Rhodopirellula baltica SH 1] gi|327538948|gb|EGF25586.1| DNA-directed RNA polymerase subunit alpha [Rhodopirellula baltica WH47] Length = 331 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 128/328 (39%), Positives = 196/328 (59%), Gaps = 5/328 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + W+ + P+++E + AEP RGF ++GN++RRVL+SSL G+A+T Sbjct: 3 MHIRWRGMELPSSLEVDR-DSLTQTYGKFSAEPFERGFGASIGNSMRRVLLSSLVGSAVT 61 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++I G HE ++I GV ED+TDI+LN+K + + + DS + +T+ + GVVT D+QT Sbjct: 62 QIKIRGAQHEFTTIPGVLEDVTDIVLNVKSLIVNSNTDSTRVITVERNTAGVVTGADVQT 121 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D+E++N DHVIC L D ME+ V G GYVP+ H + + IG+I IDA++SPI Sbjct: 122 DADVEIINKDHVICTLTDDVPFMMEMVVETGRGYVPSTEHSSVDHEIGIIPIDAVFSPIV 181 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y VE+ R GQ +YD+L++ I TDG+I E ++ A++IL+ L F+ + E + Sbjct: 182 RVRYEVEATRVGQKTNYDRLNLEIWTDGTINPEMALTEAAKILRKHLNPFVQYRELGPSI 241 Query: 242 ----KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + L + +L LSVR+ NCL ENI+ + DL+QRTE +L + N Sbjct: 242 FSAARGGAGSPEAQLEAKLNMTLADLRLSVRANNCLESENIMTVRDLVQRTEDSLLEVRN 301 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 FG +L E++ L GL LGM +P+ P Sbjct: 302 FGDTTLNEVREKLSQYGLHLGMRVPNQP 329 >gi|1524340|emb|CAA63080.1| RNA polymerase alpha subunit [Streptomyces coelicolor A3(2)] Length = 339 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 192/318 (60%), Gaps = 5/318 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P+ E +V +E R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPSLTEEVV----DEFRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE +++ GV ED+TD+ILNIK + + D + + K+GPG+VTA DI +EV N Sbjct: 61 HEFTTVPGVKEDVTDLILNIKQLVVSSEHDEPVVMYLSKQGPGLVTAADIAPPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD V+ L+ + MELTV +G GYV A ++ IG I +D++YSP+ KV+Y VE+ Sbjct: 121 PDLVLATLNGKGKLEMELTVERGRGYVSAVQNKEVGQEIGRIPVDSIYSPVLKVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T ++ ++A A + L + G+ + + + Sbjct: 181 TRVEQRTDFDKLIVDVETKQAMRPR-AMASAGKTLVELFGLARELNIDAEGIDMGPSPTD 239 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E I +G+L+ R+EAD+L + NFG KS+ E+K Sbjct: 240 AALAADLALPIEELELTVRSYNCLKREGIHSVGELVARSEADLLDIRNFGAKSIDEVKAK 299 Query: 310 LGTMGLFLGMNLPDWPPE 327 L MGL L + P + P Sbjct: 300 LAGMGLALKDSPPGFDPT 317 >gi|223933080|ref|ZP_03625073.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus suis 89/1591] gi|223898267|gb|EEF64635.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus suis 89/1591] Length = 312 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K++ + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + LTV+ G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGATFKAVLTVNSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I+T+G+I ED++ L++RIL + LG+F + E K + Sbjct: 179 EPARVGSNDGFDKLTLEINTNGTIVPEDTLGLSARILMEHLGLFTDLTEVAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EVASDDRMLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKKD 311 >gi|323141382|ref|ZP_08076273.1| DNA-directed RNA polymerase, alpha subunit [Phascolarctobacterium sp. YIT 12067] gi|322414131|gb|EFY04959.1| DNA-directed RNA polymerase, alpha subunit [Phascolarctobacterium sp. YIT 12067] Length = 321 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 140/315 (44%), Positives = 193/315 (61%), Gaps = 7/315 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + V E+ + EPL RG+ TLGN+LRRVL+SSL GAA+T V+IDG Sbjct: 3 EIEKPKMVTSDV--SEDGRYGKFVWEPLERGYGITLGNSLRRVLLSSLPGAAVTYVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I GV ED+ DIILNIK + LKM G+ K + I G VTA +I +D+E+ Sbjct: 61 VLHEFATIPGVREDVADIILNIKALCLKMEGEGEKILRIECSGEQEVTAANIIADSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I LD DAV ME+ + KG GYVPA ++ + PIG+I +D++YSPI +V + V Sbjct: 121 LNPELHIATLDKDAVFNMEIHIDKGRGYVPADKNKQPDQPIGVIPVDSIYSPITRVKFAV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-----K 242 R G V +YDKL++ + TDGSI +++V +AS IL D L +F + + Sbjct: 181 NDTRVGNVTNYDKLTLEVWTDGSIKPDEAVDMASTILIDYLKLFQTSDGKGSVITVAGGS 240 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E + +++L+LSVRS NCLR I + +LIQ+TEADM+++ N G KS Sbjct: 241 EPEAPEPSKQEGQNTMSIDDLDLSVRSNNCLRRAGINTVEELIQKTEADMIKVRNLGSKS 300 Query: 303 LVEIKGVLGTMGLFL 317 L EIK L MGL Sbjct: 301 LEEIKKKLEDMGLHF 315 >gi|146317755|ref|YP_001197467.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis 05ZYH33] gi|146319946|ref|YP_001199657.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis 98HAH33] gi|253751015|ref|YP_003024156.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis SC84] gi|253752915|ref|YP_003026055.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis P1/7] gi|253754740|ref|YP_003027880.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis BM407] gi|158514125|sp|A4VSH8|RPOA_STRSY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158514142|sp|A4VYR8|RPOA_STRS2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145688561|gb|ABP89067.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus suis 05ZYH33] gi|145690752|gb|ABP91257.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus suis 98HAH33] gi|251815304|emb|CAZ50872.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis SC84] gi|251817204|emb|CAZ54927.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis BM407] gi|251819160|emb|CAR44293.1| DNA-directed RNA polymerase alpha chain [Streptococcus suis P1/7] gi|292557557|gb|ADE30558.1| DNA-directed RNA polymerase alpha subunit [Streptococcus suis GZ1] gi|319757266|gb|ADV69208.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis JS14] Length = 312 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 203/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K++ + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + LTV+ G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGATFKAVLTVNSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I+T+G+I ED++ L++RIL + LG+F + E K + Sbjct: 179 EPARVGSNDGFDKLTLEINTNGTIIPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EVASDDRMLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKKD 311 >gi|319442995|ref|ZP_07992151.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium variabile DSM 44702] Length = 337 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 180/313 (57%), Gaps = 3/313 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I G Sbjct: 9 LTEEYISPARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIEGVLHEFTTIPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED++DIILNIK + + D + I K G G VT D+ +EV NPD I L Sbjct: 69 VKEDVSDIILNIKALVISSDSDEPVTMYIRKEGLGEVTGADVVVPAGVEVHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + +EL V +G GYVPA E G I +D +YSP+ KVSY VE+ R Q D Sbjct: 129 NEQGKLDIELVVERGRGYVPAAATTGEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTD 185 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SIT D++A A L + G+ + ++ + + A Sbjct: 186 FDKLVLDVETKNSITARDAIASAGGTLVELFGLARELNTEAEGIEIGPSPQETEHIAAYS 245 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+ SVRS NCL+ E+I +G+L RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 246 LPIEDLDFSVRSYNCLKREDIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAELGLGL 305 Query: 318 GMNLPDWPPESIE 330 + SIE Sbjct: 306 KDAPEGFDINSIE 318 >gi|325678576|ref|ZP_08158186.1| RNA polymerase, alpha subunit C-terminal domain protein [Ruminococcus albus 8] gi|324109626|gb|EGC03832.1| RNA polymerase, alpha subunit C-terminal domain protein [Ruminococcus albus 8] Length = 326 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 127/321 (39%), Positives = 204/321 (63%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLG----QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 L+ IE + + I EPL RG+ TLGN+LRRVL+SSL G A+T+V+ Sbjct: 6 LLMLEKIEKPKIETPELKSNGTYGKFILEPLERGYGITLGNSLRRVLLSSLPGVAVTSVK 65 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGV HE+S+I GV ED+T+IILN+KG+ K+ G+ K + I G VVTAGDI+ ++ Sbjct: 66 IDGVHHELSTIPGVKEDVTEIILNLKGLTAKLYGEGPKTIYIEAEGECVVTAGDIKADSE 125 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKK 182 +++L PD I L A + ME+T+ +G GYV A+ +++ +N PIG+I +D++YSP+ K Sbjct: 126 VDILVPDMHIATLGAGAKLYMEITIDRGRGYVSAEKNKSLMQNAPIGIIAVDSIYSPVLK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YTV++ R G + D+DKL++ + TDG+I+ +++V++A+++L + L F++ E V+ Sbjct: 186 VNYTVDNTRVGHITDFDKLTLEVWTDGTISAKEAVSMAAKLLNEHLNPFVDLSEEANVVE 245 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +EEL+LSVRS NCL+ I + DLI+++ +M+++ N G+KS Sbjct: 246 IMVEKDDQSQAKVLEMTIEELDLSVRSFNCLKRAGINTVNDLIEKSAEEMMKVRNLGKKS 305 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 E+K L ++G L + Sbjct: 306 FDEVKEKLHSLGYELNSEEDN 326 >gi|255654191|ref|ZP_05399600.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile QCD-23m63] gi|296449770|ref|ZP_06891539.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile NAP08] gi|296261368|gb|EFH08194.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile NAP08] Length = 315 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IIL +K ++ + G+ + + I +GP +T DI D+E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIILTLKELSATIDGEGSRTLKIEAQGPCSITGADIICSPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 L+ D I LD +A + ME+ V KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY V Sbjct: 121 LSKDLAIATLDDNAKLNMEIFVDKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL + + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQKTDYDKLVLEVWTNGSINPQEGISLAAKVLVEHLNLFIDLTEHVSSVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEELGLGL 310 >gi|325567351|ref|ZP_08144018.1| DNA-directed RNA polymerase subunit alpha [Enterococcus casseliflavus ATCC 12755] gi|325158784|gb|EGC70930.1| DNA-directed RNA polymerase subunit alpha [Enterococcus casseliflavus ATCC 12755] Length = 312 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VL+E S++KGV ED+ IILNIKG+ LKM GD K + I GP VTAGDI +D+E+ Sbjct: 59 VLYEFSTVKGVREDVAQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC + A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICTVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLHDLGLGL 308 >gi|304385388|ref|ZP_07367733.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici DSM 20284] gi|304328595|gb|EFL95816.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici DSM 20284] Length = 314 Score = 342 bits (878), Expect = 4e-92, Method: Composition-based stats. Identities = 141/312 (45%), Positives = 192/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID Sbjct: 3 EFEKPK----IHKIDENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDN 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ V Sbjct: 59 VLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDEKTLDINVVGPANVTAGDIMGDGDVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + LT G GY A R + PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPDSPICTVAEGTTFHAVLTADTGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + Sbjct: 179 QVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RTEA M+++ N GRKSLVE Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINSVQELTDRTEAQMMKVRNLGRKSLVE 298 Query: 306 IKGVLGTMGLFL 317 I+ L +GL Sbjct: 299 IQEKLNALGLSF 310 >gi|225175646|ref|ZP_03729640.1| DNA-directed RNA polymerase, alpha subunit [Dethiobacter alkaliphilus AHT 1] gi|225168975|gb|EEG77775.1| DNA-directed RNA polymerase, alpha subunit [Dethiobacter alkaliphilus AHT 1] Length = 314 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 135/310 (43%), Positives = 199/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + EPL RG+ TLGNALRR+L+SSL GAA+T V+I+ Sbjct: 3 EIEKPR-IERVD-SNEDNTHGTFVIEPLERGYGITLGNALRRILLSSLPGAAVTNVKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED T+IILN+K + +K+ D + + + G GVVTAGDI+ D+EV Sbjct: 61 VLHEFSTIPGVLEDTTEIILNLKQLAMKIHSDEPQTLVVVAAGQGVVTAGDIKLPADVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I L+ + MELT G GYVPA+ ++ PIG+I +D+L++PI++V+Y V Sbjct: 121 LNPDMHIATLEEGGRLYMELTAVNGRGYVPAERNKEPGQPIGVIAVDSLFAPIQRVNYKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL+M + TDGSI +++++L ++IL LG+F+N E EV+ Sbjct: 181 ENTRVGQHTDYDKLTMDVWTDGSIRPDEAISLGAKILSKHLGLFVNLTEKVDEVEILDEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + +EEL+LSVRS NCL+ I + +L+ ++E +M+++ N G+KSL E++ Sbjct: 241 DEDDKTKVMEMTIEELDLSVRSYNCLKRAGINTVQELVNKSEDEMMKVRNLGKKSLEEVQ 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 HKLEELQLNL 310 >gi|71065084|ref|YP_263811.1| DNA-directed RNA polymerase subunit alpha [Psychrobacter arcticus 273-4] gi|93005339|ref|YP_579776.1| DNA-directed RNA polymerase subunit alpha [Psychrobacter cryohalolentis K5] gi|90110862|sp|Q4FUD1|RPOA_PSYA2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366710|sp|Q1QDG1|RPOA_PSYCK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71038069|gb|AAZ18377.1| DNA-directed RNA polymerase, 30-40 kDa subunit:RNA polymerase, alpha chain, bacterial and organelle [Psychrobacter arcticus 273-4] gi|92393017|gb|ABE74292.1| DNA-directed RNA polymerase, alpha subunit [Psychrobacter cryohalolentis K5] Length = 335 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 133/330 (40%), Positives = 207/330 (62%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + PN I + E + EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MMLNATEFLTPNAINVDTV---NETIAKVTLEPLERGFGHTLGNALRRILLSSLPGAAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +IDGV HE S+++G+ ED+ D++LN+KG+ + + + +T+ K+GPG +TA DI Sbjct: 58 EAEIDGVDHEYSTLEGLQEDVLDLLLNLKGLAITLHDQNEVFLTLDKQGPGTITAADITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--ITIDALYSP 179 ++++++NP+ V+ L ++M L V G GY PA R + D + + +DA +SP Sbjct: 118 PHNVDIINPELVLGTLSDRGHLKMRLRVVMGRGYEPANQRREDGDTKAIGRLKLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E + Sbjct: 178 VLRVAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLEAEEA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G Sbjct: 238 PEPVKEK---EEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + L LGM L +WPP + Sbjct: 295 KKSLTEIKDVLASKDLELGMRLDNWPPADL 324 >gi|326803058|ref|YP_004320876.1| DNA-directed RNA polymerase, alpha subunit [Aerococcus urinae ACS-120-V-Col10a] gi|326651415|gb|AEA01598.1| DNA-directed RNA polymerase, alpha subunit [Aerococcus urinae ACS-120-V-Col10a] Length = 314 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 204/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE I ++ + EPL RG+ TLGN+LRRVL+SSL G A+T+++I+ Sbjct: 3 EIEKPN-IETIETSEDNKF-GKFAVEPLERGYGTTLGNSLRRVLLSSLPGTAVTSIKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T I+LNIK + LK+ K + + GP VTA DI D +V Sbjct: 61 VLHEFSTIPGVREDVTQIVLNIKQLALKLYDVDEKDIELDITGPAEVTAADITADADFDV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP IC+L A + M + V G G+V A++++T++ PIG+I +D++Y+PIKKV+Y V Sbjct: 121 LNPYLHICSLAEGAKIHMLMHVKNGRGFVRAENNKTDDMPIGVIPVDSIYTPIKKVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+V +YDKL+ I TDG+I +++++LA+++L + L +F++ + +E + + Sbjct: 181 ENTRIGEVNEYDKLTFDIWTDGTIAPKEALSLAAKVLTEHLAIFVSLTDEAQEAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L Q+TEA+M+++ N GRKSL E+K Sbjct: 241 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVEELTQKTEAEMMKVRNLGRKSLDEVK 300 Query: 308 GVLGTMGLFLGMN 320 G L + L L + Sbjct: 301 GKLDALDLSLKDD 313 >gi|119946252|ref|YP_943932.1| DNA-directed RNA polymerase subunit alpha [Psychromonas ingrahamii 37] gi|158513118|sp|A1SXW8|RPOA1_PSYIN RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|119864856|gb|ABM04333.1| DNA-directed RNA polymerase, alpha subunit [Psychromonas ingrahamii 37] Length = 328 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 143/331 (43%), Positives = 216/331 (65%), Gaps = 9/331 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KPN + + Q R + EPL RGF HTLGNALRR+L+SS+ GAAIT Sbjct: 1 MQGFVKDFLKPNLV---GIEQINATRAKVTLEPLERGFGHTLGNALRRILLSSMPGAAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGV +E S +GV E++ +I+LN+KG+ +K+ G + V++ K G G V A DI Sbjct: 58 EVEIDGVQNEYSIKEGVQEEILEILLNLKGLAVKLEGKNEVLVSLTKSGAGPVIAADITH 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 +D+E++NP+HVIC+L + + M + + G GYVPA H + G + +DA +S Sbjct: 118 DSDLEIVNPEHVICHLTGNTEISMRIKIELGRGYVPASSRIHSEEDKSANGRLFVDATFS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+++++Y+VESAR Q + DKL + ++TDG++ E+++ A+ IL QL F++ Sbjct: 178 PVERIAYSVESARVEQRTNLDKLVIDMETDGTLEPEEAIRQAAMILAGQLDEFVDERIIS 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V+ + F+P LL+ V +LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+M N Sbjct: 238 APVEVEEK---PEFDPILLRPVNDLELTVRSANCLKAESIYYIGDLVQRTEVELLKMPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 GRKSL EIK L + GL+LGM L +WPP S+ Sbjct: 295 GRKSLTEIKDDLVSRGLYLGMRLENWPPASL 325 >gi|270291108|ref|ZP_06197331.1| DNA-directed RNA polymerase, alpha subunit [Pediococcus acidilactici 7_4] gi|270280504|gb|EFA26339.1| DNA-directed RNA polymerase, alpha subunit [Pediococcus acidilactici 7_4] Length = 314 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 141/312 (45%), Positives = 193/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID Sbjct: 3 EFEKPK----IHKIDENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDN 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ V Sbjct: 59 VLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDEKTLDINVVGPANVTAGDIMGDGDVTV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + LT G GY A R + PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPDSPICTVAEGTTFHAVLTADTGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + Sbjct: 179 QVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RTEA M+++ N GRKSLVE Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINSVQELTDRTEAQMMKVRNLGRKSLVE 298 Query: 306 IKGVLGTMGLFL 317 I+ L ++GL Sbjct: 299 IQEKLNSLGLSF 310 >gi|227832273|ref|YP_002833980.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium aurimucosum ATCC 700975] gi|262183871|ref|ZP_06043292.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium aurimucosum ATCC 700975] gi|227453289|gb|ACP32042.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium aurimucosum ATCC 700975] Length = 336 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 126/315 (40%), Positives = 189/315 (60%), Gaps = 3/315 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I GV ED++ Sbjct: 15 DSSRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTINGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +IILN+KG+ L D + + K GPG VTAGDIQ +E+ N D I +L+ A + Sbjct: 75 EIILNVKGLVLSSDSDEPVVMYLSKEGPGEVTAGDIQPPAGVEIHNSDLHIASLNESAKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MEL V +G GYVPA E G I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 EMELVVERGRGYVPAAATSGEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLII 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SI+ D++A A L + G+ + ++ + + + A +E+L Sbjct: 192 DVETKNSISARDALASAGGTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYSMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L D Sbjct: 252 NFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLANLGLALKDTPED 311 Query: 324 WPPESIEELAKKYED 338 + P +E + D Sbjct: 312 FDPTQLEGYDAETGD 326 >gi|256618354|ref|ZP_05475200.1| DNA-directed RNA polymerase [Enterococcus faecalis ATCC 4200] gi|256597881|gb|EEU17057.1| DNA-directed RNA polymerase [Enterococcus faecalis ATCC 4200] Length = 312 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPR----IEKIDENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTIPGVREDVTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D VIC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDLVICSVAEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G+ D+DKL+M I TDGSI +++++LA++I+ + L +F+N + K + + Sbjct: 179 ENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 LNLHDLGLGL 308 >gi|69247195|ref|ZP_00604257.1| DNA-directed RNA polymerase [Enterococcus faecium DO] gi|227550745|ref|ZP_03980794.1| DNA-directed RNA polymerase [Enterococcus faecium TX1330] gi|257878750|ref|ZP_05658403.1| DNA directed RNA polymerase [Enterococcus faecium 1,230,933] gi|257881392|ref|ZP_05661045.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,502] gi|257885659|ref|ZP_05665312.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,501] gi|257887996|ref|ZP_05667649.1| DNA directed RNA polymerase [Enterococcus faecium 1,141,733] gi|257890609|ref|ZP_05670262.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,410] gi|257893200|ref|ZP_05672853.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,408] gi|257896385|ref|ZP_05676038.1| DNA directed RNA polymerase [Enterococcus faecium Com12] gi|257899360|ref|ZP_05679013.1| DNA directed RNA polymerase [Enterococcus faecium Com15] gi|258615185|ref|ZP_05712955.1| DNA-directed RNA polymerase subunit alpha [Enterococcus faecium DO] gi|260558313|ref|ZP_05830509.1| DNA directed RNA polymerase [Enterococcus faecium C68] gi|261207018|ref|ZP_05921707.1| DNA directed RNA polymerase [Enterococcus faecium TC 6] gi|289565347|ref|ZP_06445797.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium D344SRF] gi|293379471|ref|ZP_06625615.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium PC4.1] gi|293553904|ref|ZP_06674510.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1039] gi|293562972|ref|ZP_06677439.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1162] gi|293567906|ref|ZP_06679247.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1071] gi|293570709|ref|ZP_06681759.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E980] gi|294615368|ref|ZP_06695241.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1636] gi|294618294|ref|ZP_06697875.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1679] gi|294621104|ref|ZP_06700295.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium U0317] gi|314937634|ref|ZP_07844960.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133a04] gi|314942867|ref|ZP_07849680.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133C] gi|314947997|ref|ZP_07851401.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0082] gi|314950914|ref|ZP_07853983.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133A] gi|314991438|ref|ZP_07856915.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133B] gi|314995041|ref|ZP_07860161.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133a01] gi|68194960|gb|EAN09428.1| DNA-directed RNA polymerase [Enterococcus faecium DO] gi|227180206|gb|EEI61178.1| DNA-directed RNA polymerase [Enterococcus faecium TX1330] gi|257812978|gb|EEV41736.1| DNA directed RNA polymerase [Enterococcus faecium 1,230,933] gi|257817050|gb|EEV44378.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,502] gi|257821515|gb|EEV48645.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,501] gi|257824050|gb|EEV50982.1| DNA directed RNA polymerase [Enterococcus faecium 1,141,733] gi|257826969|gb|EEV53595.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,410] gi|257829579|gb|EEV56186.1| DNA directed RNA polymerase [Enterococcus faecium 1,231,408] gi|257832950|gb|EEV59371.1| DNA directed RNA polymerase [Enterococcus faecium Com12] gi|257837272|gb|EEV62346.1| DNA directed RNA polymerase [Enterococcus faecium Com15] gi|260075487|gb|EEW63793.1| DNA directed RNA polymerase [Enterococcus faecium C68] gi|260078646|gb|EEW66348.1| DNA directed RNA polymerase [Enterococcus faecium TC 6] gi|289162837|gb|EFD10687.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium D344SRF] gi|291589491|gb|EFF21298.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1071] gi|291591742|gb|EFF23378.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1636] gi|291595388|gb|EFF26700.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1679] gi|291599340|gb|EFF30366.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium U0317] gi|291601956|gb|EFF32202.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1039] gi|291605098|gb|EFF34565.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E1162] gi|291609181|gb|EFF38453.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium E980] gi|292641994|gb|EFF60160.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium PC4.1] gi|313590767|gb|EFR69612.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133a01] gi|313593918|gb|EFR72763.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133B] gi|313596923|gb|EFR75768.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133A] gi|313598339|gb|EFR77184.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133C] gi|313643011|gb|EFS07591.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0133a04] gi|313645595|gb|EFS10175.1| DNA-directed RNA polymerase, alpha subunit [Enterococcus faecium TX0082] Length = 312 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 138/310 (44%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG Sbjct: 3 EFEKPRIAKI----DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+IKGV ED+T IILNIKG+ LKM G K + I GP VTAGDI +D+E+ Sbjct: 59 VLHEFSTIKGVREDVTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D IC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y V Sbjct: 119 LNKDMYICSVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + Sbjct: 179 ENTRVGHREDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 239 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEPEMIKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 AKLHDLGLGL 308 >gi|160932172|ref|ZP_02079563.1| hypothetical protein CLOLEP_01007 [Clostridium leptum DSM 753] gi|156868774|gb|EDO62146.1| hypothetical protein CLOLEP_01007 [Clostridium leptum DSM 753] Length = 317 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 126/312 (40%), Positives = 197/312 (63%), Gaps = 4/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + + + EPL RGF TLGN+LRRVL+SSL G A+T+++IDG Sbjct: 3 EIEKPRI--DTEVLSADGTYGKFVVEPLERGFGTTLGNSLRRVLLSSLPGVAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+I+LN+KG+ K+ D K V I GP VTA I+ +++E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIVLNMKGLTAKLHCDGAKTVEISAEGPCEVTADSIKCDSEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSY 185 LNP+ I L A + ME+T+ KG GY+ A+ ++ N+ IG++ ID++Y+P+ KV++ Sbjct: 121 LNPEMHIATLGDGARLYMEITLDKGRGYISAERNKANMQNNVIGILPIDSIYTPVLKVNF 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ+ DYDKL++ + T+G I +++V+LA+++L + L +F++ + + + Sbjct: 181 GVENTRVGQITDYDKLTLEVWTNGVINAQEAVSLAAKVLTEHLNLFVDLSDKGYNTEIMV 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +EEL+LSVRS NCL+ I + DLI ++E DM+++ N GRKSL E Sbjct: 241 EKDDKGKEKVLEMTIEELDLSVRSFNCLKRAGINTVEDLINKSEDDMMKVRNLGRKSLEE 300 Query: 306 IKGVLGTMGLFL 317 + L ++G L Sbjct: 301 VVYKLNSLGFSL 312 >gi|145294735|ref|YP_001137556.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glutamicum R] gi|158513584|sp|A4QBQ7|RPOA_CORGB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|140844655|dbj|BAF53654.1| hypothetical protein [Corynebacterium glutamicum R] Length = 338 Score = 342 bits (877), Expect = 5e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 193/313 (61%), Gaps = 1/313 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I G Sbjct: 9 ITEEFVDNARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTISG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED++DIILNIKG+ L D + + K GPGVVTAGDIQ +E+ NPD I L Sbjct: 69 VKEDVSDIILNIKGLVLSSDSDEPVVMQLVKEGPGVVTAGDIQPPAGVEIHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + +EL V +G GYVPA T IG I +D +YSP+ KVSY VE+ R Q D Sbjct: 129 NETAKIEIELIVERGRGYVPATVTATGG-EIGRIPVDQIYSPVLKVSYKVEATRVEQRTD 187 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SIT D++A A + L + G+ + ++ + + + A Sbjct: 188 FDKLVIDVETKNSITARDALASAGKTLVELFGLARELNIAAEGIEIGPSPQETEYIAAYS 247 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+ SVRS NCL+ E+I +G+L +R E+D+L + NFG+KS+ E+K L +GL L Sbjct: 248 MPIEDLDFSVRSYNCLKREDIHTVGELAERAESDLLDIRNFGQKSINEVKIKLAGLGLTL 307 Query: 318 GMNLPDWPPESIE 330 D+ P ++E Sbjct: 308 KDAPEDFDPSTLE 320 >gi|241895163|ref|ZP_04782459.1| DNA-directed RNA polymerase alpha chain [Weissella paramesenteroides ATCC 33313] gi|241871469|gb|EER75220.1| DNA-directed RNA polymerase alpha chain [Weissella paramesenteroides ATCC 33313] Length = 331 Score = 341 bits (876), Expect = 6e-92, Method: Composition-based stats. Identities = 133/312 (42%), Positives = 196/312 (62%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E P I+L +E+ N + EPL RG+ TLGN+LRRVL+SSL GAAI +VQIDG Sbjct: 20 EFENPK----IMLVEEDSNYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAINSVQIDG 75 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K +++++ D K + + GP VTAGDI +D+E+ Sbjct: 76 VLHEFSTVEGVVEDVTQIILNLKKVSMRIDSDDEKTLEVNVTGPADVTAGDIAGDSDVEI 135 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LN D I + A + M LT +G GYV ++ + PIG++ ID++++PI++V+Y Sbjct: 136 LNGDLHIATVAAGATLHMTLTAVRGRGYVSGDQNKELHDEMPIGVLAIDSIFTPIERVNY 195 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ D+DKL++ + TDGS+T ++V+LA+RI+ D L FI+ E + Sbjct: 196 QVENTRVGQRDDFDKLTLDVWTDGSLTATEAVSLAARIMSDHLNAFIDMSERAITAQVMA 255 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + P +EEL+LSVRS NCL+ I + +L +RTE M+ + N GRKSL E Sbjct: 256 DKEEEPTTKHADTPIEELDLSVRSYNCLKRAGINSVQELTERTETQMMSVRNLGRKSLDE 315 Query: 306 IKGVLGTMGLFL 317 I+ L +GL Sbjct: 316 IQDKLKLLGLGF 327 >gi|218135253|ref|ZP_03464057.1| hypothetical protein BACPEC_03158 [Bacteroides pectinophilus ATCC 43243] gi|217990638|gb|EEC56649.1| hypothetical protein BACPEC_03158 [Bacteroides pectinophilus ATCC 43243] Length = 319 Score = 341 bits (876), Expect = 7e-92, Method: Composition-based stats. Identities = 131/314 (41%), Positives = 204/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 3 DFQKP-KIEIATI-SDDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K D K I G GVV A DIQT DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNLAIKNNSDSDEPKTAYIEFEGEGVVKASDIQTDGDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI +L+ + MELT++KG GYV + ++TE+ P+G+I +D++Y+P+++V Sbjct: 121 EIINPDLVIAHLNGGDGCKLSMELTITKGRGYVSSDKNKTEDTPVGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V++ R GQV DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMAVQNTRVGQVTDYDKLTLDVYTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEI 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MVEESTDEHEKVLEMTIDELELSVRSYNCLKRAGINTVEELCNKTPDDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >gi|19551799|ref|NP_599801.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glutamicum ATCC 13032] gi|62389454|ref|YP_224856.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium glutamicum ATCC 13032] gi|23822074|sp|Q8NSV2|RPOA_CORGL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21323330|dbj|BAB97958.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit [Corynebacterium glutamicum ATCC 13032] gi|41324788|emb|CAF19270.1| DNA-DIRECTED RNA POLYMERASE ALPHA SUBUNIT [Corynebacterium glutamicum ATCC 13032] Length = 338 Score = 341 bits (875), Expect = 8e-92, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 192/313 (61%), Gaps = 1/313 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I G Sbjct: 9 ITEEFVNNARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTISG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED++DIILNIKG+ L D + + K GPGVVTAGDIQ +E+ NPD I L Sbjct: 69 VKEDVSDIILNIKGLVLSSDSDEPVVMQLVKEGPGVVTAGDIQPPAGVEIHNPDLHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + +EL V +G GYVPA T IG I +D +YSP+ KVSY VE+ R Q D Sbjct: 129 NETAKIEIELIVERGRGYVPATVTATGG-EIGRIPVDQIYSPVLKVSYKVEATRVEQRTD 187 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T SIT D++A A + L + G+ + ++ + + + A Sbjct: 188 FDKLVIDVETKNSITARDALASAGKTLVELFGLARELNIAAEGIEIGPSPQETEYIAAYS 247 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+ SVRS NCL+ E+I +G+L +R E+D+L + NFG+KS+ E+K L +GL L Sbjct: 248 MPIEDLDFSVRSYNCLKREDIHTVGELAERAESDLLDIRNFGQKSINEVKIKLAGLGLTL 307 Query: 318 GMNLPDWPPESIE 330 D+ P ++E Sbjct: 308 KDAPEDFDPSTLE 320 >gi|326692212|ref|ZP_08229217.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc argentinum KCTC 3773] Length = 314 Score = 341 bits (875), Expect = 8e-92, Method: Composition-based stats. Identities = 130/312 (41%), Positives = 191/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EV Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M +T KG GY A ++ E PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L ++IL + L +F++ E + Sbjct: 179 HVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EAEPVAVSASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L MGL Sbjct: 299 IQEKLTEMGLGF 310 >gi|300857809|ref|YP_003782792.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudotuberculosis FRC41] gi|300685263|gb|ADK28185.1| DNA-directed RNA polymerase alpha subunit [Corynebacterium pseudotuberculosis FRC41] gi|302205544|gb|ADL09886.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudotuberculosis C231] gi|302330099|gb|ADL20293.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudotuberculosis 1002] gi|308275780|gb|ADO25679.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium pseudotuberculosis I19] Length = 338 Score = 341 bits (875), Expect = 8e-92, Method: Composition-based stats. Identities = 129/321 (40%), Positives = 192/321 (59%), Gaps = 5/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + R+ I EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVL Sbjct: 5 QRPTLTE----EYVDSARSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I GV ED++DIILNIKG+ L D + + K G GVV+AGDI+ +E+ N Sbjct: 61 HEFTTINGVKEDVSDIILNIKGLVLSSDSDEPVVMYLRKEGAGVVSAGDIEPPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD I L+ + +E+ V +G GYVPA + N IG I +D +YSP+ KVSY VE+ Sbjct: 121 PDLHIATLNEQGRLDIEMIVERGRGYVPASLYAGTN-EIGRIPVDQIYSPVLKVSYKVEA 179 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T SI D++A A + L + G+ + ++ + + Sbjct: 180 TRVEQRTDFDKLIIDVETKNSIAPSDALASAGKTLVELFGLARELNTAAEGIEIGPSPQE 239 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + A +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K Sbjct: 240 TEYIAAYSMPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIK 299 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +GLFL + D+ P +E Sbjct: 300 LAGLGLFLKDSPEDFDPTQLE 320 >gi|257454071|ref|ZP_05619345.1| DNA-directed RNA polymerase, alpha subunit [Enhydrobacter aerosaccus SK60] gi|257448549|gb|EEV23518.1| DNA-directed RNA polymerase, alpha subunit [Enhydrobacter aerosaccus SK60] Length = 335 Score = 341 bits (875), Expect = 8e-92, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 212/330 (64%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + PN I + E + EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MMLNATEFLTPNAIHVDTV---NETHAKVTLEPLERGFGHTLGNALRRILLSSLPGAAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GV HE S+++G+ ED+ D++LN+KG+ +++ + +T+ K+GPG V A DI+ Sbjct: 58 EAEIEGVDHEYSTLEGLQEDVLDLLLNLKGLAIQLHDQNEVFLTLDKQGPGTVLASDIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSP 179 +++E++NPD V+ L ++M L V+ G GY PA + +N IG + +DA YSP Sbjct: 118 PHNVEIINPDLVLGTLSDRGHLKMRLRVAVGRGYEPANVRKDSGDNKVIGRLKLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I +V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E Sbjct: 178 ILRVAYQVENARVEQRTDLDRLVIELETNGTIDPEEAIRKAATILQQQIAVFVDLE---A 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E + + +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 235 EATPEPVKEKEEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRTETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + L LGM L +WPP + Sbjct: 295 KKSLTEIKDVLASKDLELGMRLENWPPADL 324 >gi|148652262|ref|YP_001279355.1| DNA-directed RNA polymerase subunit alpha [Psychrobacter sp. PRwf-1] gi|172048491|sp|A5WCL4|RPOA_PSYWF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148571346|gb|ABQ93405.1| DNA-directed RNA polymerase, alpha subunit [Psychrobacter sp. PRwf-1] Length = 335 Score = 341 bits (875), Expect = 9e-92, Method: Composition-based stats. Identities = 132/330 (40%), Positives = 209/330 (63%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N E + PN I + + + EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MMLNATEFLTPNAINVDAVDETN---AKVTLEPLERGFGHTLGNALRRILLSSLPGAAVI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GV HE S+++G+ ED+ D++LN+KG+ + M + +T+ K+GPG++TA DI+ Sbjct: 58 EAEIEGVDHEYSTLEGLQEDVLDLLLNLKGLAITMHDQNEVFLTLDKKGPGIITAADIEL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--ITIDALYSP 179 ++++++NP+ V+ L ++M L V G GY PA R + D + + +DA +SP Sbjct: 118 PHNVDIVNPELVLGTLGDRGHLKMRLRVVMGRGYEPANLRREDGDTKAIGRLKLDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +V+Y VE+AR Q D D+L + ++T+G+I E+++ A+ ILQ Q+ +F++ E + Sbjct: 178 VSRVAYQVENARVEQRTDLDRLIIELETNGTIDPEEAIRKAATILQQQISIFVDLEAEEA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G Sbjct: 238 PEPVKEK---EEVDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL L M L +WPP + Sbjct: 295 KKSLTEIKDVLASKGLELDMRLENWPPADL 324 >gi|163790168|ref|ZP_02184602.1| DNA-directed RNA polymerase subunit alpha [Carnobacterium sp. AT7] gi|328958703|ref|YP_004376089.1| DNA-directed RNA polymerase subunit alpha [Carnobacterium sp. 17-4] gi|159874659|gb|EDP68729.1| DNA-directed RNA polymerase subunit alpha [Carnobacterium sp. AT7] gi|328675027|gb|AEB31073.1| DNA-directed RNA polymerase subunit alpha [Carnobacterium sp. 17-4] Length = 314 Score = 341 bits (875), Expect = 1e-91, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T +QIDG Sbjct: 3 EIEKPR-IETIEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTTIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T IILNIK + LK+ K + I +GP VVTA DI +D+E+ Sbjct: 61 VLHEFSTVDGVVEDVTSIILNIKKLALKLYSGEDKTIEIDVKGPAVVTAADIIYDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + A + +T G GYV A+H++ ++ PIG++ ID++Y+P+ +V+Y V Sbjct: 121 LNPDLYICTVAEGARFHVRMTAKSGRGYVRAEHNKQDDMPIGVLPIDSIYTPVSRVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DKL++ + DGSI+ E++V+LA++IL + L +F+N + ++ + + Sbjct: 181 ENTRVGQKNISDKLTLDVWADGSISPEEAVSLAAKILTEHLNVFVNLTDEARKAEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +TEA+M+++ N GRKSL E+K Sbjct: 241 EETHKEKMLEMTIEELDLSVRSYNCLKRAGINSVQELTDKTEAEMIKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 FKLAELDLNL 310 >gi|309785617|ref|ZP_07680248.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 1617] gi|308926737|gb|EFP72213.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 1617] Length = 304 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 142/305 (46%), Positives = 209/305 (68%), Gaps = 7/305 (2%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+K Sbjct: 2 TLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLK 61 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTV 149 G+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V Sbjct: 62 GLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKV 121 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++ Sbjct: 122 RRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEME 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P LL+ V++LEL+ Sbjct: 182 TNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELT 238 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 239 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPP 298 Query: 327 ESIEE 331 SI + Sbjct: 299 ASIAD 303 >gi|259502556|ref|ZP_05745458.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus antri DSM 16041] gi|259169508|gb|EEW54003.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus antri DSM 16041] Length = 314 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 138/312 (44%), Positives = 204/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT +QIDG Sbjct: 3 EFEKPNIHKV----EETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A R E+ IG++ ID++Y+PI++V+Y Sbjct: 119 LNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE+AR GQ DYDKL++ + TDGSIT ++V+L ++IL + L MF+N E + + + Sbjct: 179 TVENARVGQRSDYDKLTLDVWTDGSITPTEAVSLGAKILTEHLAMFVNLTETAQNAQVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RT +DM+++ N G+KSL E Sbjct: 239 EKEETHKEKTLEMTIEELDLSVRSYNCLKRAGINTVKELTDRTVSDMMKVRNLGQKSLEE 298 Query: 306 IKGVLGTMGLFL 317 IK L +G+ Sbjct: 299 IKLKLNDLGVSF 310 >gi|227549868|ref|ZP_03979917.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium lipophiloflavum DSM 44291] gi|227078123|gb|EEI16086.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium lipophiloflavum DSM 44291] Length = 337 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 123/321 (38%), Positives = 191/321 (59%), Gaps = 2/321 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE ++I G Sbjct: 9 LTEEYIDTNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVLHEFTTING 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E++++IILN+K I L D + + K GPG VTAGDI+ D+ + NPD I +L Sbjct: 69 IKENVSEIILNVKNIVLSSDSDEPVVLYLSKEGPGDVTAGDIELTADVAIHNPDLHIASL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + MEL V +G GYVPA + G I +D +YSP+ +V+Y VE+ R Q D Sbjct: 129 NDSARLEMELVVERGRGYVPAMPYA--GGEAGRIPVDQIYSPVTRVAYKVEATRVEQRTD 186 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T S+T D++A A L + G+ + ++ + + + A Sbjct: 187 FDKLIIDVETKNSMTARDALASAGSTLVELFGLARELNTAAEGLEIGPSPQETEYIAAYN 246 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++GL L Sbjct: 247 LPIEDLNFSVRSYNCLKRQEIHSVGELAEYTESDLLDIRNFGQKSINEVKIKLASLGLTL 306 Query: 318 GMNLPDWPPESIEELAKKYED 338 D+ P IE + D Sbjct: 307 KDAPEDFDPTQIEGYDAETGD 327 >gi|148361030|ref|YP_001252237.1| DNA-directed RNA polymerase subunit alpha RpoA [Legionella pneumophila str. Corby] gi|296105902|ref|YP_003617602.1| DNA-directed RNA polymerase subunit alpha [Legionella pneumophila 2300/99 Alcoy] gi|166229273|sp|A5IHP1|RPOA_LEGPC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148282803|gb|ABQ56891.1| DNA-directed RNA polymerase alpha subunit RpoA [Legionella pneumophila str. Corby] gi|295647803|gb|ADG23650.1| DNA-directed RNA polymerase subunit alpha [Legionella pneumophila 2300/99 Alcoy] Length = 330 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 144/336 (42%), Positives = 214/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + E++ P + + E + ++ EPL RGF HTLGNALRR+L+SS+ G+AIT Sbjct: 1 MYTEINEMLTPK---VLKVQAESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + +VT+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA------KHHRTENDPIGLITIDA 175 + E++NP+ VI NL+ + M L V +G G+ E +G + ID Sbjct: 118 THGQEIINPELVIANLNEKGKLNMTLKVERGIGFHNTDAFVRYHEDEIEKKTVGKLKIDN 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+KKV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL F++ Sbjct: 178 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDM- 236 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K E N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 237 --KFEESRADNKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >gi|224585210|ref|YP_002639009.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] gi|224469738|gb|ACN47568.1| DNA-directed RNA polymerase alpha subunit [Salmonella enterica subsp. enterica serovar Paratyphi C strain RKS4594] Length = 304 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 142/305 (46%), Positives = 209/305 (68%), Gaps = 7/305 (2%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+K Sbjct: 2 TLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLK 61 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTV 149 G+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V Sbjct: 62 GLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKV 121 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++ Sbjct: 122 QRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEME 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P LL+ V++LEL+ Sbjct: 182 TNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELT 238 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 239 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPP 298 Query: 327 ESIEE 331 SI + Sbjct: 299 ASIAD 303 >gi|54296390|ref|YP_122759.1| DNA-directed RNA polymerase subunit alpha [Legionella pneumophila str. Paris] gi|61215818|sp|Q5X834|RPOA_LEGPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|53750175|emb|CAH11567.1| DNA-directed RNA polymerase alpha chain [Legionella pneumophila str. Paris] Length = 330 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 144/336 (42%), Positives = 214/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + E++ P + + E + ++ EPL RGF HTLGNALRR+L+SS+ G+AIT Sbjct: 1 MYTEINEMLTPK---VLKVQAESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + +VT+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQVTLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA------KHHRTENDPIGLITIDA 175 + E++NP+ VI NL+ + M L V +G G+ E +G + ID Sbjct: 118 THGQEIINPELVIANLNEKGKLNMTLKVERGIGFHNTDAFVRYHDDEIEKKTVGKLKIDN 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+KKV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL F++ Sbjct: 178 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDM- 236 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K E N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 237 --KFEESRADNKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >gi|189219450|ref|YP_001940091.1| DNA-directed RNA polymerase, alpha subunit [Methylacidiphilum infernorum V4] gi|189186308|gb|ACD83493.1| DNA-directed RNA polymerase, alpha subunit [Methylacidiphilum infernorum V4] Length = 337 Score = 341 bits (874), Expect = 1e-91, Method: Composition-based stats. Identities = 129/329 (39%), Positives = 196/329 (59%), Gaps = 7/329 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P +I I EP G+ HTLGN+LRR+L+SSL GAAI++V+I+GV+ Sbjct: 9 EMPRSI-VKDETVSNSTFGKYIIEPFESGYGHTLGNSLRRILLSSLEGAAISSVKIEGVM 67 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++++GV ED+ DI+LN+K + +KM + + G VTAGDIQ +E++N Sbjct: 68 HEFTTMEGVVEDVVDIVLNLKKVLIKMPDRQTRVFRVDVFKEGAVTAGDIQVDPGVEIVN 127 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ +IC LD + MEL V G G++ ++++ ++ IG+I ID L+SP++ V YTVE+ Sbjct: 128 PEQLICTLDKKQRLLMELEVKVGRGFLLGEYNKKQDQSIGVIPIDCLFSPVRHVKYTVEN 187 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R GQ DYD+L I TDG I ++++ ++ ILQ L +F+ + + E ++ Sbjct: 188 TRVGQRTDYDRLIFEIWTDGRIGPDEALVQSAAILQHHLDIFVQYGKEPVEFEKPKPPIK 247 Query: 250 LPFNP---ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 N L V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EI Sbjct: 248 EEENRLRKILNMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEI 307 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKK 335 K L ++GL LGM + P +++ +K Sbjct: 308 KEKLASLGLSLGM---KFDPSLLDQTEEK 333 >gi|319942198|ref|ZP_08016514.1| DNA-directed RNA polymerase subunit alpha [Sutterella wadsworthensis 3_1_45B] gi|319804251|gb|EFW01143.1| DNA-directed RNA polymerase subunit alpha [Sutterella wadsworthensis 3_1_45B] Length = 335 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 146/328 (44%), Positives = 202/328 (61%), Gaps = 9/328 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 L+KP +++ + + NR ++ EP RG+ HTLGNALRR+L+SS+ G A T QI G+ Sbjct: 6 LLKPTSVDV-SVDESNPNRAVITLEPFERGYGHTLGNALRRILLSSMVGFAPTEAQITGI 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE S I GV ED+ DI+LN+KG+ K+ + + K G GVVTA D +D+ VL Sbjct: 65 VHEYSQIDGVLEDVVDILLNLKGVVFKLEKRDEVTIMLRKDGDGVVTAADFDLPHDVTVL 124 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVP----AKHHRTENDPIGLITIDALYSPIKKVS 184 NPDHVI +L + M++ + KG GY P A IG I +DA +SPI +V+ Sbjct: 125 NPDHVIAHLS-GGRLEMQVKIEKGRGYQPGDVRAFRDDYSKSSIGRIIMDASFSPILRVA 183 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV--- 241 Y V +AR Q D DKL MTI+T+G+I E+++ + RILQDQL +F + Sbjct: 184 YQVMAARVAQRTDLDKLEMTIETNGAIGPEEALRESVRILQDQLAVFGAIHPEQGTDGIK 243 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ED P +P LL+ V++LEL+VRS NCL+ E+I ++GDLIQRTE ++L+ N GRK Sbjct: 244 PEDAANNPPPLDPILLRPVDDLELTVRSANCLKAESIYFIGDLIQRTENELLKTPNLGRK 303 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESI 329 SL EIK VL GL LG L +WPP + Sbjct: 304 SLNEIKEVLAAHGLTLGSKLENWPPAGV 331 >gi|32491317|ref|NP_871571.1| DNA-directed RNA polymerase subunit alpha [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] gi|30173252|sp|Q8D1Y8|RPOA_WIGBR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|25166524|dbj|BAC24714.1| rpoA [Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis] Length = 328 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 147/330 (44%), Positives = 217/330 (65%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E +KP ++ + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MHNSATEFLKPRLVDIEQI---SKTHAKITLEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDG+LHE SS +GV ED+ +I+LN+K + L + G +++FK G G VTA DI Sbjct: 58 EVEIDGILHEYSSKEGVQEDIVEILLNLKELALIIKGKDIAVLSLFKSGIGKVTASDIIH 117 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPA-KHHRTENDPIGLITIDALYSP 179 ++E+ +P+HV+CNL ++ + M + V KG GYVPA E+ PIG + +DA YSP Sbjct: 118 DGNVEICHPEHVLCNLTHENSSINMRIKVQKGRGYVPAISRMHIEDRPIGRLLLDACYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I+++SY VE+AR Q D DKL + ++T+G+I E ++ A+ IL +QL FI+ + + Sbjct: 178 IERISYNVEAARVEQRTDLDKLIIEMETNGTIDPESAIRRAATILSEQLEAFIDLRDIR- 236 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K +I + F+P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G Sbjct: 237 --KPEIKEEKPEFDPVLLRPVDDLELTVRSANCLKAESIHYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL T L LGM + +WPP SI Sbjct: 295 KKSLTEIKDVLSTRNLTLGMRIENWPPVSI 324 >gi|302876505|ref|YP_003845138.1| DNA-directed RNA polymerase, alpha subunit [Clostridium cellulovorans 743B] gi|307687177|ref|ZP_07629623.1| DNA-directed RNA polymerase subunit alpha [Clostridium cellulovorans 743B] gi|302579362|gb|ADL53374.1| DNA-directed RNA polymerase, alpha subunit [Clostridium cellulovorans 743B] Length = 315 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 206/313 (65%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + + EPL RG+ TLGN+LRR+L+SSL G A +++IDG Sbjct: 3 EIEKP-KIECVE-STEDGSYGKFVIEPLERGYGITLGNSLRRILLSSLPGVAANSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T++ILN+K + LKM+G+ K + I +GP VVTA DI T + +EV Sbjct: 61 VLHEFSTVKGVKEDVTELILNVKPLALKMNGEGPKTIYIDAQGPAVVTAADIITDDSVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ D I LD D ++ME+ V+ G GYV ++ ++ PIG I ID++Y+PI +V++TV Sbjct: 121 ISKDLHIATLDEDGRLQMEIEVNSGRGYVTQNKNKRDDMPIGTIAIDSIYTPITRVNFTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + T+G+I E++++L+S+IL + L +F+ + V+ + Sbjct: 181 ENTRVGQITDYDKLTLEVWTNGTIRPEEAISLSSKILIEHLKLFMTLTDNADNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +R+ DM+++ N G+KSL E+ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELTERSMDDMMKVRNLGKKSLEEVD 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L +N Sbjct: 301 QKLTALGLGLKLN 313 >gi|225165487|ref|ZP_03727313.1| DNA-directed RNA polymerase, alpha subunit [Opitutaceae bacterium TAV2] gi|224800264|gb|EEG18668.1| DNA-directed RNA polymerase, alpha subunit [Opitutaceae bacterium TAV2] Length = 334 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 130/333 (39%), Positives = 193/333 (57%), Gaps = 4/333 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K + PN + + G + IAEP G+ HT+GN+LRRVL+SS+ G+AI+ Sbjct: 1 MPKRLGKFELPNKLTKVEEGS-SDTYAKFIAEPFEAGYGHTIGNSLRRVLLSSIEGSAIS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++I+GV HE SI GV ED+TDI+LN+K + L + + I G VTA DIQ Sbjct: 60 SIKIEGVNHEFQSIDGVVEDVTDIVLNLKKVLLISTKRDPITLQIRVNREGPVTAADIQA 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++ V+NP+ VIC LD E+ + G GY P + ++ E IG+I ID+L+SP+ Sbjct: 120 DSNVTVVNPNQVICTLDRARPFNAEIEIKTGRGYYPGEQNKKEEQAIGVIAIDSLFSPVT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V Y VE+ R GQ+ DYDKL++ I TDG IT +D++ ++ IL+ + +F E Sbjct: 180 LVKYAVENTRVGQITDYDKLNLEIWTDGRITPDDALKQSAAILKHHIDVFDRVSGENYEF 239 Query: 242 KEDINVKSLPFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S N V E+ELSVR+ NCL NI +G+L +TE +ML+ NF Sbjct: 240 ENQQSEVSEEQNKLRKLLNMSVNEIELSVRAANCLNNANITTVGELAMKTEQEMLKYRNF 299 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK L +GL LGM + ++ +E Sbjct: 300 GKKSLNEIKDKLEALGLSLGMKFDERLLDTKKE 332 >gi|288870169|ref|ZP_06113169.2| DNA-directed RNA polymerase, alpha subunit [Clostridium hathewayi DSM 13479] gi|288868138|gb|EFD00437.1| DNA-directed RNA polymerase, alpha subunit [Clostridium hathewayi DSM 13479] Length = 347 Score = 340 bits (873), Expect = 1e-91, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 208/315 (66%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 28 DFEKPN-IEIAEI-SEDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 85 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D++ K I G GVVTA DIQ DI Sbjct: 86 VLHEFSSIPGVKEDVTEIIMNIKSLAIKNNSDTNEAKVAYIEFEGEGVVTAADIQADPDI 145 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L D+ MELT++KG GYV A +++E+ PIG+I +D++Y+P+++V Sbjct: 146 EIMNPDQVIATLSGGTDSKFYMELTITKGRGYVSADKNKSEDLPIGVIAVDSIYTPVERV 205 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TV++ R GQV D+DKL++ + TDG++ +++V+LA+++L + L +FI+ E K + Sbjct: 206 NMTVQNTRVGQVTDFDKLTLDVYTDGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEV 265 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 266 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 325 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 326 EEVLAKLKELGLQLN 340 >gi|325288605|ref|YP_004264786.1| DNA-directed RNA polymerase subunit alpha [Syntrophobotulus glycolicus DSM 8271] gi|324964006|gb|ADY54785.1| DNA-directed RNA polymerase subunit alpha [Syntrophobotulus glycolicus DSM 8271] Length = 315 Score = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 134/310 (43%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE + E+ + EPL RG+ TLGN+LRR+L+SSL G+A+T+V+I+G Sbjct: 3 EIEKPN-IECVE-RSEDNTYAKFVIEPLERGYGITLGNSLRRILLSSLPGSAVTSVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T++ILNIK + LK D + + + G GVVTAGDI T DIE+ Sbjct: 61 VLHEFSTIPGVLEDVTEVILNIKSLALKGYTDESRVLRLEYEGEGVVTAGDIITGPDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I LD D + ME+TV + GYV A+ ++ IG+I ID++++PI KV+Y V Sbjct: 121 LNPDLKIATLDKDGRLFMEMTVDRSRGYVSAEKNKKPEHAIGVIPIDSIFAPIYKVNYAV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R G + D+D+L++ + ++GSIT E++ +LA++IL + L +FI + V+ + Sbjct: 181 EDTRVGMMTDFDRLTLEVWSNGSITPEEATSLAAKILSEHLRLFIGLTDNLGNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L +EEL+LSVRS NCL+ I + +L Q+TE +M+++ N GRKSL E++ Sbjct: 241 EEEAKDKILEMTIEELDLSVRSYNCLKRAGINTVEELTQKTEEEMIKVRNLGRKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L + L Sbjct: 301 NKLKELSLGF 310 >gi|171911662|ref|ZP_02927132.1| DNA-directed RNA polymerase subunit alpha [Verrucomicrobium spinosum DSM 4136] Length = 371 Score = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 132/335 (39%), Positives = 195/335 (58%), Gaps = 8/335 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + PN + + +AEP RG+ HT+GN+LRRVL+SSL GA+IT Sbjct: 1 MSIRLARFEMPNRL-VKNEATATDYYAQFVAEPFDRGYGHTIGNSLRRVLLSSLEGASIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+I G HE +++ GV ED+T I+LN+K + + + + + GVVTAGDI+ Sbjct: 60 SVRIKGAEHEFTTLPGVLEDVTQIVLNLKKVKFRHFENKETRLLQVSVDKEGVVTAGDIK 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +V+N D VIC LD EL V G G+ + ++ + PIG+I ID+++SP+ Sbjct: 120 DDTSYQVINKDQVICTLDRKGKFEAELEVKVGRGFATNEDNKRPDMPIGVIPIDSIFSPV 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +V Y VE+ R GQ DYDKL + + TDG IT +D++ +S IL+ L +F+N+++ + E Sbjct: 180 TRVKYGVEATRVGQNTDYDKLLIDVWTDGRITPQDALLQSSAILRKHLDVFVNYDDNQVE 239 Query: 241 VK---EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E + ++L L V E+ELSVR+ NCL NI +G L ++EA+MLR N Sbjct: 240 FEVAPEAQSEENLELRKLLNMSVNEIELSVRAANCLNNANITSVGQLAMKSEAEMLRYRN 299 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 FG+KSL EIK L +GL LGM L P +E L Sbjct: 300 FGKKSLTEIKEKLSELGLTLGMKL---DPSLLEPL 331 >gi|300779796|ref|ZP_07089652.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium genitalium ATCC 33030] gi|300533906|gb|EFK54965.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium genitalium ATCC 33030] Length = 337 Score = 340 bits (873), Expect = 2e-91, Method: Composition-based stats. Identities = 123/321 (38%), Positives = 189/321 (58%), Gaps = 2/321 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I G Sbjct: 9 LTEEYIDTNRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIEGVLHEFTTING 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E++++IILNIK + L D + + +GP VTA DI D+ V NPD I +L Sbjct: 69 VKENVSEIILNIKNLVLSSDSDEPVVMYLSAQGPTDVTAADIDLPADVTVHNPDLHIASL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + A + MEL V +G GYVPA + IG I +D +YSP+ KVSY VE+ R Q D Sbjct: 129 NESARLDMELVVERGRGYVPAMTNS--GGEIGRIPVDQIYSPVLKVSYKVEATRVEQRTD 186 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL + ++T S++ D++A A L + G+ + ++ + + + A Sbjct: 187 FDKLIIDVETKNSMSARDALASAGSTLVELFGLARELNTAAEGIEIGPSPQETEYIAAYN 246 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L ++GL L Sbjct: 247 MPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLASLGLTL 306 Query: 318 GMNLPDWPPESIEELAKKYED 338 D+ P IE + D Sbjct: 307 KDAPEDFDPTQIEGYDAETGD 327 >gi|168701504|ref|ZP_02733781.1| DNA-directed RNA polymerase subunit alpha [Gemmata obscuriglobus UQM 2246] Length = 336 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 126/333 (37%), Positives = 189/333 (56%), Gaps = 13/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ W+ L PN ++ + AEP +GF T+GN+LRR+L+SSL G+AIT Sbjct: 1 MRVRWRGLELPNRVQADR-SNLSDTYGKFYAEPFEKGFGMTIGNSLRRILLSSLEGSAIT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I GV HEIS+I GV ED+TDIILN+K + +K D K + I K G V D+Q Sbjct: 60 RVKIQGVQHEISTITGVVEDVTDIILNVKSLVVKNLSDQPKTIRIQKHEAGAVRGVDVQH 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 I+++NP+H I L D ME+TV G GY A + ++ +G+I +D+ +SP+ Sbjct: 120 DETIQIINPEHHIATLTSDVPFVMEMTVENGRGYRTADDNAGKDREVGVIPVDSSFSPVV 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V Y +E R GQ +YD+L M I T+G++ + ++ A++IL+ L F+ + EP E+ Sbjct: 180 RVKYDIEETRVGQKTNYDRLVMEIWTNGTLAPQMAIVEAAKILRKHLNPFVQYTEPGPEL 239 Query: 242 KEDI------------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + D + + L + EL+LSVR+TNCL E I + DL+ RT Sbjct: 240 QLDDGPIEIGPNASVRDQQDAELERKLNMSLAELDLSVRATNCLETEGIQTVRDLVIRTS 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 ++L + NFG +L E+K L GL LGM LP Sbjct: 300 EELLEVRNFGETTLREVKSKLEERGLALGMRLP 332 >gi|298345434|ref|YP_003718121.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii ATCC 43063] gi|304390990|ref|ZP_07372942.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|315656234|ref|ZP_07909125.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii subsp. holmesii ATCC 35242] gi|298235495|gb|ADI66627.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii ATCC 43063] gi|304325873|gb|EFL93119.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii subsp. curtisii ATCC 35241] gi|315493236|gb|EFU82836.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii subsp. holmesii ATCC 35242] Length = 335 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 117/321 (36%), Positives = 184/321 (57%), Gaps = 9/321 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ Sbjct: 15 KLTEEVINDQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLP 74 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T I+LNIK I L D + + K G G VT GDI + + NP+H I Sbjct: 75 GVKEDVTQIVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIAT 134 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q Sbjct: 135 LNKDGKLEIELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEATRVEQRT 194 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T +I D++A A + L + G+ + + ++ + L Sbjct: 195 DFDRLVVDVETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDAALAEDL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 VE+L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L MG+ Sbjct: 255 AMSVEDLDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKLAGMGMS 314 Query: 317 L---------GMNLPDWPPES 328 L G ++P + E+ Sbjct: 315 LKDTPMPAVEGADIPQFSDEN 335 >gi|196234320|ref|ZP_03133149.1| DNA-directed RNA polymerase, alpha subunit [Chthoniobacter flavus Ellin428] gi|196221587|gb|EDY16128.1| DNA-directed RNA polymerase, alpha subunit [Chthoniobacter flavus Ellin428] Length = 329 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 126/315 (40%), Positives = 179/315 (56%), Gaps = 4/315 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P ++ + +AEP G+ +T+GN+LRRVL+SSL GAAIT+V+I G H Sbjct: 1 MPKSL-VKDDASRTDTYAKFVAEPFEAGYGNTIGNSLRRVLLSSLEGAAITSVKITGAQH 59 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++ V +D+TDI+LN+K + K + + +TI G VTAGDI+ + EVLN Sbjct: 60 EFQTLPHVVDDVTDIVLNLKKVKFKANDHEIRNLTINVNKEGAVTAGDIEDSSQCEVLNK 119 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D +IC LD EL V G G+ ++ + PIG+I ID+++SP+ +V YTV + Sbjct: 120 DQIICTLDKKTKFEAELEVKVGRGFSTGDENKHPDQPIGVIAIDSIFSPVTRVKYTVGNT 179 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 R GQ DYDKL + I TDG +T E+++ AS IL+ F ++E + E +S Sbjct: 180 RVGQRTDYDKLELEIWTDGRLTPEEALVQASSILKKHFEPFYAYDENAVQFDETPQAQSQ 239 Query: 251 PFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 V E+ELSVR+ NCL NI +G L +TEA+ML+ NFG+KSL EIK Sbjct: 240 ENQKMKKLLNMSVNEIELSVRAANCLNNANITTVGQLAMKTEAEMLKYRNFGKKSLNEIK 299 Query: 308 GVLGTMGLFLGMNLP 322 L +GL LGM Sbjct: 300 DKLTQLGLSLGMKFE 314 >gi|52840599|ref|YP_094398.1| DNA-directed RNA polymerase subunit alpha [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|54293346|ref|YP_125761.1| DNA-directed RNA polymerase subunit alpha [Legionella pneumophila str. Lens] gi|61215814|sp|Q5WZI7|RPOA_LEGPL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215830|sp|Q5ZYL8|RPOA_LEGPH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52627710|gb|AAU26451.1| DNA-directed RNA polymerase alpha subunit RpoA [Legionella pneumophila subsp. pneumophila str. Philadelphia 1] gi|53753178|emb|CAH14625.1| DNA-directed RNA polymerase alpha chain [Legionella pneumophila str. Lens] gi|307609162|emb|CBW98618.1| DNA-directed RNA polymerase alpha chain [Legionella pneumophila 130b] Length = 330 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 143/336 (42%), Positives = 214/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + E++ P + + E + ++ EPL RGF HTLGNALRR+L+SS+ G+AIT Sbjct: 1 MYTEINEMLTPK---VLKVQAESPYKARIVLEPLERGFGHTLGNALRRILLSSMPGSAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 IDGVLHE S+I+GV ED+ D++LN+K + +K++ + ++T+ K GP VTAGDIQ Sbjct: 58 EASIDGVLHEYSTIEGVQEDVVDLLLNLKSVAIKLTVGNEAQITLNKEGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA------KHHRTENDPIGLITIDA 175 + E++NP+ VI NL+ + M L V +G G+ E +G + ID Sbjct: 118 THGQEIINPELVIANLNEKGKLNMTLKVERGIGFHNTDAFVRYHDDEIEKKTVGKLKIDN 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP+KKV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL F++ Sbjct: 178 SFSPVKKVAYFVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQLHAFVDM- 236 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K E N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE+++L+ Sbjct: 237 --KFEESRADNKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRTESELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 330 >gi|210611154|ref|ZP_03288768.1| hypothetical protein CLONEX_00958 [Clostridium nexile DSM 1787] gi|210152141|gb|EEA83148.1| hypothetical protein CLONEX_00958 [Clostridium nexile DSM 1787] Length = 319 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 205/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDG Sbjct: 3 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+I++N+K + +K + D K I G GVVTA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIVMNLKSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDPDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L+ A + MELT++KG GYV A ++ E+ PI +I ID++Y+P+++V Sbjct: 121 EIMNPDAVIATLNGGADSKLYMELTITKGRGYVSADKNKKEDLPIAVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NLTVENTRVGQITDYDKLTLDVYTNGTLLPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLEL 314 >gi|315655841|ref|ZP_07908739.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii ATCC 51333] gi|315489905|gb|EFU79532.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus curtisii ATCC 51333] Length = 335 Score = 340 bits (872), Expect = 2e-91, Method: Composition-based stats. Identities = 118/321 (36%), Positives = 184/321 (57%), Gaps = 9/321 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ Sbjct: 15 KLTEEVINEQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLP 74 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T I+LNIK I L D + + K G G VT GDI + + NP+H I Sbjct: 75 GVKEDVTQIVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIAT 134 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q Sbjct: 135 LNKDGKLEIELTVERGRGYVSASQNKDPEAEISRIPVDSIYSPVLKVSYRVEATRVEQRT 194 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T +I D++A A + L + G+ + + ++ + L Sbjct: 195 DFDRLVVDVETKKAILPRDAMASAGKTLVELFGLARDLNHDAEGIELGPSGNDAALAEDL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 VE+L+L+ R+ NCL E I +GDL+ R++AD+L + NFG+KS+ EIK L MG+ Sbjct: 255 AMSVEDLDLTSRALNCLTREGINTVGDLVARSQADLLDIRNFGQKSIDEIKEKLAGMGMS 314 Query: 317 L---------GMNLPDWPPES 328 L G ++P + E+ Sbjct: 315 LKDTPMPAVEGADIPQFSDEN 335 >gi|86606119|ref|YP_474882.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. JA-3-3Ab] gi|119366740|sp|Q2JUJ5|RPOA_SYNJA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|86554661|gb|ABC99619.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. JA-3-3Ab] Length = 331 Score = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 114/313 (36%), Positives = 178/313 (56%), Gaps = 10/313 (3%) Query: 12 PNNIEYIVLGQEEE--NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P E + QE + PL RG T+GNALRRVL+S+L G A+TAV+I GV Sbjct: 21 PYQTECVESHQEANGVHYGKFALGPLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVT 80 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+ +I+LN+K + L+ + + + +GPG VTA +Q +++EV+N Sbjct: 81 HEFSTVPGVREDVMEILLNMKELVLRSNAPDTQVGRLVAQGPGEVTAEKLQLPSEVEVIN 140 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P H I L A++ ME + +G GY + +++ I + ID+++ P++KV+YTVE+ Sbjct: 141 PRHHIATLAEGAILEMEFMIGRGRGYRAVDYSDSKSMAIDFLQIDSVFMPVRKVNYTVEA 200 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 AR GQ L+ D+L + I T+GS+T +++++ A+RIL + + Sbjct: 201 ARVGQSLEKDRLILEIWTNGSLTPQEALSQAARILVGLFSPL-----QEVSFDTPPEPRQ 255 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 N +EEL+LSVR+ NCL+ I + DL+ TE D+L + NFG+KS E+ Sbjct: 256 AEDNQKNQIPIEELQLSVRAYNCLKRAQINTVADLLVYTEEDLLEIKNFGQKSAEEVVQA 315 Query: 310 LGTMGLFLGMNLP 322 L LG+ LP Sbjct: 316 LKNR---LGLTLP 325 >gi|225376438|ref|ZP_03753659.1| hypothetical protein ROSEINA2194_02080 [Roseburia inulinivorans DSM 16841] gi|225211814|gb|EEG94168.1| hypothetical protein ROSEINA2194_02080 [Roseburia inulinivorans DSM 16841] Length = 319 Score = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 207/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFQKP-KIEIAEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + ++ S D K I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKELAIRNNSSSDEPKVAYIEFEGEGVVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++LNPD VI NL+ A + MELT++KG GYV + ++TE+ PIG+I ID++Y+P+++V Sbjct: 121 QILNPDLVIANLNGGADCKLYMELTITKGRGYVSSDKNKTEDTPIGVIAIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + ++E+ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E ++ Sbjct: 181 NLSIENTRVGQITDYDKLTLDVYTNGTLEPDEAVSLAAKVLSEHLNLFIDLSEAAQQADV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKADDAKEKVLEMNIDELELSVRSFNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|24380343|ref|NP_722298.1| DNA-directed RNA polymerase subunit alpha [Streptococcus mutans UA159] gi|290581264|ref|YP_003485656.1| DNA-directed RNA polymerase subunit alpha [Streptococcus mutans NN2025] gi|41688701|sp|Q8DS36|RPOA_STRMU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|24378361|gb|AAN59604.1|AE015023_5 DNA-directed RNA polymerase, alpha subunit [Streptococcus mutans UA159] gi|254998163|dbj|BAH88764.1| DNA-directed RNA polymerase alpha subunit [Streptococcus mutans NN2025] Length = 312 Score = 340 bits (871), Expect = 2e-91, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K + K V + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVEEEKIVELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ GYVPA+ ++ ++ P+G + ID++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGANLKATMTVATNRGYVPAEKNKRDDAPVGTLAIDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G ++DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E++M+++ N GRKSL E+K Sbjct: 239 EQVSDEKVLDRTIEELDLSVRSYNCLKRAGINTVYDLTEKSESEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|224477194|ref|YP_002634800.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus carnosus subsp. carnosus TM300] gi|222421801|emb|CAL28615.1| DNA-directed RNA polymerase alpha chain [Staphylococcus carnosus subsp. carnosus TM300] Length = 314 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAIDNVVEDVSTIIMNIKELALKIYSEEDKTLEIDVKDEGEVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + TDGSIT ++SV+LA++IL + L +F+ + K + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTDGSITPQESVSLAAKILTEHLNIFVGLTDEAKNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINTVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|38233158|ref|NP_938925.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium diphtheriae NCTC 13129] gi|61215957|sp|Q6NJ63|RPOA_CORDI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|38199417|emb|CAE49060.1| DNA-directed RNA polymerase alpha chain [Corynebacterium diphtheriae] Length = 338 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 122/321 (38%), Positives = 189/321 (58%), Gaps = 5/321 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLTE----EYVDSARSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I GV ED++DIILNIKG+ L D + + K G GV+TAGDI+ +E+ N Sbjct: 61 HEFTTINGVKEDVSDIILNIKGLVLSSDSDEPVVMYLRKEGAGVITAGDIEPPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ + +E+ V +G GYVPA + IG I +D +YSP+ KVSY VE+ Sbjct: 121 PDLHLATLNEQGRLDIEMIVERGRGYVPATLYSGP-AEIGRIPVDQIYSPVLKVSYKVEA 179 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T S+ D++A A + L + G+ + ++ + + Sbjct: 180 TRVEQRTDFDKLIIDVETKNSMAPRDALASAGKTLVELFGLARELNTAAEGIEIGPSPQE 239 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + A +E+L SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K Sbjct: 240 TEYIAAYGMPIEDLNFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIK 299 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +GL L D+ P ++ Sbjct: 300 LAGLGLTLKDAPEDFDPTQLD 320 >gi|71891999|ref|YP_277729.1| DNA-directed RNA polymerase subunit alpha [Candidatus Blochmannia pennsylvanicus str. BPEN] gi|90101573|sp|Q493I4|RPOA_BLOPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71796105|gb|AAZ40856.1| RNA polymerase, alpha subunit [Candidatus Blochmannia pennsylvanicus str. BPEN] Length = 330 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 142/333 (42%), Positives = 219/333 (65%), Gaps = 11/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + E R + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQNSVIEFLKPRLVDIEQI---TETRAKVTLEPLERGFGHTLGNALRRILLSSMPGYAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +G+ ED+ +I+LN+K + +++ G +T+ K G G V A DI Sbjct: 58 EVEIDGVLHEYSTKEGIQEDVLEILLNLKKLAIRIEGKDSVTLTLKKSGIGPVIANDILY 117 Query: 122 VND-IEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDAL 176 ++ ++++ P+H+IC++ D + + M + V +G GYVPA H ++ PIG + +DA Sbjct: 118 DSNSVKIVTPNHIICHITDKNTSISMSIKVQRGRGYVPASSRFHSESDILPIGRLLLDAC 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP++++SY VE+AR Q D DKL + ++TDG+I E+++ A+ IL +QL FI+ + Sbjct: 178 YSPVERISYNVEAARVEQRTDLDKLIIDMETDGTIEPEEAIRRAATILSEQLEAFIDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + ++ F+P LL+ V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ Sbjct: 238 IHQPEHKEEK---PEFDPILLRLVDDLELTVRSANCLKAESIHYIGDLVQRTEIELLKTP 294 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL + GL LG L +WPP +I Sbjct: 295 NLGKKSLTEIKDVLASRGLSLGTRLENWPPTNI 327 >gi|227512889|ref|ZP_03942938.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus buchneri ATCC 11577] gi|227523017|ref|ZP_03953066.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus hilgardii ATCC 8290] gi|227083889|gb|EEI19201.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus buchneri ATCC 11577] gi|227089835|gb|EEI25147.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus hilgardii ATCC 8290] Length = 319 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 144/314 (45%), Positives = 203/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN----IHKIEETKNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ +D+ Sbjct: 62 VLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEDENLEIDVIGPADVTAGDIQGDSDV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT ++G GYV A R PIG++ +D++Y+PI++V Sbjct: 122 TVLNPDLHIATVAEGATFHMRLTANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ D+DKL++ I T+GSIT ++V+LA++IL + L MF++ + K + Sbjct: 182 NYQVESTRVGQRDDFDKLTLDIWTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEI 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L ++TEADM+++ N GRKSL Sbjct: 242 MVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTEKTEADMMKVRNLGRKSL 301 Query: 304 VEIKGVLGTMGLFL 317 E+K L +GL L Sbjct: 302 EEVKEKLAALGLSL 315 >gi|225026391|ref|ZP_03715583.1| hypothetical protein EUBHAL_00640 [Eubacterium hallii DSM 3353] gi|224956280|gb|EEG37489.1| hypothetical protein EUBHAL_00640 [Eubacterium hallii DSM 3353] Length = 319 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 205/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE + ++ + + EPL RG+ TLGN+LRR+++SSL GAA++AV+I G Sbjct: 3 EFEKPR-IEIAEISEDNK-YGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSAVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K S + KR I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKELAIKNNSSSNEPKRAFIEFSGEGVVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L A ELT++KG GYV A +++E+ I +I +D++Y+P+++V Sbjct: 121 EIINPDLVIATLSGGADSHFEAELTITKGRGYVGADKNKSEDQSIDVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TV++ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E ++ + Sbjct: 181 NLTVQNTRVGQITDFDKLTLDVFTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAQKAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + P + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MVETAQDPVDKVLEMNIDELELSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLSLN 315 >gi|170017919|ref|YP_001728838.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum KM20] gi|169804776|gb|ACA83394.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum KM20] Length = 314 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 130/312 (41%), Positives = 192/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDAHYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EV Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E + Sbjct: 179 HVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EAEPVAASASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L MGL Sbjct: 299 IQEKLTEMGLGF 310 >gi|260584442|ref|ZP_05852189.1| DNA-directed RNA polymerase, alpha subunit [Granulicatella elegans ATCC 700633] gi|260157960|gb|EEW93029.1| DNA-directed RNA polymerase, alpha subunit [Granulicatella elegans ATCC 700633] Length = 314 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 137/310 (44%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL G A+T +Q+DG Sbjct: 3 EIEKP-KIETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGTAVTDIQMDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ IILNIK I LK + K + I GP VVTAGDI+ +DIE+ Sbjct: 61 VLHEFSTIDGVVEDVAAIILNIKKIALKSFSEDDKVLEIDIVGPAVVTAGDIKHDSDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + + G GYV A +++++N PIG+I ID++Y+PI KV+Y V Sbjct: 121 LNPDLYICTVAEGHRFHVRMNAKNGRGYVRADYNKSDNMPIGVIPIDSIYTPISKVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ YDKL++ + TDGSI+ E++++LA+RIL + L +F+N + ++V+ + Sbjct: 181 ENTRIGQKNIYDKLTLDVWTDGSISPEEAISLAARILTEHLNIFVNLTDETRQVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EA+M+++ N GRKSL E+K Sbjct: 241 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTNKSEAEMIKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 HKLIELNLDL 310 >gi|227509956|ref|ZP_03940005.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus brevis subsp. gravesensis ATCC 27305] gi|227190562|gb|EEI70629.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus brevis subsp. gravesensis ATCC 27305] Length = 319 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 144/314 (45%), Positives = 203/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E +N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN----IHKIEETKNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ +D+ Sbjct: 62 VLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT ++G GYV A R PIG++ +D++Y+PI++V Sbjct: 122 TVLNPDLHIATVAEGATFHMRLTANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ D+DKL++ I T+GSIT ++V+LA++IL + L MF++ + K + Sbjct: 182 NYQVESTRVGQRDDFDKLTLDIWTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEI 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L ++TEADM+++ N GRKSL Sbjct: 242 MVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTEKTEADMMKVRNLGRKSL 301 Query: 304 VEIKGVLGTMGLFL 317 E+K L +GL L Sbjct: 302 EEVKEKLAALGLSL 315 >gi|164686554|ref|ZP_02210582.1| hypothetical protein CLOBAR_00121 [Clostridium bartlettii DSM 16795] gi|164604423|gb|EDQ97888.1| hypothetical protein CLOBAR_00121 [Clostridium bartlettii DSM 16795] Length = 315 Score = 340 bits (871), Expect = 3e-91, Method: Composition-based stats. Identities = 126/310 (40%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ +++IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRYGKFVVEPLERGYGITIGNALRRILLSSLPGVAVNSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IIL++K ++ + G+ + + I +GP + DI D+E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIILSLKELSATIDGEGSRTLKIEAQGPCSIKGSDIICPPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 L+ D I LD +A + ME+ V KG GYVPA+ ++T+N PIG++ +D++Y+P++KVSY V Sbjct: 121 LSKDLHIATLDDNAKLNMEIYVDKGRGYVPAEENKTDNMPIGVLPVDSIYTPVEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQKSDYDKLTLEVMTNGSINPQEGISLAAKVLVEHLNLFIDLTEHVSNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELANKSEDDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEELGLGL 310 >gi|291544484|emb|CBL17593.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus sp. 18P13] Length = 318 Score = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 129/312 (41%), Positives = 196/312 (62%), Gaps = 3/312 (0%) Query: 9 LIKPNNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 L K E + + + + PL RG+ TLGN+LRRVL+SSL G A+ +V+IDG Sbjct: 2 LEKIEKPEIDTVELRSDGKYGKFVLAPLERGYGITLGNSLRRVLLSSLPGVAVNSVKIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE+S+I GV ED+T+IIL+IKG+ K+ GD K V I G VTAGDI+T +++ + Sbjct: 62 VHHELSTIPGVKEDVTEIILSIKGLTAKLYGDGPKTVYIEATGECEVTAGDIKTDSEVNI 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 L+P I L DA + ME+T+ KG GYV A+ ++ N PI +I +D++Y+P+ KV+Y Sbjct: 122 LDPGMHIATLGKDASLYMEITLDKGRGYVSAERNKQLMPNLPIDVIAVDSIYTPVLKVNY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R GQV DYDKL+M + TDG+I+ +++++ A+ +L + L +F++ E + + Sbjct: 182 TVEDTRLGQVTDYDKLTMEVWTDGTISAKEALSQAANLLNEHLKLFVDLSEEASIAEVLV 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +EEL+LSVRS NCL+ I + DLI ++E +M+++ N G+KS E Sbjct: 242 EKDDKGKEKILEMTIEELDLSVRSFNCLKRAGINTVDDLINKSEEEMMKVRNLGKKSFDE 301 Query: 306 IKGVLGTMGLFL 317 +K L ++G L Sbjct: 302 VKEKLQSLGFDL 313 >gi|325108639|ref|YP_004269707.1| DNA-directed RNA polymerase subunit alpha [Planctomyces brasiliensis DSM 5305] gi|324968907|gb|ADY59685.1| DNA-directed RNA polymerase subunit alpha [Planctomyces brasiliensis DSM 5305] Length = 338 Score = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 127/333 (38%), Positives = 197/333 (59%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ W+ L PN + +I N +AEP RGF T+GN+LRR+L+SSL G+++T Sbjct: 1 MRIRWRGLELPNRL-FIDRETATPNYGKFVAEPFERGFGSTIGNSLRRILLSSLEGSSVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I G HE ++I GV ED+TDI LN+K + +K K + I K GVVT D+ Sbjct: 60 RVKIQGAQHEFTTIPGVVEDVTDICLNLKSLIVKSYAAGPKTIRIEKHTRGVVTGADVIA 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + +EV+N D VI + D + +ELTV G GY+PA H + +G+I +DALYSP++ Sbjct: 120 DDQVEVINKDMVIATMTDDVPLSLELTVENGRGYIPASEHFDRDPEVGVIPLDALYSPVE 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V++ VE R GQ +YDKL + I T+G+++ E ++ +++I++ L FI + EP EV Sbjct: 180 RVNFQVEETRVGQRTNYDKLILEIWTNGTVSPEMALVESAKIMRKHLNPFITYREPGPEV 239 Query: 242 KED-----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 D + L L + + EL LSVR+TNCL E IV + DL+ ++E Sbjct: 240 SPDGGLQGMAEATGHSPIDLELEEKLNQSLAELNLSVRATNCLESEGIVTVRDLVSKSED 299 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L++ NFG +L E++ L ++GL +GM +P Sbjct: 300 QLLQVRNFGETTLQEVRERLSSIGLRMGMKMPK 332 >gi|291542059|emb|CBL15169.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus bromii L2-63] Length = 317 Score = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 130/312 (41%), Positives = 203/312 (65%), Gaps = 4/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE L E+ + EPL RGF +TLGN+LRRVL+SSL G A+T+++IDG Sbjct: 3 EIEKPR-IETEEL-TEDGKYGKFVVEPLERGFGNTLGNSLRRVLLSSLEGCAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+I+LN+K + K+ S K + I GP V A DI+ +++E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIVLNMKSLVAKLHETSPKVIEIAAEGPCEVKAADIKCDDEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSY 185 LNP+ I L A + ME+TV KG GY+P++ ++ + N+ IG++ ID++Y+P+ KV+Y Sbjct: 121 LNPELHIATLGEGAKLNMEITVDKGRGYIPSERNKQLSGNNVIGVLPIDSIYTPVLKVNY 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TV++ R GQ+ DYDKL++ + T+G I +++V+LA+++L + L +F+N + + + Sbjct: 181 TVDNTRVGQITDYDKLTLDVWTNGVINAQEAVSLAAKVLTEHLNLFVNLSDKASSAEVMV 240 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +E+L+LSVRS NCL+ I + DLI ++E DM+++ N GRKSL E Sbjct: 241 EKDDKGKEKILEMTIEDLDLSVRSFNCLKRAGINTVEDLINKSEEDMMKVRNLGRKSLEE 300 Query: 306 IKGVLGTMGLFL 317 + L ++G L Sbjct: 301 VVQKLNSLGFSL 312 >gi|283796525|ref|ZP_06345678.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. M62/1] gi|291075939|gb|EFE13303.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. M62/1] Length = 319 Score = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 204/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIAEI-SEDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K S + K I G GVVTA DI +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKSLAIKNSSETNEPKTAYIEFEGEGVVTAADINADSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNPD VI L A MELT++KG GY+ A +++++ PIG+I +D++Y+P+++V Sbjct: 121 EILNPDQVIATLSGGADSKFYMELTITKGRGYISADKNKSDDLPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + +VE+ R GQV DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NMSVENTRVGQVTDYDKLTLDVFTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENARTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|242371871|ref|ZP_04817445.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis M23864:W1] gi|242350378|gb|EES41979.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis M23864:W1] Length = 314 Score = 339 bits (870), Expect = 3e-91, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKVRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDYDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|253580648|ref|ZP_04857912.1| DNA-directed RNA polymerase [Ruminococcus sp. 5_1_39B_FAA] gi|251848019|gb|EES75985.1| DNA-directed RNA polymerase [Ruminococcus sp. 5_1_39BFAA] Length = 319 Score = 339 bits (870), Expect = 4e-91, Method: Composition-based stats. Identities = 135/314 (42%), Positives = 203/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE L E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFNKP-KIEITEL-SEDKKFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED++DII+N+K + +K + K I G GVVTA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVSDIIMNLKSLAIKNHSTDNEPKTAYIECEGKGVVTAADIQADQDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L+ D + MELT++KG GY+ A ++++ PIG++ +DA+Y+P+ +V Sbjct: 121 EIMNPDQVIATLNGGKDCRLAMELTITKGRGYISADKGKSDDMPIGVLAVDAIYTPVDRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQV DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMTVENTRVGQVTDYDKLTLDVYTNGTLDPDEAVSLAAKVLSEHLSLFIDLSENAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MIEKEDNEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELCNKTSDDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >gi|148544670|ref|YP_001272040.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri DSM 20016] gi|184154023|ref|YP_001842364.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri JCM 1112] gi|194466927|ref|ZP_03072914.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri 100-23] gi|227363793|ref|ZP_03847900.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri MM2-3] gi|227543597|ref|ZP_03973646.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri CF48-3A] gi|300909374|ref|ZP_07126835.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri SD2112] gi|325683004|ref|ZP_08162520.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri MM4-1A] gi|166991521|sp|A5VLH9|RPOA_LACRD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|229564249|sp|B2G8V2|RPOA_LACRJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148531704|gb|ABQ83703.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri DSM 20016] gi|183225367|dbj|BAG25884.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus reuteri JCM 1112] gi|194453963|gb|EDX42860.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri 100-23] gi|227071150|gb|EEI09466.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri MM2-3] gi|227186437|gb|EEI66508.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus reuteri CF48-3A] gi|300893239|gb|EFK86598.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri SD2112] gi|324977354|gb|EGC14305.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus reuteri MM4-1A] Length = 314 Score = 339 bits (870), Expect = 4e-91, Method: Composition-based stats. Identities = 134/312 (42%), Positives = 203/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E +N + EPL RG+ TLGN+LRRVL++SL GAAIT++QIDG Sbjct: 3 EFEKPNIHKV----EETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGAAITSMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA DIQ N++ + Sbjct: 59 VLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTASDIQGDNEVTI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + ++LT KG GY+ A R ++ IG++ ID++Y+PI++V+Y Sbjct: 119 LNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE+AR GQ DYDKL++ + TDGS+T ++V+L ++IL + L MF++ E + + + Sbjct: 179 TVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLAMFVDLTETAQNAQVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RT +DM+++ N G+KSL E Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVKELTDRTVSDMMKVRNLGQKSLEE 298 Query: 306 IKGVLGTMGLFL 317 IK L +G+ Sbjct: 299 IKLKLNDLGVSF 310 >gi|325663034|ref|ZP_08151484.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 4_1_37FAA] gi|331086641|ref|ZP_08335718.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 9_1_43BFAA] gi|325470488|gb|EGC73718.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 4_1_37FAA] gi|330409807|gb|EGG89242.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 9_1_43BFAA] Length = 319 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 204/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDG Sbjct: 3 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISHVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G GVVTA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNSSETDEPKTAYIEFEGEGVVTAADIQVDPDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L+ A + MELT++KG GY+ A ++ E PIG+I ID++Y+P+++V Sbjct: 121 EIMNPDAVIATLNGGADSKLYMELTITKGRGYISADKNKNEELPIGVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NLTVENTRVGQITDYDKLTLDVYTNGTLLPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLEL 314 >gi|296113773|ref|YP_003627711.1| DNA-directed RNA polymerase alpha subunit [Moraxella catarrhalis RH4] gi|295921467|gb|ADG61818.1| DNA-directed RNA polymerase alpha subunit [Moraxella catarrhalis RH4] gi|326564517|gb|EGE14743.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis 46P47B1] gi|326572244|gb|EGE22239.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis BC8] gi|326574586|gb|EGE24526.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis O35E] Length = 334 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 133/327 (40%), Positives = 205/327 (62%), Gaps = 8/327 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + P+ I + + + EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 3 NATEFLTPSAINVDTVNETT---AKVTLEPLERGFGHTLGNALRRILLSSLSGAAVVEAE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE S+++G+ ED+ D++LN+K + + + + +T+ K+G GVVTA D++ ++ Sbjct: 60 IEGVDHEYSTLEGLQEDVLDLLLNLKSLAIILHDQNEAYLTLDKQGAGVVTAADLELPHN 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSPIKK 182 +E+ NPD V+ L ++M L V G GY PA R + + G + +DA +SPI + Sbjct: 120 VEIANPDLVLGTLSERGHLKMRLHVVTGRGYEPANQRREDANSKIIGRLKLDASFSPIIR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ Q+ +F++ E + Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLEAEEAPEP 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G+KS Sbjct: 240 IKEK---EEIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + L LGM L +WPP + Sbjct: 297 LTEIKDVLASKNLELGMRLDNWPPSDL 323 >gi|330718947|ref|ZP_08313547.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc fallax KCTC 3537] Length = 314 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 129/312 (41%), Positives = 192/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T +ILN+K + L + D K + I +GP VTA D+Q DIEV Sbjct: 59 VVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEEKSLEIDVQGPAEVTAADLQGSADIEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNP+ + + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPELHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ DYDKL+ I T+GSI D+++L ++IL + L +F + E + + Sbjct: 179 QVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSLGAKILSEHLNLFTDISSVAAETEVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +V+ + +E+L+LSVRS NCL+ I + +L R+EADM+++ N GRKSL E Sbjct: 239 DVEQTVSSVQDSAPIEDLDLSVRSYNCLKRAGINTISELTDRSEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L MGL Sbjct: 299 IQEKLIEMGLGF 310 >gi|312866534|ref|ZP_07726751.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus downei F0415] gi|311097965|gb|EFQ56192.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus downei F0415] Length = 312 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 202/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVTGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHTLKATMTVAKNRGYVPAEGNKNDSAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 179 EPARVGSNAGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 +S+ + L + +EE++LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 ESVSNDQVLDRTIEEIDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLAELGLGLKND 311 >gi|296120769|ref|YP_003628547.1| DNA-directed RNA polymerase, subunit alpha [Planctomyces limnophilus DSM 3776] gi|296013109|gb|ADG66348.1| DNA-directed RNA polymerase, alpha subunit [Planctomyces limnophilus DSM 3776] Length = 336 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 128/333 (38%), Positives = 194/333 (58%), Gaps = 12/333 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ W+ L P+ + EP RGF T+GN+LRR+L+SSL G+++T Sbjct: 1 MRIRWRGLELPSRV-VPERETLSSTYGKFTVEPFERGFGSTIGNSLRRILLSSLEGSSVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I GV HE ++I G+ ED+T+I+LN+K I +K S K + I K GVVTAGDI T Sbjct: 60 SVKIQGVQHEFTTIPGIVEDVTEIVLNLKAIIVKNHSPSTKTLRIEKTSRGVVTAGDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + +E+LN D VI + D + +E+TV G GY+PA H +G+I +DA++SP+ Sbjct: 120 DDQVEILNRDLVIATMTDDVPLYLEMTVENGRGYIPAADHHGPEQELGVIPLDAIFSPVV 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE- 240 +V Y +E R GQ +YD+L + I T+G++T E ++ +++IL+ L FI + EP E Sbjct: 180 RVRYLIEETRVGQRTNYDRLILEIWTNGTVTPESALVESAKILRKHLNPFITYREPGPEM 239 Query: 241 ----------VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 L L + + EL LSVR+TNCL E I ++ DL+ RTE Sbjct: 240 FPEGGLRNMLEATGYAPVDLELEEKLGQSLAELNLSVRATNCLESEGINFVRDLVTRTED 299 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L++ NFG +L E++ LG +GL LGM LP+ Sbjct: 300 QLLQVRNFGETTLTEVRERLGLIGLRLGMKLPN 332 >gi|331702054|ref|YP_004399013.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus buchneri NRRL B-30929] gi|329129397|gb|AEB73950.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus buchneri NRRL B-30929] Length = 319 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 146/314 (46%), Positives = 203/314 (64%), Gaps = 8/314 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID Sbjct: 6 EFEKPN----IHKIEETNNFGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDD 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ +D+ Sbjct: 62 VLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQADSDV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 VLNPD I + A M LT +KG GYV A R+ PIG++ +D++Y+PI++V Sbjct: 122 TVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VES R GQ D+DKL++ I TDGSIT ++V+LA++IL + L MF++ + K + Sbjct: 182 NYQVESTRVGQRDDFDKLTLDIWTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEI 241 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L ++TEADM+++ N GRKSL Sbjct: 242 MVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELTEKTEADMMKVRNLGRKSL 301 Query: 304 VEIKGVLGTMGLFL 317 E+K L +GL L Sbjct: 302 EEVKEKLAALGLSL 315 >gi|270157886|ref|ZP_06186543.1| DNA-directed RNA polymerase alpha subunit [Legionella longbeachae D-4968] gi|289163855|ref|YP_003453993.1| DNA-directed RNA polymerase alpha chain [Legionella longbeachae NSW150] gi|269989911|gb|EEZ96165.1| DNA-directed RNA polymerase alpha subunit [Legionella longbeachae D-4968] gi|288857028|emb|CBJ10842.1| DNA-directed RNA polymerase alpha chain [Legionella longbeachae NSW150] Length = 330 Score = 339 bits (869), Expect = 4e-91, Method: Composition-based stats. Identities = 141/336 (41%), Positives = 212/336 (63%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + E++ PN + + E + ++ EPL RGF HTLGNALRR+L+SS+ G+ IT Sbjct: 1 MYTEINEMLTPN---VLKVQAESPFKAKIVLEPLERGFGHTLGNALRRILLSSMPGSVIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 I+GVLHE S+I+GV ED+ DI+LN+K + +KM+ +T+ K+GP VTAGDIQ Sbjct: 58 EASIEGVLHEYSTIEGVQEDVVDILLNLKLVAIKMTVGEEALITLNKQGPCQVTAGDIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------RTENDPIGLITIDA 175 + +EV+NPD VI NL+ + M + V +G G+ E +G + ID Sbjct: 118 SHGLEVVNPDLVIANLNEKGKLNMTMKVERGIGFHSTDSFIGHFDDEVERKSVGKLKIDN 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +SP++KV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL F++ Sbjct: 178 SFSPVRKVAYYVDSARVENRTDLDKLTIELETNGTIDSEEAIRISASILQRQLHAFVDM- 236 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + E + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ Sbjct: 237 --RFEESRSDQKERNDFDPILLRSVDDLELTVRSANCLKAENIHYIGDLVQRTENELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + L LGM L +WPP ++ E Sbjct: 295 PNLGKKSLTEIKDVLASRSLSLGMKLENWPPANLGE 330 >gi|325684745|gb|EGD26899.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus delbrueckii subsp. lactis DSM 20072] Length = 312 Score = 339 bits (869), Expect = 5e-91, Method: Composition-based stats. Identities = 125/310 (40%), Positives = 189/310 (60%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +E++ + EPL R F TLGN+LRRVL++S+ G + V+IDG Sbjct: 3 EFKKPN----ITVVDQEDSYGKFVVEPLERRFGTTLGNSLRRVLLTSVPGTGLVKVKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EV Sbjct: 59 ILHEFTTVPGVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAEDLKADADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + V G GYVPA ++T IG I +D+L+SPI+KV+Y V Sbjct: 119 LNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKTAEMFIGDIPVDSLFSPIEKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + + + + Sbjct: 179 ESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQ 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 ++ L +E+L+LSVRS NCL+ I + DL ++EA+M+R+ N GRKSL E+K Sbjct: 239 ENDQKEKKLEMTIEDLDLSVRSYNCLKRAGINTLQDLTVKSEAEMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 NKLADLGLSL 308 >gi|330827907|ref|YP_004390859.1| DNA-directed RNA polymerase subunit alpha [Aeromonas veronii B565] gi|328803043|gb|AEB48242.1| DNA-directed RNA polymerase subunit alpha [Aeromonas veronii B565] Length = 304 Score = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 144/305 (47%), Positives = 210/305 (68%), Gaps = 7/305 (2%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED+ +I+LN+K Sbjct: 2 TLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQEDILEILLNLK 61 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTV 149 GI +K+ G +++ K G G VTAGDI +++E++NP+HVIC+L +A + M L V Sbjct: 62 GIAVKLEGKDEVTLSLTKSGTGPVTAGDITYGDEVEIVNPEHVICHLTGANAEISMRLKV 121 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H+ E PIG + +D+ +SPI +++Y VE+AR Q D DKL + ++ Sbjct: 122 QRGRGYVPASARVHNDDEERPIGRLLLDSAFSPIVRIAYNVEAARVEQRTDLDKLVIDME 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ E+++ ++ IL +QL F++ + K++ F+P LL+ V++LEL+ Sbjct: 182 TNGTLDPEEAIRRSATILAEQLEAFVDLRDVSVPEKKEEK---PEFDPILLRPVDDLELT 238 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 239 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPP 298 Query: 327 ESIEE 331 SI + Sbjct: 299 ASIAD 303 >gi|300932966|ref|ZP_07148222.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium resistens DSM 45100] Length = 337 Score = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 125/314 (39%), Positives = 182/314 (57%), Gaps = 3/314 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+I+GVLHE ++I Sbjct: 8 VLTEEYIDASRSKFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVRIEGVLHEFTTIP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED++DIILNIK + L D + + K GPG VT DI +EV NPD I Sbjct: 68 GVKEDVSDIILNIKSLVLSSDSDEPVVMNLHKEGPGAVTGADIMPPAGVEVHNPDLHIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + +EL V +G GYVPA +E G I +D +YSP+ KVSY VE+ R Q Sbjct: 128 LNEQGKLDIELVVERGRGYVPAATASSEI---GRIPVDQIYSPVLKVSYKVEATRVEQRT 184 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+DKL + ++T SIT D++A A + L + G+ + ++ + + A Sbjct: 185 DFDKLILDVETKNSITARDAMASAGKTLVELFGLAQELNNEAEGIEIGPSPQESEHIAAY 244 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L +GL Sbjct: 245 SMPIEDLNFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAGLGLG 304 Query: 317 LGMNLPDWPPESIE 330 L + IE Sbjct: 305 LKDAPEGFDINDIE 318 >gi|198282664|ref|YP_002218985.1| DNA-directed RNA polymerase subunit alpha [Acidithiobacillus ferrooxidans ATCC 53993] gi|218666577|ref|YP_002424857.1| DNA-directed RNA polymerase, alpha subunit [Acidithiobacillus ferrooxidans ATCC 23270] gi|198247185|gb|ACH82778.1| DNA-directed RNA polymerase, alpha subunit [Acidithiobacillus ferrooxidans ATCC 53993] gi|218518790|gb|ACK79376.1| DNA-directed RNA polymerase, alpha subunit [Acidithiobacillus ferrooxidans ATCC 23270] Length = 339 Score = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 140/323 (43%), Positives = 205/323 (63%), Gaps = 5/323 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL++P ++ V+ R + PL RGF HTLG+ LRRVL+SSL+GAA+T V+I+G Sbjct: 6 ELLRPQGVDVEVI---SARRARLALGPLERGFGHTLGSGLRRVLLSSLKGAAVTEVEIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI+GV ED+ DI+LN+K + ++ G VT+ KRGPG +T DI + + IEV Sbjct: 63 VLHEYSSIEGVQEDVVDILLNLKMLAVRAHGRGDAVVTLRKRGPGQMTGADIVSEHGIEV 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYV-PAKHHRTENDPIGLITIDALYSPIKKVSYT 186 NP+ VI L D + + L + +G GY A ++ IG++ +DA +SP+ +VSY Sbjct: 123 ANPEQVIATLTRDVELVLRLRIDEGRGYDAAATRRQSHEKRIGVMALDASFSPVLRVSYL 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR Q D D+L + ++T+G + +V A+RI + QLG+ E + + Sbjct: 183 VENARVEQRTDLDRLILDVETNGVVDPVWAVQEAARIFRSQLGVLAGAETREIP-EASQV 241 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S P L++ V++LEL+VRS NCL+ E+I Y+GDL+Q++E ++L+ N GRKSL EI Sbjct: 242 QVSQSLTPLLIRPVDDLELTVRSANCLKAEDIFYIGDLVQKSEQELLKAPNLGRKSLNEI 301 Query: 307 KGVLGTMGLFLGMNLPDWPPESI 329 K VL GL LGM L WPPE++ Sbjct: 302 KEVLVAHGLTLGMRLDSWPPENL 324 >gi|322374071|ref|ZP_08048605.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. C150] gi|321277037|gb|EFX54108.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. C150] Length = 312 Score = 338 bits (868), Expect = 5e-91, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILN+KG+ +K + K + + +GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|325261521|ref|ZP_08128259.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. D5] gi|324032975|gb|EGB94252.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. D5] Length = 319 Score = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 204/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G GVVT DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSESDEVKTAYIEFEGEGVVTGADIQADSDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L D+ + MELT++KG GYV A ++ E+ PIG+I ID++Y+P+++V Sbjct: 121 EIMNPDQVIATLSGGKDSKLYMELTITKGRGYVSADKNKNEDLPIGVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ DYDKL++ + T G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NLTVENTRVGQITDYDKLTLDVWTKGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L + L L Sbjct: 301 EEVLAKLKELDLELN 315 >gi|148793272|gb|ABR12700.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] gi|148793274|gb|ABR12701.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] gi|148793280|gb|ABR12704.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] Length = 308 Score = 338 bits (868), Expect = 6e-91, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ +++ Sbjct: 118 NPEHVICHLTDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|228478065|ref|ZP_04062676.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus salivarius SK126] gi|228250245|gb|EEK09498.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus salivarius SK126] Length = 312 Score = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|289449938|ref|YP_003475756.1| DNA-directed RNA polymerase subunit alpha [Clostridiales genomosp. BVAB3 str. UPII9-5] gi|289184485|gb|ADC90910.1| DNA-directed RNA polymerase, alpha subunit [Clostridiales genomosp. BVAB3 str. UPII9-5] Length = 321 Score = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 129/320 (40%), Positives = 200/320 (62%), Gaps = 9/320 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI+ N KP + V + + + EPL RG+ TLGN+LRRVL+SSL GAA+ Sbjct: 1 MIETN-----KP--VISTVALESNGSYGKFVVEPLDRGYGVTLGNSLRRVLLSSLPGAAV 53 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGD 118 TA++++G HE S+++GV ED+T+IILN+K I +K++ D K + + GVVTAGD Sbjct: 54 TAIRVEGAFHEFSTVEGVIEDMTEIILNVKCIRVKLNADGPKTIYLNTEEGRTGVVTAGD 113 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T +++++NP+ I L+ DA + MELTV G GY A+ ++ N PIG+I +D++++ Sbjct: 114 IVTDEEVQIMNPEQPIATLNGDARLFMELTVCSGIGYNSAERNKWPNQPIGVIPVDSIFT 173 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+KKV+Y+VE+ R GQ D+DKL++ + TD +I + +V+ A+ IL D L F++ + Sbjct: 174 PVKKVNYSVENTRVGQFTDFDKLTLEVWTDRTIAADTAVSNAANILMDHLQYFVDLQGGP 233 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 S N L +E++ SVR+ NCL+ I +GDL+ R+E DM+++ N Sbjct: 234 TGTGTRSYDGSGESNELLETAIEDMNFSVRTYNCLKRAGINVIGDLVIRSEDDMMKVRNL 293 Query: 299 GRKSLVEIKGVLGTMGLFLG 318 G+KSL E+ +L MGL L Sbjct: 294 GKKSLEEVIQILDEMGLSLA 313 >gi|294507076|ref|YP_003571134.1| DNA-directed RNA polymerase alpha chain [Salinibacter ruber M8] gi|158518577|sp|Q2S3N9|RPOA_SALRD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|294343404|emb|CBH24182.1| DNA-directed RNA polymerase alpha chain [Salinibacter ruber M8] Length = 328 Score = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 140/324 (43%), Positives = 204/324 (62%), Gaps = 6/324 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L P E + + + ++ + PL RG+ T+GNALRRVL+SSLRG AITAV+ID Sbjct: 4 HGLQMP---EGVHVEEVSDSEGQFVMGPLERGYGVTIGNALRRVLLSSLRGLAITAVKID 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 GV HE S+I GV ED+ D+ILN+K + K + + GPG TA DI + + Sbjct: 61 GVQHEFSTIPGVTEDVADLILNLKEVRFKADEMQEGHLHLNLEGPGNWTAADIDEATAEY 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD + L DAVV ++L V G GYVP++ ++ E+DPIG+I ID++++PIK V+Y Sbjct: 121 DVLNPDQHVATLAEDAVVNVDLRVGYGRGYVPSEENKREDDPIGVIAIDSIFTPIKNVNY 180 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V+ R GQ +DY++L + ++TDGS+T E+++ + IL+D + FI EE + V E+ Sbjct: 181 EVKPTRVGQKIDYEELLLDVETDGSLTPEEAITQGASILRDHVSFFIQLEEEPEPVVEEQ 240 Query: 246 NVKSLPFNPALL--KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V L + V+EL+LSVRS NCL+ NI +GDL++R E +ML+ NFGRKSL Sbjct: 241 EVDEEVKRIRELLAQPVDELDLSVRSHNCLKAANIKTIGDLVRREEDEMLKFRNFGRKSL 300 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPE 327 E+ VL GL GM++ ++ E Sbjct: 301 QELVEVLDERGLQFGMDVEEYLEE 324 >gi|27468715|ref|NP_765352.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis ATCC 12228] gi|57867752|ref|YP_189368.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis RP62A] gi|242243973|ref|ZP_04798416.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis W23144] gi|251812073|ref|ZP_04826546.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis BCM-HMP0060] gi|282875368|ref|ZP_06284241.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis SK135] gi|293368459|ref|ZP_06615083.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis M23864:W2(grey)] gi|33301647|sp|Q8CRI4|RPOA_STAES RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71153723|sp|Q5HM25|RPOA_STAEQ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|27316263|gb|AAO05438.1|AE016750_43 DNA-directed RNA polymerase alpha chain [Staphylococcus epidermidis ATCC 12228] gi|57638410|gb|AAW55198.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis RP62A] gi|242232606|gb|EES34918.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis W23144] gi|251804407|gb|EES57064.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis BCM-HMP0060] gi|281296133|gb|EFA88654.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis SK135] gi|291317417|gb|EFE57839.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus epidermidis M23864:W2(grey)] gi|319400599|gb|EFV88824.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis FRI909] gi|329731206|gb|EGG67576.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis VCU144] gi|329736451|gb|EGG72719.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis VCU028] gi|329737076|gb|EGG73331.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis VCU045] Length = 314 Score = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEVSEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKVRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F++ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVSLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|148793282|gb|ABR12705.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] Length = 308 Score = 338 bits (867), Expect = 7e-91, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ +++ Sbjct: 118 NPEHVICHLTDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRV---PE 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 EKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|312862356|ref|ZP_07722599.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus vestibularis F0396] gi|322515893|ref|ZP_08068835.1| DNA-directed RNA polymerase subunit alpha [Streptococcus vestibularis ATCC 49124] gi|311101999|gb|EFQ60199.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus vestibularis F0396] gi|322125680|gb|EFX97007.1| DNA-directed RNA polymerase subunit alpha [Streptococcus vestibularis ATCC 49124] Length = 312 Score = 338 bits (867), Expect = 8e-91, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTISEGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|314934272|ref|ZP_07841631.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus caprae C87] gi|313652202|gb|EFS15965.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus caprae C87] Length = 314 Score = 338 bits (867), Expect = 8e-91, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKVRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|15925214|ref|NP_372748.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus Mu50] gi|15927804|ref|NP_375337.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus N315] gi|21283872|ref|NP_646960.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MW2] gi|49484440|ref|YP_041664.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MRSA252] gi|49487006|ref|YP_044227.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MSSA476] gi|57650808|ref|YP_187023.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus COL] gi|87162055|ref|YP_494813.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|88196136|ref|YP_500953.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus NCTC 8325] gi|148268664|ref|YP_001247607.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus JH9] gi|150394729|ref|YP_001317404.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus JH1] gi|151222338|ref|YP_001333160.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus str. Newman] gi|156980539|ref|YP_001442798.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus Mu3] gi|161510428|ref|YP_001576087.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|221140174|ref|ZP_03564667.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus str. JKD6009] gi|253316985|ref|ZP_04840198.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus str. CF-Marseille] gi|253729890|ref|ZP_04864055.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253734367|ref|ZP_04868532.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus TCH130] gi|255007004|ref|ZP_05145605.2| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus Mu50-omega] gi|257423709|ref|ZP_05600138.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 55/2053] gi|257426387|ref|ZP_05602789.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 65-1322] gi|257431673|ref|ZP_05608036.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus E1410] gi|257434633|ref|ZP_05610684.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M876] gi|257794570|ref|ZP_05643549.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9781] gi|258408828|ref|ZP_05681112.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A9763] gi|258422427|ref|ZP_05685339.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9719] gi|258422671|ref|ZP_05685576.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9635] gi|258439815|ref|ZP_05690561.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A9299] gi|258442629|ref|ZP_05691189.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A8115] gi|258446673|ref|ZP_05694828.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A6300] gi|258450209|ref|ZP_05698301.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A6224] gi|258450780|ref|ZP_05698839.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A5948] gi|258455419|ref|ZP_05703379.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A5937] gi|269203857|ref|YP_003283126.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ED98] gi|282893663|ref|ZP_06301895.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A8117] gi|282902127|ref|ZP_06310020.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C160] gi|282906567|ref|ZP_06314415.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus Btn1260] gi|282909537|ref|ZP_06317348.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus WW2703/97] gi|282911785|ref|ZP_06319581.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus WBG10049] gi|282915073|ref|ZP_06322850.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M899] gi|282917569|ref|ZP_06325321.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus D139] gi|282920799|ref|ZP_06328517.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C427] gi|282922093|ref|ZP_06329789.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9765] gi|282925704|ref|ZP_06333352.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C101] gi|282926770|ref|ZP_06334397.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A10102] gi|283767316|ref|ZP_06340231.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus H19] gi|283959002|ref|ZP_06376443.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus A017934/97] gi|284025250|ref|ZP_06379648.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus 132] gi|293497477|ref|ZP_06665331.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 58-424] gi|293511052|ref|ZP_06669749.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M809] gi|293549658|ref|ZP_06672330.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M1015] gi|294848757|ref|ZP_06789502.1| DNA-directed RNA polymerase [Staphylococcus aureus A9754] gi|295404900|ref|ZP_06814713.1| DNA-directed RNA polymerase [Staphylococcus aureus A8819] gi|295428807|ref|ZP_06821431.1| DNA-directed RNA polymerase [Staphylococcus aureus subsp. aureus EMRSA16] gi|296275985|ref|ZP_06858492.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MR1] gi|297209963|ref|ZP_06926359.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297243958|ref|ZP_06927848.1| DNA-directed RNA polymerase [Staphylococcus aureus A8796] gi|297589707|ref|ZP_06948348.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MN8] gi|300910975|ref|ZP_07128425.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus TCH70] gi|304379408|ref|ZP_07362143.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|54039276|sp|P66706|RPOA_STAAN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54039277|sp|P66707|RPOA_STAAW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042187|sp|P66705|RPOA_STAAM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56749506|sp|Q6G797|RPOA_STAAS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|56749553|sp|Q6GEK9|RPOA_STAAR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62287349|sp|Q5HDY4|RPOA_STAAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366732|sp|Q2FER5|RPOA_STAA3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366733|sp|Q2FW32|RPOA_STAA8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|171769946|sp|A7X5C4|RPOA_STAA1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172049005|sp|A6QJ66|RPOA_STAAE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|13702024|dbj|BAB43316.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus N315] gi|14247997|dbj|BAB58386.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus Mu50] gi|21205314|dbj|BAB96008.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus MW2] gi|49242569|emb|CAG41290.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus MRSA252] gi|49245449|emb|CAG43926.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus MSSA476] gi|57284994|gb|AAW37088.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus COL] gi|87128029|gb|ABD22543.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus aureus subsp. aureus USA300_FPR3757] gi|87203694|gb|ABD31504.1| DNA-directed RNA polymerase alpha chain, putative [Staphylococcus aureus subsp. aureus NCTC 8325] gi|147741733|gb|ABQ50031.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus JH9] gi|149947181|gb|ABR53117.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus JH1] gi|150375138|dbj|BAF68398.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus str. Newman] gi|156722674|dbj|BAF79091.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus Mu3] gi|160369237|gb|ABX30208.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus aureus subsp. aureus USA300_TCH1516] gi|253726337|gb|EES95066.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus USA300_TCH959] gi|253727684|gb|EES96413.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus TCH130] gi|257272727|gb|EEV04829.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 55/2053] gi|257276018|gb|EEV07469.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 65-1322] gi|257282552|gb|EEV12684.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus E1410] gi|257285229|gb|EEV15345.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M876] gi|257788542|gb|EEV26882.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9781] gi|257840511|gb|EEV64971.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A9763] gi|257841858|gb|EEV66295.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9719] gi|257847082|gb|EEV71091.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9635] gi|257847591|gb|EEV71593.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A9299] gi|257851750|gb|EEV75684.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A8115] gi|257854741|gb|EEV77689.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A6300] gi|257856301|gb|EEV79210.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A6224] gi|257861563|gb|EEV84365.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A5948] gi|257862630|gb|EEV85398.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus A5937] gi|262076147|gb|ACY12120.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ED98] gi|269941813|emb|CBI50223.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus TW20] gi|282312533|gb|EFB42937.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C101] gi|282315214|gb|EFB45598.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C427] gi|282318531|gb|EFB48889.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus D139] gi|282320794|gb|EFB51128.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M899] gi|282323481|gb|EFB53797.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus WBG10049] gi|282326516|gb|EFB56818.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus WW2703/97] gi|282329466|gb|EFB58987.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus Btn1260] gi|282591221|gb|EFB96294.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A10102] gi|282593561|gb|EFB98554.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A9765] gi|282596586|gb|EFC01545.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus C160] gi|282763721|gb|EFC03849.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus A8117] gi|283461195|gb|EFC08279.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus H19] gi|283471446|emb|CAQ50657.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus ST398] gi|283788594|gb|EFC27421.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus A017934/97] gi|285817886|gb|ADC38373.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus aureus 04-02981] gi|290918705|gb|EFD95781.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M1015] gi|291096408|gb|EFE26666.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 58-424] gi|291466039|gb|EFF08568.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus M809] gi|294824136|gb|EFG40560.1| DNA-directed RNA polymerase [Staphylococcus aureus A9754] gi|294969845|gb|EFG45863.1| DNA-directed RNA polymerase [Staphylococcus aureus A8819] gi|295127156|gb|EFG56798.1| DNA-directed RNA polymerase [Staphylococcus aureus subsp. aureus EMRSA16] gi|296885636|gb|EFH24573.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ATCC 51811] gi|297178736|gb|EFH37981.1| DNA-directed RNA polymerase [Staphylococcus aureus A8796] gi|297578218|gb|EFH96931.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus MN8] gi|298695481|gb|ADI98703.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus subsp. aureus ED133] gi|300887955|gb|EFK83150.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus TCH70] gi|302333860|gb|ADL24053.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus aureus subsp. aureus JKD6159] gi|302752097|gb|ADL66274.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304341940|gb|EFM07844.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312437365|gb|ADQ76436.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus TCH60] gi|312830573|emb|CBX35415.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus ECT-R 2] gi|315129696|gb|EFT85687.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus CGS03] gi|315193476|gb|EFU23872.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus CGS00] gi|315198246|gb|EFU28577.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus CGS01] gi|320140238|gb|EFW32097.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus MRSA131] gi|320143508|gb|EFW35289.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus MRSA177] gi|323440096|gb|EGA97811.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus O11] gi|323442770|gb|EGB00396.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus O46] gi|329723377|gb|EGG59906.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 21172] gi|329730447|gb|EGG66837.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 21193] gi|329732085|gb|EGG68440.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus aureus subsp. aureus 21189] Length = 314 Score = 338 bits (867), Expect = 8e-91, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I R G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|90194010|gb|ABD92566.1| RpoA [Actinobacillus minor NM305] Length = 303 Score = 338 bits (866), Expect = 8e-91, Method: Composition-based stats. Identities = 138/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ V ++ F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQPVVKEEK---PEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|326562118|gb|EGE12446.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis 7169] gi|326565701|gb|EGE15864.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis 12P80B1] gi|326566269|gb|EGE16421.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis 103P14B1] gi|326567079|gb|EGE17201.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis BC1] gi|326568343|gb|EGE18423.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis BC7] gi|326574842|gb|EGE24772.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis 101P30B1] gi|326576166|gb|EGE26081.1| DNA-directed RNA polymerase subunit alpha [Moraxella catarrhalis CO72] Length = 334 Score = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 134/327 (40%), Positives = 205/327 (62%), Gaps = 8/327 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N E + P+ I + + + EPL RGF HTLGNALRR+L+SSL GAA+ + Sbjct: 3 NATEFLTPSAINVDTVNETT---AKVTLEPLERGFGHTLGNALRRILLSSLSGAAVVEAE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE S+++G+ ED+ D++LN+K + + + + +T+ KRG GVVTA D++ ++ Sbjct: 60 IEGVDHEYSTLEGLQEDVLDLLLNLKSLAIILHDQNEAYLTLDKRGAGVVTAADLELPHN 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--GLITIDALYSPIKK 182 +E+ NPD V+ L ++M L V G GY PA R + + G + +DA +SPI + Sbjct: 120 VEIANPDLVLGTLSERGHLKMRLHVVTGRGYEPANQRREDANSKIIGRLKLDASFSPIIR 179 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE+AR Q D DKL + ++T+G+I E+++ A+ ILQ Q+ +F++ E + Sbjct: 180 VAYDVENARVEQRTDLDKLIIELETNGTIDPEEAIRKAATILQQQIAIFVDLEAEEAPEP 239 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QR+E ++L+ N G+KS Sbjct: 240 IKEK---EEIDPVLLRPVDDLELTVRSANCLKAENIYYIGDLVQRSETELLKTPNLGKKS 296 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESI 329 L EIK VL + L LGM L +WPP + Sbjct: 297 LTEIKDVLASKNLELGMRLDNWPPSDL 323 >gi|332086261|gb|EGI91417.1| DNA-directed RNA polymerase, alpha subunit [Shigella dysenteriae 155-74] Length = 304 Score = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 141/305 (46%), Positives = 208/305 (68%), Gaps = 7/305 (2%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 EPL RGF HTLGNALRR+L+SS+ G A+ V+IDGVLHE S+ +GV ED+ +I+LN+K Sbjct: 2 TLEPLERGFGHTLGNALRRILLSSMPGCAVIEVEIDGVLHEYSTKEGVQEDILEILLNLK 61 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTV 149 G+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V Sbjct: 62 GLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKV 121 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++ Sbjct: 122 QRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEME 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P LL+ V++LEL+ Sbjct: 182 TNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELT 238 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP Sbjct: 239 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPP 298 Query: 327 ESIEE 331 SI + Sbjct: 299 ASIAD 303 >gi|295398314|ref|ZP_06808356.1| DNA-directed RNA polymerase subunit alpha [Aerococcus viridans ATCC 11563] gi|294973453|gb|EFG49238.1| DNA-directed RNA polymerase subunit alpha [Aerococcus viridans ATCC 11563] Length = 314 Score = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 203/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN IE I + + + + EPL RG+ TLGN+LRR+L+SSL G A+T++QID Sbjct: 3 EIEKPN-IETIEINDDSKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGTAVTSIQIDD 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+I+LN+K ++LK+ K+V I GP VTA DI D +V Sbjct: 61 VLHEYSTVPGVREDVTEIVLNVKQLSLKLYDVEEKQVEIDITGPADVTAADIIADADFDV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD IC L A M + V G G+V +++++ ++ PIG I +D++Y+PI KV+Y V Sbjct: 121 MNPDLHICTLAEGARFHMIMNVKNGRGFVRSENNKVDSMPIGEIPVDSIYTPISKVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G++ +YDKL+M I TDG+I+ E++++LA++I+ + L +F+N + ++V+ + Sbjct: 181 ENTRIGEINEYDKLTMDIWTDGTISPEEALSLAAKIMTEHLEVFVNLTDEARQVEVMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E +M+++ N GRKSL E+K Sbjct: 241 EETQKEKMLEMTIEELDLSVRSYNCLKRAGINTVEELTNKSEPEMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 NKLAALDLSL 310 >gi|86609045|ref|YP_477807.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. JA-2-3B'a(2-13)] gi|119366741|sp|Q2JL74|RPOA_SYNJB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|86557587|gb|ABD02544.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. JA-2-3B'a(2-13)] Length = 335 Score = 338 bits (866), Expect = 9e-91, Method: Composition-based stats. Identities = 112/302 (37%), Positives = 172/302 (56%), Gaps = 8/302 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + PL RG T+GNALRRVL+S+L G A+TAV+I GV HE S++ GV E Sbjct: 34 DDNGVHYGKFALGPLERGQGITVGNALRRVLLSNLEGTAVTAVRIAGVTHEFSTVPGVRE 93 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I+LN+K + L+ S + + +GPG VTA +Q +D+EV+NP H I L Sbjct: 94 DVMEILLNMKELVLRSSSPETQVGRLVAQGPGEVTAEKLQLPSDVEVINPRHHIATLAEG 153 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A++ ME + +GHGY + ++ I + ID+++ P++KV+Y VE+AR GQ L+ D+ Sbjct: 154 AILEMEFMIGRGHGYRAVDYSDSKAMAIDFLQIDSVFMPVRKVNYAVEAARVGQFLEKDR 213 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I T+GS+T +++++ A+RIL + + K N + Sbjct: 214 LVLEIWTNGSLTPQEALSQAARILVGLFAPL-----QEVSFDAPVPPKPDEDNQKNQIPI 268 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL+LSVR+ NCL+ I + DL+ TE D+L + NFG+KS E+ L G+ Sbjct: 269 EELQLSVRAYNCLKRAQINTVADLLLYTEEDLLEIKNFGQKSAEEVVQALKAR---FGLT 325 Query: 321 LP 322 LP Sbjct: 326 LP 327 >gi|58415724|emb|CAH57276.1| RNA polymerase alpha-subunit [Photobacterium iliopiscarium] gi|58415732|emb|CAH57280.1| RNA polymerase alpha-subunit [Photobacterium phosphoreum] gi|148536424|gb|ABQ85764.1| RNA polymerase alpha-subunit [Photobacterium iliopiscarium] gi|148793266|gb|ABR12697.1| DNA-directed RNA polymerase alpha subunit [Photobacterium phosphoreum] gi|148793268|gb|ABR12698.1| DNA-directed RNA polymerase alpha subunit [Photobacterium phosphoreum] gi|148793270|gb|ABR12699.1| DNA-directed RNA polymerase alpha subunit [Photobacterium iliopiscarium] gi|148793276|gb|ABR12702.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] gi|148793278|gb|ABR12703.1| DNA-directed RNA polymerase alpha subunit [Photobacterium kishitanii] Length = 308 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ +++ Sbjct: 118 NPEHVICHLTDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|306832573|ref|ZP_07465713.1| DNA-directed RNA polymerase subunit alpha [Streptococcus bovis ATCC 700338] gi|304425331|gb|EFM28457.1| DNA-directed RNA polymerase subunit alpha [Streptococcus bovis ATCC 700338] Length = 312 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T +D+E+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +T++K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTIAKNRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|295315349|gb|ADF97760.1| RpoA [Vibrio sp. KTW-12] Length = 311 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 136/316 (43%), Positives = 206/316 (65%), Gaps = 10/316 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 ++KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 2 ILKPRLVDIEQINNA---HAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 58 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 59 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLSKSGAGPVKAGDITHDGDVEIA 118 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ +++ Sbjct: 119 NPEHVICHLTDDNAEISMRIKVERGRGYVPASARIHTDDDERPIGRLLVDATFSPVDRIA 178 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 179 YAVEAARVEQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 238 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRT+ ++L+ N G+KSL Sbjct: 239 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTDVELLKTPNLGKKSLT 295 Query: 305 EIKGVLGTMGLFLGMN 320 EIK VL + GL LGM Sbjct: 296 EIKDVLASRGLSLGMR 311 >gi|55821879|ref|YP_140321.1| DNA-directed RNA polymerase subunit alpha [Streptococcus thermophilus LMG 18311] gi|55823795|ref|YP_142236.1| DNA-directed RNA polymerase subunit alpha [Streptococcus thermophilus CNRZ1066] gi|116628572|ref|YP_821191.1| DNA-directed RNA polymerase subunit alpha [Streptococcus thermophilus LMD-9] gi|81558875|sp|Q5LXT7|RPOA_STRT1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|81560062|sp|Q5M2D9|RPOA_STRT2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122266834|sp|Q03IH7|RPOA_STRTD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|55737864|gb|AAV61506.1| DNA-directed RNA polymerase alpha subunit [Streptococcus thermophilus LMG 18311] gi|55739780|gb|AAV63421.1| DNA-directed RNA polymerase alpha subunit [Streptococcus thermophilus CNRZ1066] gi|116101849|gb|ABJ66995.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus thermophilus LMD-9] gi|312279233|gb|ADQ63890.1| DNA-directed RNA polymerase subunit alpha [Streptococcus thermophilus ND03] Length = 312 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGKFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TVS GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGASFQATMTVSTNRGYVPAEENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F + + K Sbjct: 179 EPARVGSNDGFDKLTIEIVTNGTIIPEDALGLSARILIEHLNLFTDLTDVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKLLDRTIEELDLSVRSYNCLKRAGINTVHDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|312870507|ref|ZP_07730626.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus oris PB013-T2-3] gi|311093969|gb|EFQ52294.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus oris PB013-T2-3] Length = 314 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 136/312 (43%), Positives = 204/312 (65%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + +E +N + EPL RG+ TLGN+LRRVL++SL G+AIT +QIDG Sbjct: 3 EFEKPNIHKV----EETDNYGKFVVEPLERGYGTTLGNSLRRVLIASLPGSAITTMQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP VTAGDIQ +++ V Sbjct: 59 VLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAKVTAGDIQGDSEVSV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD I + A + +++T KG GY+ A R E+ IG++ ID++Y+PI++V+Y Sbjct: 119 LNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE+AR GQ D+DKL++ + TDGSIT ++V+L ++IL + L MF+N E + + + Sbjct: 179 TVENARVGQRSDFDKLTLDVWTDGSITPTEAVSLGAKILTEHLAMFVNLTETAQNAQVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RT +DM+++ N G+KSL E Sbjct: 239 EKEETHKEKTLEMTIEELDLSVRSYNCLKRAGINTVKELTDRTVSDMMKVRNLGQKSLEE 298 Query: 306 IKGVLGTMGLFL 317 IK L +G+ Sbjct: 299 IKLKLNDLGVSF 310 >gi|42520507|ref|NP_966422.1| DNA-directed RNA polymerase subunit alpha [Wolbachia endosymbiont of Drosophila melanogaster] gi|61215982|sp|Q73HA9|RPOA_WOLPM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|42410246|gb|AAS14356.1| DNA-directed RNA polymerase, alpha subunit [Wolbachia endosymbiont of Drosophila melanogaster] Length = 355 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 162/345 (46%), Positives = 238/345 (68%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N +LIKP++++ + E+ + ++ EPL GFA TLGNALRRV++SSL+G+A+ ++ Sbjct: 12 NLDKLIKPSSVKVVSDDSSEK--SDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGIK 69 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE +SI+GV ED+TDI+LN+ + K++G S+K + + +GP V AG I+T + Sbjct: 70 IEGVTHEFTSIQGVREDVTDIVLNMGMLRCKLNGASNKCLNLNAKGPCQVLAGMIETDDQ 129 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDAL 176 ++N D +IC L + + M + V+ G GY+P ++ E D IG I ++AL Sbjct: 130 CSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE- 235 YSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI+ + Sbjct: 190 YSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSDV 249 Query: 236 -EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +MLR Sbjct: 250 SYKKSQVSSSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEGEMLR 309 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 ANFGRKSL EIK VL GL LGMN+ +WPP+ I+ELAK++ D+ Sbjct: 310 TANFGRKSLNEIKAVLTNFGLSLGMNVLNWPPKDIDELAKQHTDE 354 >gi|225630278|ref|YP_002727069.1| DNA-directed RNA polymerase alpha subunit [Wolbachia sp. wRi] gi|225592259|gb|ACN95278.1| DNA-directed RNA polymerase alpha subunit [Wolbachia sp. wRi] Length = 355 Score = 338 bits (866), Expect = 1e-90, Method: Composition-based stats. Identities = 163/345 (47%), Positives = 238/345 (68%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N +LIKP++++ I E+ + ++ EPL GFA TLGNALRRV++SSL+G+A+ ++ Sbjct: 12 NLDKLIKPSSVKVISDDSSEK--SDIVLEPLESGFALTLGNALRRVMLSSLKGSAVYGIK 69 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE +SI+GV ED+TDI+LN+ + K++G S+K + + +GP V AG I+T + Sbjct: 70 IEGVTHEFTSIQGVREDVTDIVLNMGMLRCKLNGASNKCLNLNAKGPCQVLAGMIETDDQ 129 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDAL 176 ++N D +IC L + + M + V+ G GY+P ++ E D IG I ++AL Sbjct: 130 CSIVNKDLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE- 235 YSP+ +VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI+ + Sbjct: 190 YSPVNRVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSDV 249 Query: 236 -EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +MLR Sbjct: 250 SYKKSQVSSSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEGEMLR 309 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 ANFGRKSL EIK VL GL LGMN+ +WPP+ I+ELAK++ D+ Sbjct: 310 TANFGRKSLNEIKAVLTNFGLSLGMNVLNWPPKDIDELAKQHTDE 354 >gi|167759833|ref|ZP_02431960.1| hypothetical protein CLOSCI_02196 [Clostridium scindens ATCC 35704] gi|167662452|gb|EDS06582.1| hypothetical protein CLOSCI_02196 [Clostridium scindens ATCC 35704] Length = 322 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 204/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+ V+IDG Sbjct: 6 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K + D K I G GVVTA DIQ DI Sbjct: 64 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDI 123 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ A + MELT+++G GYV A ++ + PI +I ID++Y+P+++V Sbjct: 124 EIMNPETVIATLNGGADSKLYMELTITRGRGYVSADKNKNDELPIAVIPIDSIYTPVERV 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 184 NLTVENTRVGQITDFDKLTLDVYTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEV 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 244 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 303 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 304 EEVLAKLDELGLSL 317 >gi|58584576|ref|YP_198149.1| DNA-directed RNA polymerase subunit alpha [Wolbachia endosymbiont strain TRS of Brugia malayi] gi|75497934|sp|Q5GSW7|RPOA_WOLTR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|58418892|gb|AAW70907.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit, RpoA [Wolbachia endosymbiont strain TRS of Brugia malayi] Length = 355 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 160/345 (46%), Positives = 236/345 (68%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + +L KPN+++ + + + ++ EPL GFA TLGNALRRV++SSL G+A+ ++ Sbjct: 12 SLDKLTKPNSMKV--VSSDSSEKGDIVLEPLESGFALTLGNALRRVMLSSLIGSAVYGIK 69 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDG+ HE +SI+GV ED+TDI+LN+ + K++G S+K +++ +GP V AG I+T + Sbjct: 70 IDGITHEFTSIQGVREDVTDIVLNMGMLRCKLNGTSNKCLSLSAKGPCQVLAGMIETDDQ 129 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDAL 176 ++N D +IC L D + M + V+ G GY+P ++ E D I I ++AL Sbjct: 130 CSIVNKDLLICTLGQDVELNMTIYVASGKGYLPVTKYKENEFLKPMNEQDLISFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NF 234 YSPI +VSY VE++R GQV D DKL ++++TDG+I+ +V A+RILQ+QL FI + Sbjct: 190 YSPINRVSYRVENSRVGQVTDKDKLILSVETDGTISPSQAVDSAARILQEQLQPFISSDI 249 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE++MLR Sbjct: 250 SYKKSQVSSPSGYKDLGYDPILLRKVDEMELSVRSHNCLKNENITYIGDLVQKTESEMLR 309 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 ANFGRKSL EIK VL GL LGM++PDWPP+ I+ELA+++ D+ Sbjct: 310 TANFGRKSLNEIKAVLNNFGLSLGMDIPDWPPKDIDELARQHTDE 354 >gi|225574733|ref|ZP_03783343.1| hypothetical protein RUMHYD_02810 [Blautia hydrogenotrophica DSM 10507] gi|225038062|gb|EEG48308.1| hypothetical protein RUMHYD_02810 [Blautia hydrogenotrophica DSM 10507] Length = 319 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 132/314 (42%), Positives = 202/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFNKP-KIEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+++II+N+K + +K + K I G GVVTA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVSEIIMNLKSLAIKNKSNDSEPKTAYIECEGKGVVTAADIQADQDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ D + MELT++KG GYV A ++++ PIG+I +DA+Y+P+ +V Sbjct: 121 EIMNPEQVIATLNGGKDCRLAMELTITKGRGYVSADKGKSDDMPIGVIAVDAIYTPVDRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NLVVENTRVGQITDFDKLTLDVYTNGTLDPDEAVSLAAKVLSEHLSLFIDLSENAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDNEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELCNRTSDDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQL 314 >gi|33519683|ref|NP_878515.1| DNA-directed RNA polymerase subunit alpha [Candidatus Blochmannia floridanus] gi|41688649|sp|Q7VQC3|RPOA_BLOFL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33517346|emb|CAD83731.1| DNA-directed RNA polymerase alpha chain [Candidatus Blochmannia floridanus] Length = 331 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 142/336 (42%), Positives = 219/336 (65%), Gaps = 12/336 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +E +KP +I + + + + EPL RGF HTLGNALRR+L+SS+ G AIT Sbjct: 1 MQSFEKEFLKPRSINIEKISEI---HSKITLEPLERGFGHTLGNALRRILLSSMPGCAIT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE + +GV ED+ +I+LN+K + + M +T+ K G G V A DI+ Sbjct: 58 EVEIEGVLHEYGTKEGVREDVLEILLNLKTLAINMYVKDSIVLTLKKTGIGPVIASDIEY 117 Query: 122 VND-IEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTEND----PIGLITIDA 175 + I ++NP+H+IC + D + M + V +G GYVPA + +D PIG + +DA Sbjct: 118 DSSIISIVNPNHIICCITDQDTSIIMRIKVQRGRGYVPAFSRFSSDDQHDLPIGRLLLDA 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 YSP++++SYTVE+AR + D DKL + ++T+G+I E+++ A+ IL DQL FI+ + Sbjct: 178 CYSPVERISYTVEAARVEKRTDLDKLIIDMETNGTIDPEEAIRRAATILSDQLSSFIDLK 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + + ++ + F+P+LL V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ Sbjct: 238 DVHQP---EVKEEKPEFDPSLLNLVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 N G+KSL EIK VL + GL LGM L +WPP+ + E Sbjct: 295 PNLGKKSLTEIKDVLASRGLSLGMRLDNWPPKHLSE 330 >gi|296111454|ref|YP_003621836.1| DNA-directed RNA polymerase alpha subunit [Leuconostoc kimchii IMSNU 11154] gi|295832986|gb|ADG40867.1| DNA-directed RNA polymerase alpha subunit [Leuconostoc kimchii IMSNU 11154] Length = 314 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 128/312 (41%), Positives = 192/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E++ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDDRYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+E+ Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD + + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E + Sbjct: 179 HVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEASVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + N + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EAEPVATNASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L MG+ Sbjct: 299 IQEKLTEMGIGF 310 >gi|197303839|ref|ZP_03168875.1| hypothetical protein RUMLAC_02578 [Ruminococcus lactaris ATCC 29176] gi|197297132|gb|EDY31696.1| hypothetical protein RUMLAC_02578 [Ruminococcus lactaris ATCC 29176] Length = 319 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 205/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITDV-SDDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G GVVT DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSESDEVKTAYIEYEGEGVVTGADIQADSDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L D+ + MELT++KG GYV + ++TE+ PIG++ ID++Y+PI +V Sbjct: 121 EIVNPEQVIATLSGGKDSKLYMELTITKGRGYVSSDKNKTEDMPIGVLPIDSIYTPIDRV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TV++ R GQ+ DYDKL++ + T G++ +++V+LA+++L + L +FI+ E ++ + Sbjct: 181 NLTVQNTRVGQITDYDKLTLDVWTKGTMAPDEAVSLAAKVLSEHLKLFIDLSEVAQQAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L + L L Sbjct: 301 EEVLAKLKELNLELN 315 >gi|223042663|ref|ZP_03612712.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus capitis SK14] gi|222444326|gb|EEE50422.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus capitis SK14] Length = 314 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKVRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPKESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|90194012|gb|ABD92567.1| RpoA [Actinobacillus porcitonsillarum] Length = 303 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTAGDI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQSKDDVVLTLNKSGIGPVTAGDITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHAQDDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|319893174|ref|YP_004150049.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus pseudintermedius HKU10-03] gi|317162870|gb|ADV06413.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus pseudintermedius HKU10-03] gi|323463778|gb|ADX75931.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus pseudintermedius ED99] Length = 314 Score = 337 bits (865), Expect = 1e-90, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 198/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEVSDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ I++NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAIDHVVEDVSTIVMNIKKLALKIYSEEDKTLEIDIKEEGEVTAKDIMHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + +++ L + G GY A + + + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPDLKIATVSKGGHLKLRLVANTGRGYALADQNNSSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + TDGSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTDGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|301168432|emb|CBW28022.1| DNA-directed RNA polymerase alpha chain [Bacteriovorax marinus SJ] Length = 337 Score = 337 bits (864), Expect = 1e-90, Method: Composition-based stats. Identities = 147/325 (45%), Positives = 219/325 (67%), Gaps = 4/325 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 + KNW +I+P ++E + N +A+PL RG+ TLGN+LRR L+SSL+GA I Sbjct: 4 FVAKNWTNMIRPVSLEADN-ESMKANYGKFVAKPLERGYGQTLGNSLRRALLSSLQGAGI 62 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 A++I+GV HE +I V E++++IILN+K + K+ G +T+ K G G VTAGDI Sbjct: 63 VAIRIEGVEHEFGTINNVKEEVSEIILNLKEVFFKLKGKEDTVLTLEKSGEGPVTAGDIS 122 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 +EVLNP+HVICN+ +++EL V++G GYV A ++ E + P+G I +D L+SP Sbjct: 123 ESASLEVLNPEHVICNISSGGSIKVELKVARGKGYVTASENKEEYDLPVGWIYVDTLFSP 182 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +V++TV ++R G+ D+DKL++ + T+ I +D+VA +++IL+DQL +F+NFE+ ++ Sbjct: 183 VHRVNFTVTNSRVGKRTDFDKLTLEVWTNAGIQPQDAVAFSAKILRDQLAVFLNFEDEEE 242 Query: 240 EV--KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 V ++ S P N ALLK V ELELSVRS NCL+ NI Y+ +L+ +TE +MLR N Sbjct: 243 VVRLEKAPAQASSPANSALLKPVSELELSVRSANCLQNANIKYIYELVSKTEGEMLRTKN 302 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLP 322 FGRKSL EIK +L MGL LGM + Sbjct: 303 FGRKSLNEIKEILSNMGLGLGMKVD 327 >gi|83815189|ref|YP_445192.1| DNA-directed RNA polymerase subunit alpha [Salinibacter ruber DSM 13855] gi|83756583|gb|ABC44696.1| DNA-directed RNA polymerase, alpha subunit [Salinibacter ruber DSM 13855] Length = 321 Score = 337 bits (864), Expect = 1e-90, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 202/315 (64%), Gaps = 3/315 (0%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 E + + + ++ + PL RG+ T+GNALRRVL+SSLRG AITAV+IDGV HE S+I Sbjct: 3 EGVHVEEVSDSEGQFVMGPLERGYGVTIGNALRRVLLSSLRGLAITAVKIDGVQHEFSTI 62 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVI 134 GV ED+ D+ILN+K + K + + GPG TA DI + + +VLNPD + Sbjct: 63 PGVTEDVADLILNLKEVRFKADEMQEGHLHLNLEGPGNWTAADIDEATAEYDVLNPDQHV 122 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L DAVV ++L V G GYVP++ ++ E+DPIG+I ID++++PIK V+Y V+ R GQ Sbjct: 123 ATLAEDAVVNVDLRVGYGRGYVPSEENKREDDPIGVIAIDSIFTPIKNVNYEVKPTRVGQ 182 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +DY++L + ++TDGS+T E+++ + IL+D + FI EE + V E+ V Sbjct: 183 KIDYEELLLDVETDGSLTPEEAITQGASILRDHVSFFIQLEEEPEPVVEEQEVDEEVKRI 242 Query: 255 ALL--KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L + V+EL+LSVRS NCL+ NI +GDL++R E +ML+ NFGRKSL E+ VL Sbjct: 243 RELLAQPVDELDLSVRSHNCLKAANIKTIGDLVRREEDEMLKFRNFGRKSLQELVEVLDE 302 Query: 313 MGLFLGMNLPDWPPE 327 GL GM++ ++ E Sbjct: 303 RGLQFGMDVEEYLEE 317 >gi|58416032|emb|CAH57430.1| RNA polymerase alpha-subunit [Vibrio sp. R-21419] Length = 308 Score = 337 bits (864), Expect = 1e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVNTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDVLEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ +++ Sbjct: 118 NPEHVICHLTDDNADISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + + T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMQTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|226323042|ref|ZP_03798560.1| hypothetical protein COPCOM_00814 [Coprococcus comes ATCC 27758] gi|225208609|gb|EEG90963.1| hypothetical protein COPCOM_00814 [Coprococcus comes ATCC 27758] Length = 319 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 135/314 (42%), Positives = 207/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAAI+ ++IDG Sbjct: 3 DFNKPN-IEIAEI-SDDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAISQIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKTLAIKNSSETDEPKTAYIEFEGEGVVTAADIQADSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ A + MELT++KG GYV + ++TE+ PIG+I ID++Y+P+++V Sbjct: 121 EIMNPETVIATLNGGADSKLYMELTITKGRGYVGSDKNKTEDMPIGVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TV++ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NLTVQNTRVGQITDYDKLTLDVYTNGTLAPDEAVSLAAKVLNEHLKLFIDLSEVAQSAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLEL 314 >gi|68536848|ref|YP_251553.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium jeikeium K411] gi|260579206|ref|ZP_05847096.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium jeikeium ATCC 43734] gi|90110834|sp|Q4JTC2|RPOA_CORJK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|68264447|emb|CAI37935.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium jeikeium K411] gi|258602692|gb|EEW15979.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium jeikeium ATCC 43734] Length = 337 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 123/307 (40%), Positives = 183/307 (59%), Gaps = 3/307 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++I+GVLHE ++I GV ED++ Sbjct: 15 DDSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIEGVLHEFTTIPGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILNIK + L D + I K GPG VT D++ +EV N D I L+ + Sbjct: 75 DIILNIKSLVLSSDSDEPVSMFIRKEGPGEVTGADVEVPAGVEVHNQDLHIATLNEQGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +E+TV +G GYVPA +E G I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 EIEMTVERGRGYVPAATASSEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T SIT D++A A + L + G+ + ++ + + A +E+L Sbjct: 192 DVETKNSITARDAMASAGKTLVELFGLAQELNHEAEGIEIGPSPQESEHIAAYSMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L +GL L Sbjct: 252 NFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAGLGLGLKDAPEG 311 Query: 324 WPPESIE 330 + IE Sbjct: 312 FDITDIE 318 >gi|148381392|ref|YP_001255933.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A str. ATCC 3502] gi|153932349|ref|YP_001385767.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum A str. ATCC 19397] gi|153936668|ref|YP_001389174.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum A str. Hall] gi|153940858|ref|YP_001392805.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum F str. Langeland] gi|168178861|ref|ZP_02613525.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum NCTC 2916] gi|168181893|ref|ZP_02616557.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum Bf] gi|170756437|ref|YP_001783092.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum B1 str. Okra] gi|170760187|ref|YP_001788792.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum A3 str. Loch Maree] gi|187776604|ref|ZP_02993077.1| hypothetical protein CLOSPO_00118 [Clostridium sporogenes ATCC 15579] gi|226950904|ref|YP_002805995.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A2 str. Kyoto] gi|237796913|ref|YP_002864465.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum Ba4 str. 657] gi|166229269|sp|A7FZ44|RPOA_CLOB1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229270|sp|A5I7H7|RPOA_CLOBH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|166229271|sp|A7GJ45|RPOA_CLOBL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|229564246|sp|B1IGC5|RPOA_CLOBK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238688736|sp|B1KSJ6|RPOA_CLOBM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|254765247|sp|C1FMS2|RPOA_CLOBJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|259494165|sp|C3KVM2|RPOA_CLOB6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148290876|emb|CAL85012.1| DNA-directed RNA polymerase alpha chain [Clostridium botulinum A str. ATCC 3502] gi|152928393|gb|ABS33893.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A str. ATCC 19397] gi|152932582|gb|ABS38081.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A str. Hall] gi|152936754|gb|ABS42252.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum F str. Langeland] gi|169121649|gb|ACA45485.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum B1 str. Okra] gi|169407176|gb|ACA55587.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A3 str. Loch Maree] gi|182670092|gb|EDT82068.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum NCTC 2916] gi|182674826|gb|EDT86787.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum Bf] gi|187775263|gb|EDU39065.1| hypothetical protein CLOSPO_00118 [Clostridium sporogenes ATCC 15579] gi|226842850|gb|ACO85516.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A2 str. Kyoto] gi|229260648|gb|ACQ51681.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum Ba4 str. 657] gi|295320785|gb|ADG01163.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum F str. 230613] gi|322807777|emb|CBZ05352.1| DNA-directed RNA polymerase alpha subunit [Clostridium botulinum H04402 065] Length = 315 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 126/310 (40%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + E+ + + EPL RG+ TLGNALRR+L+SSL G A ++ID Sbjct: 3 EIEKP-KIECVE-NAEDGSYGKFVIEPLERGYGITLGNALRRILLSSLPGVAADHIKIDS 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T++ILNIK + L M+G+ K + I + GP VTA DI+T D+EV Sbjct: 61 VLHEFSTVQGVKEDVTELILNIKCLALTMNGEGPKTIYIDEVGPKEVTAADIKTDGDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I LD + + ME+ V++G GYV ++T++ PIG I +D++Y+P+K+V+++V Sbjct: 121 INKDLHIATLDENGKMYMEINVNRGRGYVTQNKNKTKDMPIGSIAVDSIYTPVKRVNFSV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ+ DYDKL++ + T+G+I E++V+L+++IL + +F+ + +++ + Sbjct: 181 ENTRVGQITDYDKLTIEVWTNGTIRPEEAVSLSAKILIEHFKLFMTLTDHADDMEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L +R+ DM+++ N G+KSL E++ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELCERSMDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 QKLEALGLGL 310 >gi|289550169|ref|YP_003471073.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus lugdunensis HKU09-01] gi|315659201|ref|ZP_07912065.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus lugdunensis M23590] gi|289179701|gb|ADC86946.1| DNA-directed RNA polymerase alpha subunit [Staphylococcus lugdunensis HKU09-01] gi|315495626|gb|EFU83957.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus lugdunensis M23590] Length = 314 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ II+NIK + LK+ + K + I R G VTA DI +D+E+ Sbjct: 61 VLHEFSAIDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|190341325|gb|ACE74739.1| RpoA [Enterobacter cowanii] Length = 308 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLSKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|146329031|ref|YP_001210127.1| DNA-directed RNA polymerase, alpha subunit [Dichelobacter nodosus VCS1703A] gi|158513303|sp|A5EX94|RPOA_DICNV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146232501|gb|ABQ13479.1| DNA-directed RNA polymerase, alpha subunit [Dichelobacter nodosus VCS1703A] Length = 320 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 131/322 (40%), Positives = 198/322 (61%), Gaps = 8/322 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 EL+ P ++ +G + + EPL RGF +TLG ALRRVL+SS+ GAAIT QI Sbjct: 3 LTELLTPRIVQIKEIGSNT---SRVTLEPLERGFGYTLGTALRRVLLSSIEGAAITECQI 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGV HE S+I+GV ED+ D++LN+K I L M + + G +TAGD + + Sbjct: 60 DGVSHEYSAIEGVKEDVIDVLLNLKNIALLMPDLERAEIRLSVTEKGAITAGDFELPAGV 119 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKV 183 E++NPD VI +L D + V KG GY A E+ ++ +DA +SP++++ Sbjct: 120 EIVNPDCVIAHLTRDIPFSLTAVVEKGRGYRVAPQADDNSESTRSNVLRLDASFSPVRRI 179 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE AR Q D DKL + I+++G+I E ++ A+ IL +Q+ +F++ E ++E +E Sbjct: 180 AYRVEQARVEQRTDLDKLIIEIESNGTIDPEQAIRDAATILHNQIKVFVDLESTEEETEE 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL Sbjct: 240 EEEIYIDP---VLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSL 296 Query: 304 VEIKGVLGTMGLFLGMNLPDWP 325 EIK VL L LGM++ +WP Sbjct: 297 NEIKEVLAAHNLELGMDIENWP 318 >gi|167748457|ref|ZP_02420584.1| hypothetical protein ANACAC_03201 [Anaerostipes caccae DSM 14662] gi|317472010|ref|ZP_07931342.1| DNA-directed RNA polymerase [Anaerostipes sp. 3_2_56FAA] gi|167652449|gb|EDR96578.1| hypothetical protein ANACAC_03201 [Anaerostipes caccae DSM 14662] gi|316900414|gb|EFV22396.1| DNA-directed RNA polymerase [Anaerostipes sp. 3_2_56FAA] Length = 318 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 202/314 (64%), Gaps = 5/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN IE + E+ + EPL RG+ TLGN+LRR+++SSL GAA++AV+I G Sbjct: 3 EFEKPN-IEISEI-SEDNRFGRFVVEPLVRGYGTTLGNSLRRIMLSSLPGAAVSAVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SS+ GV ED+ +II+NIK + +K + D K+ I G GVVTAGDI+ +DI Sbjct: 61 VLHEFSSVPGVKEDVPEIIMNIKSLAIKNNSSTDEPKQAFIECSGSGVVTAGDIKADSDI 120 Query: 126 EVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E+LNPD VI L DA + MELT++KG GYV A E + I I +DA+Y+P+++V+ Sbjct: 121 EILNPDMVIATLSGDDAHLDMELTITKGRGYVGADKADKEGNSIDEIAVDAIYTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE+ R GQV DYDKL++ + T+G+++ +++V+LA+++L + L +F++ E K + Sbjct: 181 LKVENTRVGQVTDYDKLTLDVFTNGTLSPDEAVSLAAKVLCEHLNLFVDLSENAKTAEVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 VEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTSEDMMKVRNLGRKSLE 300 Query: 305 EIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EVLAKLNELGLALN 314 >gi|296875379|ref|ZP_06899453.1| DNA-directed RNA polymerase subunit alpha [Streptococcus parasanguinis ATCC 15912] gi|312867033|ref|ZP_07727244.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus parasanguinis F0405] gi|322390685|ref|ZP_08064199.1| DNA-directed RNA polymerase subunit alpha [Streptococcus parasanguinis ATCC 903] gi|296433572|gb|EFH19345.1| DNA-directed RNA polymerase subunit alpha [Streptococcus parasanguinis ATCC 15912] gi|311097515|gb|EFQ55748.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus parasanguinis F0405] gi|321142658|gb|EFX38122.1| DNA-directed RNA polymerase subunit alpha [Streptococcus parasanguinis ATCC 903] Length = 312 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILN+KGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ LTV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGASLKATLTVNSGRGYVPADQNKKDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E V Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTNLTEIAIATDVMKEV 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTTSDDRILERTIEELDLSVRSYNCLKRAGINTVYDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 IKLADLGLGLKND 311 >gi|227876167|ref|ZP_03994283.1| DNA-directed RNA polymerase [Mobiluncus mulieris ATCC 35243] gi|269976926|ref|ZP_06183900.1| DNA-directed RNA polymerase, alpha subunit [Mobiluncus mulieris 28-1] gi|306819442|ref|ZP_07453149.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus mulieris ATCC 35239] gi|307701655|ref|ZP_07638671.1| DNA-directed RNA polymerase, alpha subunit [Mobiluncus mulieris FB024-16] gi|227843128|gb|EEJ53321.1| DNA-directed RNA polymerase [Mobiluncus mulieris ATCC 35243] gi|269934757|gb|EEZ91317.1| DNA-directed RNA polymerase, alpha subunit [Mobiluncus mulieris 28-1] gi|304647734|gb|EFM45052.1| DNA-directed RNA polymerase subunit alpha [Mobiluncus mulieris ATCC 35239] gi|307613158|gb|EFN92411.1| DNA-directed RNA polymerase, alpha subunit [Mobiluncus mulieris FB024-16] Length = 327 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 115/303 (37%), Positives = 177/303 (58%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + R+ EPL GF +TLGN+LRR L+SS+ G+A+T+++I+G LHE +++ G Sbjct: 9 LTEEVINNQRSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGSAVTSIKIEGALHEFTTLPG 68 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T ++LNIK I L D + + K G G VT GDI + + NP+H I L Sbjct: 69 VKEDVTQVVLNIKEIVLSSDNDEPVVMYLRKTGEGEVTVGDIMPPAGVVIHNPEHHIATL 128 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + D + +ELTV +G GYV A ++ I I +D++YSP+ KVSY VE+ R Q D Sbjct: 129 NKDGKLEIELTVERGRGYVSAAQNKDPEAEISRIPVDSIYSPVLKVSYHVEATRVEQRTD 188 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +D+L + ++T +I+ D++A A + L + G+ + ++ + L Sbjct: 189 FDRLIVDVETKKAISPRDAMASAGKTLVELFGLARALNADAEGIELGSSNTDSALAEDLA 248 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 VE+LEL+ R+ NCL E I +GDL+ R++AD+L + NFG KS+ EIK L TMG+ L Sbjct: 249 MSVEDLELTSRALNCLNREGIKTVGDLVARSQADLLDIRNFGHKSIDEIKEKLATMGMSL 308 Query: 318 GMN 320 + Sbjct: 309 KDS 311 >gi|302669991|ref|YP_003829951.1| DNA-directed RNA polymerase alpha subunit RpoA [Butyrivibrio proteoclasticus B316] gi|302394464|gb|ADL33369.1| DNA-directed RNA polymerase alpha subunit RpoA [Butyrivibrio proteoclasticus B316] Length = 319 Score = 337 bits (864), Expect = 2e-90, Method: Composition-based stats. Identities = 135/313 (43%), Positives = 205/313 (65%), Gaps = 5/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +PN IE + +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 3 DFERPN-IEVAEI-SDDKKYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK +++K S D K I G GVV A DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNLSIKNSSDTNEPKTAYIEYSGEGVVRASDIQVDQDI 120 Query: 126 EVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD VI L DA + MELT++KG GYV + ++ + PIG+I ID++Y+P+++V+ Sbjct: 121 EIMNPDQVIATLSGKDAKLYMELTITKGRGYVSSDKNKGGDLPIGVIAIDSIYTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 TVE+ R GQV D+DKL++ + TDG++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 VTVENTRVGQVTDFDKLTLDVHTDGTLAPDEAVSLAAKVLSEHLSLFIDLSENAKTAEVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 VEKEDDEKGKVLEMSIDELELSVRSFNCLKRAGINTVQELANKTSDDMMKVRNLGRKSLE 300 Query: 305 EIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EVLAKLDELGLSL 313 >gi|228474561|ref|ZP_04059292.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus hominis SK119] gi|314935857|ref|ZP_07843209.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus hominis subsp. hominis C80] gi|228271224|gb|EEK12592.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus hominis SK119] gi|313656422|gb|EFS20162.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus hominis subsp. hominis C80] Length = 314 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 130/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ II+NIK + LK+ + K + I R G VTA DI +D+EV Sbjct: 61 VLHEFSAIDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|320103642|ref|YP_004179233.1| DNA-directed RNA polymerase subunit alpha [Isosphaera pallida ATCC 43644] gi|319750924|gb|ADV62684.1| DNA-directed RNA polymerase subunit alpha [Isosphaera pallida ATCC 43644] Length = 335 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 127/328 (38%), Positives = 192/328 (58%), Gaps = 11/328 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ W+ L P+ + ++ + EP RGF HT+GN+LRR+L+SSL G+A+T Sbjct: 1 MRIRWRGLEIPSRV-VPNRETLSDSFGEFVIEPFERGFGHTVGNSLRRILLSSLEGSAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++I+GV HE SSI G+ ED+TD++LN+KG+ +K D K + I + G+VTA DI Sbjct: 60 RIKIEGVQHEFSSIPGMVEDITDLVLNLKGLIVKNHSDQPKTIVIERDREGIVTAADIVH 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 IEV+NPDH++C L DA + M +TV G GY PA TE+ G I IDA++SP++ Sbjct: 120 DETIEVVNPDHILCTLSGDARLHMRMTVENGRGYRPAAEGHTEDLEPGAIPIDAIFSPVQ 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP---- 237 +V Y VE R GQ ++DKL M I T G+I + ++ A++IL+ L F+ + EP Sbjct: 180 RVEYRVEETRVGQKTNFDKLIMRIWTTGTIRPDMALVEAAKILRKHLNPFVQYFEPGPGL 239 Query: 238 ------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ + L + ELELSVR+TNCL E I + +L+ R+E Sbjct: 240 PAEGSGPADIGRGLEPHDAELERKLNMSLAELELSVRATNCLESEGITTIRELVSRSEEQ 299 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +L + NFG +L E++ L +G+ LGM Sbjct: 300 LLTVRNFGETTLKEVRSKLNDLGIDLGM 327 >gi|317054795|ref|YP_004103262.1| DNA-directed RNA polymerase subunit alpha [Ruminococcus albus 7] gi|315447064|gb|ADU20628.1| DNA-directed RNA polymerase, alpha subunit [Ruminococcus albus 7] Length = 319 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 130/325 (40%), Positives = 208/325 (64%), Gaps = 8/325 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M++K + KP IE L I EPL RG+ TLGN+LRRVL+SSL G A+ Sbjct: 1 MLEK----IEKP-KIETPELKSNG-TYGKFILEPLERGYGITLGNSLRRVLLSSLPGVAV 54 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+V+IDGV HE+S+I GV ED+T+IILN+KG+ K+ G+ K + I G VVTAGDI+ Sbjct: 55 TSVKIDGVHHELSTIPGVKEDVTEIILNLKGLTAKLYGEGPKTIYIEAEGECVVTAGDIK 114 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYS 178 +++++L PD I L A + ME+T+ +G GYV A+ +++ +N PIG+I +D++YS Sbjct: 115 ADSEVDILVPDMHIATLGAGAKLYMEITIDRGRGYVSAEKNKSLMQNAPIGIIAVDSIYS 174 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ KV+YTV++ R G + D+DKL++ + TDG+I+ +++V++A+++L + L F++ E Sbjct: 175 PVLKVNYTVDNTRVGHITDFDKLTLEVWTDGTISAKEAVSMAAKLLNEHLNPFVDLSEET 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V+ + L +EEL+LSVRS NCL+ I + DLI+++ +M+++ N Sbjct: 235 NVVELIVEKDDQGKEKILEMTIEELDLSVRSFNCLKRAGINTVNDLIEKSAEEMMKVRNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPD 323 G+KS E++ L ++G L + Sbjct: 295 GKKSFDEVREKLHSLGYELNSEEDN 319 >gi|70725829|ref|YP_252743.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus haemolyticus JCSC1435] gi|90110870|sp|Q4L888|RPOA_STAHJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|68446553|dbj|BAE04137.1| DNA-directed RNA polymerase alpha chain [Staphylococcus haemolyticus JCSC1435] Length = 314 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 131/310 (42%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ II+NIK + LK+ + K + I R G VTA DI +D+EV Sbjct: 61 VLHEFSAIDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++IL + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKILTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|160894727|ref|ZP_02075502.1| hypothetical protein CLOL250_02278 [Clostridium sp. L2-50] gi|156863661|gb|EDO57092.1| hypothetical protein CLOL250_02278 [Clostridium sp. L2-50] Length = 318 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 132/316 (41%), Positives = 200/316 (63%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE + + + + + EPL RG+ TLGN+LRR+++SSL G A+T V+I G Sbjct: 3 EFEKP-KIEIVEISDDNK-YGKFVVEPLERGYGTTLGNSLRRIMLSSLPGTAVTHVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+I++NIK + +K + + K+ I G VV A DI DI Sbjct: 61 VLHEFSSIPGVKEDVTEIVMNIKSLVIKNNSLTNEPKQAYIDVAGDCVVRASDIHVDGDI 120 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD VI NL DA + MELT+ G GYV + ++ + PI +I ID++Y+P+++V+ Sbjct: 121 EIINPDLVIANLSGPDARLEMELTIGNGRGYVGSDKNKEADAPIDVIAIDSIYTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 TV++ R GQV DYDKL++ + T+G+I +++V+LA+R+L + L +F++ E K V Sbjct: 181 LTVQNTRVGQVTDYDKLTLDVFTNGAIAPDEAVSLAARVLVEHLNLFVDLSENAKSVDVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +LI +T DM+++ N GRKSL Sbjct: 241 VESVTDEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELINKTPEDMMKVRNLGRKSLD 300 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L +GL L + Sbjct: 301 EVLAKLKELGLSLNDS 316 >gi|114567812|ref|YP_754966.1| DNA-directed RNA polymerase [Syntrophomonas wolfei subsp. wolfei str. Goettingen] gi|119366746|sp|Q0AUK9|RPOA_SYNWW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|114338747|gb|ABI69595.1| DNA-directed RNA polymerase [Syntrophomonas wolfei subsp. wolfei str. Goettingen] Length = 316 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 130/311 (41%), Positives = 202/311 (64%), Gaps = 3/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I+ + N + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EMEKPR-IDCVE-KNSSSNYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED T+IILNIK + L +G K + + ++GP V A DI ++E+ Sbjct: 61 VLHEFSTIPGVLEDTTEIILNIKKLVLSYTGSERKIIRLEQQGPKEVKASDITPDAEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPIKKVSYT 186 LNPD + +LD D V +E+TV +G GYV + +ND I GLI ID++++P+ +V+YT Sbjct: 121 LNPDLHLASLDEDGKVEIEMTVERGRGYVSSDQQPQKNDDIVGLIPIDSIFTPVSRVNYT 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+AR G+ DYD+L++ + T+GSI+ E++++L+++IL + L +F ++ EV+ + Sbjct: 181 VENARVGKRTDYDRLNLEVWTNGSISPEEAISLSAQILIEYLKLFTEIDDTYAEVEILVE 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + L +EELELSVR++N L+ +I +GDLI + +M ++ N G+KSL EI Sbjct: 241 KEEEKKDKILEMSIEELELSVRASNGLKRASINTVGDLIAKNREEMSKIRNLGQKSLEEI 300 Query: 307 KGVLGTMGLFL 317 + L + L Sbjct: 301 ERKLKELNLSF 311 >gi|259047529|ref|ZP_05737930.1| DNA-directed RNA polymerase, alpha subunit [Granulicatella adiacens ATCC 49175] gi|259035720|gb|EEW36975.1| DNA-directed RNA polymerase, alpha subunit [Granulicatella adiacens ATCC 49175] Length = 315 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 136/311 (43%), Positives = 199/311 (63%), Gaps = 3/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL G A+T +Q+DG Sbjct: 3 EIEKP-KIETIEVSEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGTAVTDIQMDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIE 126 VLHE S+I GV ED+ IILNIK I LK + K + I +GP VVTAGDI+ +DI+ Sbjct: 61 VLHEFSTIDGVVEDVAAIILNIKKIALKSFSEDENKVLEIDVKGPAVVTAGDIKHDSDIQ 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 VLNPD IC + + + G GYV + ++++EN PIG+I ID++Y+PI KV+Y Sbjct: 121 VLNPDLYICTVAEGHHFHVRMNAKNGRGYVRSDYNKSENMPIGVIPIDSIYTPISKVNYQ 180 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ YDKL++ + TDGSI +D+++LA+RIL + L +F+N ++ + Sbjct: 181 VENTRIGQKNVYDKLTLDVWTDGSIAPQDAISLAARILTEHLNIFVNLTNEALPMEIMVE 240 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L ++EA+M+++ N GRKSL E+ Sbjct: 241 KEETQKERLLEMTIEELDLSVRSYNCLKRAGINTVHELTSKSEAEMIKVRNLGRKSLEEV 300 Query: 307 KGVLGTMGLFL 317 K L + L L Sbjct: 301 KQKLIDLNLDL 311 >gi|154505141|ref|ZP_02041879.1| hypothetical protein RUMGNA_02654 [Ruminococcus gnavus ATCC 29149] gi|153794620|gb|EDN77040.1| hypothetical protein RUMGNA_02654 [Ruminococcus gnavus ATCC 29149] Length = 319 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 206/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAAI++V+IDG Sbjct: 3 DFNKPN-IEITEI-SEDKKYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAISSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G G+VT DIQT +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSESDEVKTAYIEFEGEGIVTGADIQTDSDI 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L D+ + MELT++KG GYV A +++E+ PIG+I ID++Y+P+++V Sbjct: 121 EIMNPEQVIATLSGGKDSKLYMELTITKGRGYVSADKNKSEDMPIGVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TV++ R GQV DYDKL++ + T G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NMTVQNTRVGQVTDYDKLTLDVWTKGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQSAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L + L L Sbjct: 301 EEVLAKLKELNLELN 315 >gi|190341367|gb|ACE74760.1| RpoA [Enterobacter radicincitans] Length = 308 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASINMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|262283556|ref|ZP_06061321.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sp. 2_1_36FAA] gi|262260613|gb|EEY79314.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sp. 2_1_36FAA] Length = 312 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 196/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKGI +K K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGARFKAVMTVNSGRGYVPADQNKRDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E K V Sbjct: 179 EPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILTEHLDLFTDLTEVAKATDVMKEV 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 DKSSDDHVLERTIEELDLSVRSYNCLKRAGINTVYDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLTDLGLGLKND 311 >gi|190341389|gb|ACE74771.1| RpoA [Cronobacter dublinensis] gi|190341391|gb|ACE74772.1| RpoA [Cronobacter dublinensis] gi|190341393|gb|ACE74773.1| RpoA [Cronobacter dublinensis] gi|190341395|gb|ACE74774.1| RpoA [Cronobacter dublinensis] gi|190341397|gb|ACE74775.1| RpoA [Cronobacter dublinensis] gi|190341401|gb|ACE74777.1| RpoA [Cronobacter genomosp. 1] gi|190341403|gb|ACE74778.1| RpoA [Cronobacter malonaticus] gi|190341405|gb|ACE74779.1| RpoA [Cronobacter malonaticus] gi|190341407|gb|ACE74780.1| RpoA [Cronobacter malonaticus] gi|190341409|gb|ACE74781.1| RpoA [Cronobacter malonaticus] gi|190341411|gb|ACE74782.1| RpoA [Cronobacter malonaticus] gi|190341413|gb|ACE74783.1| RpoA [Cronobacter malonaticus] gi|190341415|gb|ACE74784.1| RpoA [Cronobacter malonaticus] gi|190341417|gb|ACE74785.1| RpoA [Cronobacter muytjensii] gi|190341419|gb|ACE74786.1| RpoA [Cronobacter muytjensii] gi|190341421|gb|ACE74787.1| RpoA [Cronobacter muytjensii] gi|190341423|gb|ACE74788.1| RpoA [Cronobacter muytjensii] gi|190341425|gb|ACE74789.1| RpoA [Cronobacter muytjensii] gi|190341427|gb|ACE74790.1| RpoA [Cronobacter sakazakii] gi|190341429|gb|ACE74791.1| RpoA [Cronobacter sakazakii] gi|190341431|gb|ACE74792.1| RpoA [Cronobacter sakazakii] gi|190341433|gb|ACE74793.1| RpoA [Cronobacter sakazakii] gi|190341435|gb|ACE74794.1| RpoA [Cronobacter sakazakii] gi|190341437|gb|ACE74795.1| RpoA [Cronobacter sakazakii] gi|190341439|gb|ACE74796.1| RpoA [Cronobacter sakazakii] gi|190341441|gb|ACE74797.1| RpoA [Cronobacter sakazakii] gi|190341443|gb|ACE74798.1| RpoA [Cronobacter sakazakii] gi|190341445|gb|ACE74799.1| RpoA [Cronobacter sakazakii] gi|190341447|gb|ACE74800.1| RpoA [Cronobacter sakazakii] gi|190341449|gb|ACE74801.1| RpoA [Cronobacter sakazakii] gi|190341451|gb|ACE74802.1| RpoA [Cronobacter sakazakii] gi|190341455|gb|ACE74804.1| RpoA [Cronobacter sakazakii] gi|190341457|gb|ACE74805.1| RpoA [Cronobacter sakazakii] gi|190341459|gb|ACE74806.1| RpoA [Cronobacter sakazakii] gi|190341463|gb|ACE74808.1| RpoA [Cronobacter sakazakii] gi|190341465|gb|ACE74809.1| RpoA [Cronobacter sakazakii] gi|190341467|gb|ACE74810.1| RpoA [Cronobacter sakazakii] gi|190341469|gb|ACE74811.1| RpoA [Cronobacter sakazakii] gi|190341471|gb|ACE74812.1| RpoA [Cronobacter sakazakii] gi|190341473|gb|ACE74813.1| RpoA [Cronobacter sakazakii] gi|190341475|gb|ACE74814.1| RpoA [Cronobacter sakazakii] gi|190341477|gb|ACE74815.1| RpoA [Cronobacter turicensis] gi|190341479|gb|ACE74816.1| RpoA [Cronobacter turicensis] gi|190341481|gb|ACE74817.1| RpoA [Cronobacter turicensis] gi|190341483|gb|ACE74818.1| RpoA [Cronobacter turicensis] Length = 308 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|160941042|ref|ZP_02088380.1| hypothetical protein CLOBOL_05935 [Clostridium bolteae ATCC BAA-613] gi|158435991|gb|EDP13758.1| hypothetical protein CLOBOL_05935 [Clostridium bolteae ATCC BAA-613] Length = 320 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 202/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEI-SEDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D K I G GV+TA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD +I L D+ MELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V Sbjct: 121 EIMNPDQIIATLSGGTDSKFYMELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V + R GQ DYDKL++ I T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMAVANTRVGQQTDYDKLTLEIYTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEI 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|116493137|ref|YP_804872.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Pediococcus pentosaceus ATCC 25745] gi|122265399|sp|Q03EE2|RPOA_PEDPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116103287|gb|ABJ68430.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus ATCC 25745] Length = 314 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 137/312 (43%), Positives = 194/312 (62%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID Sbjct: 3 EFEKPK----IHKIDENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDS 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ + Sbjct: 59 VLHEFSTIEGVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSY 185 LNP+ IC + LT G GY A ++ + PIG++ ID++Y+PI++V+Y Sbjct: 119 LNPELPICTVAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + Sbjct: 179 QVENTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +EEL+LSVRS NCL+ I + +L RT+A M+++ N GRKSLVE Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINSVQELTDRTDAQMMKVRNLGRKSLVE 298 Query: 306 IKGVLGTMGLFL 317 I+ L +GL Sbjct: 299 IQEKLSLLGLGF 310 >gi|288904299|ref|YP_003429520.1| RNA polymerase (alpha subunit) [Streptococcus gallolyticus UCN34] gi|306830328|ref|ZP_07463499.1| DNA-directed RNA polymerase subunit alpha [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325977278|ref|YP_004286994.1| DNA-directed RNA polymerase subunit alpha [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] gi|288731024|emb|CBI12568.1| RNA polymerase (alpha subunit) [Streptococcus gallolyticus UCN34] gi|304427575|gb|EFM30676.1| DNA-directed RNA polymerase subunit alpha [Streptococcus gallolyticus subsp. gallolyticus TX20005] gi|325177206|emb|CBZ47250.1| DNA-directed RNA polymerase subunit alpha [Streptococcus gallolyticus subsp. gallolyticus ATCC BAA-2069] Length = 312 Score = 336 bits (863), Expect = 2e-90, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T +D+E+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|239623375|ref|ZP_04666406.1| DNA-directed RNA polymerase [Clostridiales bacterium 1_7_47_FAA] gi|239522341|gb|EEQ62207.1| DNA-directed RNA polymerase [Clostridiales bacterium 1_7_47FAA] Length = 320 Score = 336 bits (862), Expect = 2e-90, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 202/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEI-SEDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D K I G GV+TA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD VI L D+ MELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V Sbjct: 121 EIMNPDQVIATLSGGTDSKFYMELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V + R GQ D+DKL++ I T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMAVTNTRVGQQTDFDKLTLEIYTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEI 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|58415690|emb|CAH57259.1| RNA polymerase alpha-subunit [Enterovibrio coralii] gi|58415692|emb|CAH57260.1| RNA polymerase alpha-subunit [Enterovibrio norvegicus] gi|58415694|emb|CAH57261.1| RNA polymerase alpha-subunit [Enterovibrio norvegicus] gi|58415696|emb|CAH57262.1| RNA polymerase alpha-subunit [Enterovibrio norvegicus] gi|58415698|emb|CAH57263.1| RNA polymerase alpha-subunit [Enterovibrio norvegicus] gi|58415700|emb|CAH57264.1| RNA polymerase alpha-subunit [Grimontia hollisae] gi|58415702|emb|CAH57265.1| RNA polymerase alpha-subunit [Grimontia hollisae] gi|58415704|emb|CAH57266.1| RNA polymerase alpha-subunit [Grimontia hollisae] Length = 308 Score = 336 bits (862), Expect = 2e-90, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 203/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI +E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGGVEIA 117 Query: 129 NPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ +++ Sbjct: 118 NPEHVICHLTDSNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|221195350|ref|ZP_03568405.1| DNA-directed RNA polymerase, alpha subunit [Atopobium rimae ATCC 49626] gi|221184537|gb|EEE16929.1| DNA-directed RNA polymerase, alpha subunit [Atopobium rimae ATCC 49626] Length = 313 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 121/314 (38%), Positives = 193/314 (61%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P+ + + + N + AEPL RG+ TLGN+LRRVL+SSL G+A+ A+QID Sbjct: 2 SEFIRPS----VSVEEIGANAARVSAEPLERGYGDTLGNSLRRVLLSSLEGSAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 GV HE +++ GV+ED+TDI+LN+K + + D + +I GP VVT DI Sbjct: 58 GVQHEFTTVDGVYEDVTDIVLNVKCLVFRSLEDIDEAEASITVDGPKVVTGADIDVPTGF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NP+ IC L A + M L + KG GYV + + ++DPIG I++D+++SP+++ + Sbjct: 118 ELVNPEQHICTLSDGAHLAMRLRIGKGRGYVSGEDNERDDDPIGFISVDSIFSPVRRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ +G F+ E + ++E Sbjct: 178 AVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMGAFMGLSEVDESLEETS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + + L K+VE+L+LSVRS NCL+ I + L+ +E D+L + NFG KS+ Sbjct: 238 IFASEDVQDDSELDKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L MGL L Sbjct: 298 EEVKEKLEAMGLSL 311 >gi|238922857|ref|YP_002936370.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium rectale ATCC 33656] gi|238874529|gb|ACR74236.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium rectale ATCC 33656] Length = 319 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 209/315 (66%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIAEI-SEDKTYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + ++ + + K I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNLAIRNNSSTNEPKVAYIEFEGEGVVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNP+ I +L+ A + MELT++ G GYV A+ ++ E+ PIG++ +D++Y+P+++V Sbjct: 121 EILNPELEIAHLNGGADSKLYMELTITNGRGYVGAEKNKNEDTPIGVLAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQV DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E ++V Sbjct: 181 NLTVENTRVGQVTDYDKLTLDVFTNGTLEPDEAVSLAAKVLSEHLNLFIDLSEAAQQVDV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ L ++ELELSVRS NCL+ I + +LI RT DM+++ N GRKSL Sbjct: 241 MVEKENDAQEKVLEMNIDELELSVRSYNCLKRAGINTVAELINRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLELN 315 >gi|222150471|ref|YP_002559624.1| DNA-directed RNA polymerase alpha chain [Macrococcus caseolyticus JCSC5402] gi|254765255|sp|B9E9L7|RPOA_MACCJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|222119593|dbj|BAH16928.1| DNA-directed RNA polymerase alpha chain [Macrococcus caseolyticus JCSC5402] Length = 314 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 125/310 (40%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETVEISEDSKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKNIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+ V ED+T II+NIK + LK+ D K + I + GVVTA DI +D+E+ Sbjct: 61 VLHEFSAIENVVEDVTSIIMNIKKLALKIYSDEDKTLEIDVKDEGVVTAKDIMHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD I + ++M L + G GY A+ + T + PIG+I +D++Y+P+++V+Y V Sbjct: 121 LNPDLKIATVSKGGHLKMRLIANAGRGYTLAEDNNTSDLPIGVIPVDSIYTPVERVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ ++DKL++ + TDGSIT +++++L ++I+ + L +F++ + + + I Sbjct: 181 ENTRVGQSTNFDKLTLDVWTDGSITPQEAISLGAKIMTEHLNIFVDLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDHKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 FKLEDLGLGL 310 >gi|58415708|emb|CAH57268.1| RNA polymerase alpha-subunit [Photobacterium damselae subsp. damselae] gi|58415710|emb|CAH57269.1| RNA polymerase alpha-subunit [Photobacterium damselae subsp. damselae] gi|58415712|emb|CAH57270.1| RNA polymerase alpha-subunit [Photobacterium damselae subsp. damselae] Length = 308 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 204/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVNS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA +SP+ ++S Sbjct: 118 NPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|58415714|emb|CAH57271.1| RNA polymerase alpha-subunit [Photobacterium rosenbergii] gi|58415716|emb|CAH57272.1| RNA polymerase alpha-subunit [Photobacterium rosenbergii] gi|58415718|emb|CAH57273.1| RNA polymerase alpha-subunit [Photobacterium rosenbergii] gi|58415720|emb|CAH57274.1| RNA polymerase alpha-subunit [Photobacterium rosenbergii] gi|58415722|emb|CAH57275.1| RNA polymerase alpha-subunit [Photobacterium rosenbergii] Length = 308 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVNTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ +++ Sbjct: 118 NPEHVICHLTDDNADISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|73661998|ref|YP_300779.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] gi|90110871|sp|Q49ZE2|RPOA_STAS1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|72494513|dbj|BAE17834.1| DNA-directed RNA polymerase alpha chain [Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305] Length = 314 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 202/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAIDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGDVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ ++T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPEIKIATVSKGGHLKIRLVANKGRGYALAEQNKTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++IL + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKILTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|190341399|gb|ACE74776.1| RpoA [Cronobacter genomosp. 1] Length = 308 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVVLTLNKSGIGPVTAADINHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|190341311|gb|ACE74732.1| RpoA [Enterobacter aerogenes] gi|190341327|gb|ACE74740.1| RpoA [Enterobacter helveticus] gi|190341329|gb|ACE74741.1| RpoA [Enterobacter helveticus] gi|190341331|gb|ACE74742.1| RpoA [Enterobacter helveticus] gi|190341333|gb|ACE74743.1| RpoA [Enterobacter helveticus] gi|190341337|gb|ACE74745.1| RpoA [Enterobacter helveticus] gi|190341339|gb|ACE74746.1| RpoA [Enterobacter helveticus] gi|190341341|gb|ACE74747.1| RpoA [Enterobacter helveticus] gi|190341343|gb|ACE74748.1| RpoA [Enterobacter helveticus] gi|190341345|gb|ACE74749.1| RpoA [Enterobacter helveticus] gi|190341347|gb|ACE74750.1| RpoA [Enterobacter helveticus] gi|190341355|gb|ACE74754.1| RpoA [Enterobacter pulveris] gi|190341357|gb|ACE74755.1| RpoA [Enterobacter pulveris] gi|190341359|gb|ACE74756.1| RpoA [Enterobacter pulveris] gi|190341361|gb|ACE74757.1| RpoA [Enterobacter pulveris] gi|190341363|gb|ACE74758.1| RpoA [Enterobacter pulveris] gi|190341365|gb|ACE74759.1| RpoA [Enterobacter pulveris] gi|190341375|gb|ACE74764.1| RpoA [Escherichia hermannii] gi|190341377|gb|ACE74765.1| RpoA [Escherichia hermannii] Length = 308 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|190341387|gb|ACE74770.1| RpoA [Pantoea sp. E147] Length = 308 Score = 336 bits (862), Expect = 3e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 206/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+ +++ Sbjct: 118 KPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|262373496|ref|ZP_06066774.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter junii SH205] gi|262311249|gb|EEY92335.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter junii SH205] Length = 335 Score = 336 bits (861), Expect = 3e-90, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 220/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+G G VTA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGAGDVTAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NPDH+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPDHLIGTLSSSGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|190571569|ref|YP_001975927.1| DNA-directed RNA polymerase, alpha subunit [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|213018971|ref|ZP_03334778.1| DNA-directed RNA polymerase, alpha subunit [Wolbachia endosymbiont of Culex quinquefasciatus JHB] gi|190357841|emb|CAQ55297.1| DNA-directed RNA polymerase, alpha subunit [Wolbachia endosymbiont of Culex quinquefasciatus Pel] gi|212995080|gb|EEB55721.1| DNA-directed RNA polymerase, alpha subunit [Wolbachia endosymbiont of Culex quinquefasciatus JHB] Length = 355 Score = 336 bits (861), Expect = 3e-90, Method: Composition-based stats. Identities = 159/345 (46%), Positives = 232/345 (67%), Gaps = 12/345 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N L KPN I+ + + ++ ++ EPL GFA TLG+ALRRV++SSLRG+A+ ++ Sbjct: 12 NLDRLTKPNAIKV--ISGDSSKKSDIVLEPLESGFALTLGHALRRVMLSSLRGSAVYGIK 69 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GV HE +SI+GV ED+TDI LN+ + K++ S+K + + +GP V AG I+T + Sbjct: 70 IEGVNHEFTSIQGVREDITDIALNMGMLRCKLNNTSNKCLNLSAKGPCQVLAGMIETDDQ 129 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDAL 176 ++N D VIC L D + + + ++ G GY+ ++ E D IG I ++AL Sbjct: 130 CSIVNKDLVICTLGQDVELNITIYIASGKGYLSVNKYKENEFLKSMNEQDLIGFIPVNAL 189 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI--NF 234 YSP+++VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+Q FI + Sbjct: 190 YSPVERVSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDYAARILQEQFQPFISSDM 249 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K +V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +MLR Sbjct: 250 SYKKSQVSLSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEVEMLR 309 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 ANFGRKSL EIK +L GL LGMN+P+WPP+ I+ELAK++ D+ Sbjct: 310 TANFGRKSLNEIKAILNNSGLSLGMNIPNWPPKDIDELAKQHTDE 354 >gi|291298742|ref|YP_003510020.1| DNA-directed RNA polymerase subunit alpha [Stackebrandtia nassauensis DSM 44728] gi|290567962|gb|ADD40927.1| DNA-directed RNA polymerase, alpha subunit [Stackebrandtia nassauensis DSM 44728] Length = 345 Score = 336 bits (861), Expect = 3e-90, Method: Composition-based stats. Identities = 124/329 (37%), Positives = 189/329 (57%), Gaps = 7/329 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----ESLSDTRSRFSIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIKIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE ++I G ED+ +++LN+K + + D + + K+GPG VTAGDIQ + + V N Sbjct: 61 HEFTTIPGAKEDVVELVLNVKQLCVSSELDEPVTMYLRKQGPGDVTAGDIQPPSGVTVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ + MEL V +G GYV A ++ IG I +D++YSP+ KVSY VE+ Sbjct: 121 PELKLATLNGKGRLDMELIVERGRGYVSAAQNKQAGAGIGRIPVDSIYSPVVKVSYRVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T S ++A A L + G++ + + + + Sbjct: 181 TRVEQRTDFDKLIIDVETKPSTGPRTALASAGSTLVELFGLYRELDSAAEGIDVGPSPAD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +EELEL+VRS NCL+ E + +G+LI RTEAD+L + NFG+KS+ E+K Sbjct: 241 AQLAADLALPIEELELTVRSYNCLKREGVDQVGELINRTEADLLDIRNFGQKSIDEVKMK 300 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +GL L + + P E A Y+D Sbjct: 301 LAGLGLALKDSPGTFDPA---EAAAAYDD 326 >gi|157150884|ref|YP_001451209.1| DNA-directed RNA polymerase subunit alpha [Streptococcus gordonii str. Challis substr. CH1] gi|172045615|sp|A8AZJ9|RPOA_STRGC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157075678|gb|ABV10361.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus gordonii str. Challis substr. CH1] Length = 312 Score = 336 bits (861), Expect = 3e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 196/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKGI +K K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGARFKAVMTVNSGRGYVPADQNKRDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E K V Sbjct: 179 EPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILTEHLDLFTDLTEVAKATDVMKEV 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 DKSSDDHVLERTIEELDLSVRSYNCLKRAGINTVYDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 IKLTDLGLGLKND 311 >gi|319945810|ref|ZP_08020060.1| DNA-directed RNA polymerase subunit alpha [Streptococcus australis ATCC 700641] gi|319747875|gb|EFW00119.1| DNA-directed RNA polymerase subunit alpha [Streptococcus australis ATCC 700641] Length = 312 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGVFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILN+KGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + + LTV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSFKATLTVNSGRGYVPADQNKKDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E V Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTNLTEIAIATDVMKEV 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 DTASDDRVLERTIEELDLSVRSYNCLKRAGINTVYDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|116617354|ref|YP_817725.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] gi|122272445|sp|Q03ZM0|RPOA_LEUMM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116096201|gb|ABJ61352.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293] Length = 314 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 129/312 (41%), Positives = 191/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EV Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQGPADVTAADLQGGADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ E + Sbjct: 179 QVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDISPVAAEASVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EAEPVAASASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L M L Sbjct: 299 IQEKLTDMNLGF 310 >gi|58415706|emb|CAH57267.1| RNA polymerase alpha-subunit [Photobacterium angustum] gi|58415726|emb|CAH57277.1| RNA polymerase alpha-subunit [Photobacterium leiognathi subsp. leiognathi] gi|58415730|emb|CAH57279.1| RNA polymerase alpha-subunit [Photobacterium leiognathi subsp. leiognathi] gi|148793254|gb|ABR12691.1| DNA-directed RNA polymerase alpha subunit [Photobacterium angustum] gi|148793256|gb|ABR12692.1| DNA-directed RNA polymerase alpha subunit [Photobacterium angustum] gi|148793258|gb|ABR12693.1| DNA-directed RNA polymerase alpha subunit [Photobacterium leiognathi] gi|148793260|gb|ABR12694.1| DNA-directed RNA polymerase alpha subunit [Photobacterium leiognathi] gi|148793262|gb|ABR12695.1| DNA-directed RNA polymerase alpha subunit [Photobacterium leiognathi subsp. mandapamensis] gi|148793264|gb|ABR12696.1| DNA-directed RNA polymerase alpha subunit [Photobacterium leiognathi subsp. mandapamensis] Length = 308 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA YSP+ +++ Sbjct: 118 NPEHVICHITDDNAELSMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|190341307|gb|ACE74730.1| RpoA [Citrobacter koseri] gi|190341309|gb|ACE74731.1| RpoA [Citrobacter koseri] Length = 308 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|226953896|ref|ZP_03824360.1| RNA polymerase, alpha subunit [Acinetobacter sp. ATCC 27244] gi|294651609|ref|ZP_06728913.1| DNA-directed RNA polymerase [Acinetobacter haemolyticus ATCC 19194] gi|226835379|gb|EEH67762.1| RNA polymerase, alpha subunit [Acinetobacter sp. ATCC 27244] gi|292822458|gb|EFF81357.1| DNA-directed RNA polymerase [Acinetobacter haemolyticus ATCC 19194] Length = 335 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 220/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+G G VTA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGAGDVTAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NPDH+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPDHLIGTLSASGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|323483272|ref|ZP_08088662.1| hypothetical protein HMPREF9474_00411 [Clostridium symbiosum WAL-14163] gi|323691229|ref|ZP_08105505.1| DNA-directed RNA polymerase [Clostridium symbiosum WAL-14673] gi|323403370|gb|EGA95678.1| hypothetical protein HMPREF9474_00411 [Clostridium symbiosum WAL-14163] gi|323504748|gb|EGB20534.1| DNA-directed RNA polymerase [Clostridium symbiosum WAL-14673] Length = 320 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 202/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIAEI-SEDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + K I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKSLAIKNLSETNEPKTAYIEFEGEGVVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNP+ VI L D+ MEL ++KG GY+ A ++ + PIG+I +D++Y+P+++V Sbjct: 121 EILNPEQVIATLSGGTDSKFYMELNITKGRGYISADKNKNDELPIGMIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQV D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NMTVENTRVGQVTDFDKLTLDVFTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENARTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|190341315|gb|ACE74734.1| RpoA [Enterobacter asburiae] gi|190341317|gb|ACE74735.1| RpoA [Enterobacter asburiae] gi|190341319|gb|ACE74736.1| RpoA [Enterobacter cancerogenus] gi|190341321|gb|ACE74737.1| RpoA [Enterobacter cancerogenus] gi|190341323|gb|ACE74738.1| RpoA [Enterobacter cloacae] gi|190341349|gb|ACE74751.1| RpoA [Enterobacter hormaechei ATCC 49162] gi|190341351|gb|ACE74752.1| RpoA [Enterobacter kobei] gi|190341353|gb|ACE74753.1| RpoA [Enterobacter ludwigii] gi|190341371|gb|ACE74762.1| RpoA [Enterobacter sp. KM877_04] gi|190341373|gb|ACE74763.1| RpoA [Enterobacter sp. OD1121_04] gi|190341381|gb|ACE74767.1| RpoA [Escherichia vulneris] gi|190341383|gb|ACE74768.1| RpoA [Leclercia adecarboxylata ATCC 23216] gi|190341385|gb|ACE74769.1| RpoA [Leclercia adecarboxylata] Length = 308 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|190341299|gb|ACE74726.1| RpoA [Citrobacter freundii] gi|190341301|gb|ACE74727.1| RpoA [Citrobacter sp. NZ3872_90] gi|190341303|gb|ACE74728.1| RpoA [Citrobacter sp. OD1158_06] Length = 308 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 137/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|240145849|ref|ZP_04744450.1| DNA-directed RNA polymerase, alpha subunit [Roseburia intestinalis L1-82] gi|257201997|gb|EEV00282.1| DNA-directed RNA polymerase, alpha subunit [Roseburia intestinalis L1-82] Length = 319 Score = 336 bits (861), Expect = 4e-90, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 206/315 (65%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFQKP-KIEIAEI-SEDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + ++ + + K I G GVVTA DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNLAIRNNSSTNEPKVAYIEFEGEGVVTAADIQVDSDI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 ++LNPD VI NL+ D + MELT++ G GYV A ++TE+ PIG+I ID++Y+P+++V Sbjct: 121 QILNPDLVIANLNGGPDCKLYMELTITNGRGYVSADKNKTEDIPIGVIAIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + +E+ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E ++ Sbjct: 181 NLLIENTRVGQITDYDKLTLDVYTNGTLEPDEAVSLAAKVLSEHLSLFIDLSEAAQQADV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDNAKEKVLEMNIDELELSVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|90194062|gb|ABD92592.1| RpoA [Pasteurella multocida subsp. septica] Length = 304 Score = 335 bits (860), Expect = 4e-90, Method: Composition-based stats. Identities = 138/306 (45%), Positives = 204/306 (66%), Gaps = 7/306 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 2 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 61 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+ Sbjct: 62 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICH 121 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 122 LTDESASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARV 181 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 182 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 238 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 239 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 298 Query: 313 MGLFLG 318 GL LG Sbjct: 299 RGLSLG 304 >gi|78484664|ref|YP_390589.1| DNA-directed RNA polymerase subunit alpha [Thiomicrospira crunogena XCL-2] gi|119366747|sp|Q31IV8|RPOA_THICR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78362950|gb|ABB40915.1| DNA-directed RNA polymerase, alpha subunit [Thiomicrospira crunogena XCL-2] Length = 329 Score = 335 bits (860), Expect = 4e-90, Method: Composition-based stats. Identities = 144/329 (43%), Positives = 211/329 (64%), Gaps = 7/329 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+ ++L+ P ++ + + + EPL RGF HTLGNALRR+L+SS+ GAAI Sbjct: 1 MQEMLEQLLTPRLVDIKTV---NGFNSRVTLEPLERGFGHTLGNALRRILLSSMPGAAIV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 QIDGVLHE S+I+GV ED+ +I+LN+K + +K++ S +T+ K+GP VVTA DIQ Sbjct: 58 EAQIDGVLHEYSAIEGVREDVLEIMLNLKEVAIKLNETSEAELTLSKKGPAVVTAADIQL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-GLITIDALYSPI 180 +D E++NPD VI +L A + M+L V KG GY A G++ +DA +SP+ Sbjct: 118 NHDTEIMNPDLVIAHLGEGAELSMKLKVEKGIGYRAAVQSSDSESANIGVLKLDASFSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K VSY V++AR Q D DKL + + TDG++ ED++ A+ +L QL F++ + + Sbjct: 178 KTVSYEVQNARVEQRTDLDKLILNVVTDGTLDPEDAIKQAATVLHYQLIAFVDLKHKEIV 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V+E+ F+P L+ V++LEL+VRS NCL+ E I Y+GDL+QR E+ +L+ N G+ Sbjct: 238 VQEEEEN---EFDPIFLQPVDDLELTVRSANCLKAEQIYYIGDLVQRAESSLLKTPNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL LG L +WPP S+ Sbjct: 295 KSLQEIKDVLAQRGLGLGTKLENWPPSSL 323 >gi|82751814|ref|YP_417555.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus RF122] gi|119366734|sp|Q2YYM2|RPOA_STAAB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|82657345|emb|CAI81786.1| DNA-directed RNA polymerase alpha chain [Staphylococcus aureus RF122] Length = 314 Score = 335 bits (860), Expect = 4e-90, Method: Composition-based stats. Identities = 128/310 (41%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLSGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I R G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|27904917|ref|NP_778043.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. Bp (Baizongia pistaciae)] gi|29427637|sp|P59455|RPOA_BUCBP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|27904315|gb|AAO27148.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola str. Bp (Baizongia pistaciae)] Length = 331 Score = 335 bits (860), Expect = 4e-90, Method: Composition-based stats. Identities = 139/334 (41%), Positives = 213/334 (63%), Gaps = 12/334 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E + P + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQSSVTEFLIPRLVNIEQI---SMTHVKITLEPLERGFGHTLGNALRRILLSSMPGFAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDG+LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G GVVTA DI Sbjct: 58 EVEIDGILHEYSTKEGVQEDIIEILLNLKGLAIRVYGKDQVYLTLVKTGIGVVTAADINH 117 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHH-----RTENDPIGLITIDA 175 ND+E++N DH+IC L +A + M + V G GYVP + + +G + +DA Sbjct: 118 GNDVEIINLDHIICTLTCKNASISMRIKVQCGRGYVPVISRTNVISDNKENYVGKLLVDA 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 YSP++++ Y VE+AR + D DKL + ++T+G++ E+++ A+ IL +QL F+ Sbjct: 178 CYSPVERMIYKVEAARVEKRTDLDKLVIEMETNGTLDPEEAIRRAATILSNQLESFVYLR 237 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + ++ +I + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+Q+TE ++LR Sbjct: 238 DIRE---PEIKEEKPEFDPILLRPVDDLELTVRSANCLKAEMIHYIGDLVQKTEVELLRT 294 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 N G+KSL EIK VL L LGMNL +WPP++I Sbjct: 295 PNLGKKSLTEIKDVLAAKNLSLGMNLENWPPDNI 328 >gi|313889541|ref|ZP_07823186.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pseudoporcinus SPIN 20026] gi|313122050|gb|EFR45144.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pseudoporcinus SPIN 20026] Length = 312 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|190341305|gb|ACE74729.1| RpoA [Citrobacter koseri] Length = 308 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQPEVKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFAP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|58415734|emb|CAH57281.1| RNA polymerase alpha-subunit [Salinivibrio costicola subsp. costicola] Length = 308 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 203/314 (64%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI +E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLTKSGAGPVVAGDITHDGGVEIA 117 Query: 129 NPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L +A + M + V +G GYVPA + PIG + +DA +SP+ +++ Sbjct: 118 NPEHVICHLTDANAEISMRIKVERGRGYVPASARIDSEDDERPIGRLLVDATFSPVDRIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GLFLG Sbjct: 295 EIKDVLASRGLFLG 308 >gi|262370553|ref|ZP_06063878.1| RNA polymerase [Acinetobacter johnsonii SH046] gi|262314353|gb|EEY95395.1| RNA polymerase [Acinetobacter johnsonii SH046] Length = 335 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 141/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG VTA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDVTAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L VS+G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSLKMRLKVSQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|239636207|ref|ZP_04677211.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus warneri L37603] gi|239598223|gb|EEQ80716.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus warneri L37603] gi|330685120|gb|EGG96784.1| DNA-directed RNA polymerase, alpha subunit [Staphylococcus epidermidis VCU121] Length = 314 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 126/310 (40%), Positives = 201/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL G+A+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGSAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I + G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKKLALKIYSEEDKTLEIDVKDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKVRLVANKGRGYALAETNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|167771239|ref|ZP_02443292.1| hypothetical protein ANACOL_02597 [Anaerotruncus colihominis DSM 17241] gi|167666490|gb|EDS10620.1| hypothetical protein ANACOL_02597 [Anaerotruncus colihominis DSM 17241] Length = 319 Score = 335 bits (860), Expect = 5e-90, Method: Composition-based stats. Identities = 129/319 (40%), Positives = 203/319 (63%), Gaps = 5/319 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++I+P IE + L + + +AEPL RGF TLGN+LRRVL+SSL G A+ +V+IDG Sbjct: 3 KIIEP-KIETVELKS-DGSYGKFVAEPLDRGFGTTLGNSLRRVLLSSLPGVAVISVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 + HE S+I GV ED+T+IILNIKG+ K+ D K V I +G VTAG I+ +++E+ Sbjct: 61 IQHEFSTIPGVKEDVTEIILNIKGLTAKLYCDEPKTVRIDAQGECEVTAGSIECDSEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPIKKVS 184 L+P I LD A + ME+T+ KG GYV A ++ E P+G I +D++Y+P+ KV+ Sbjct: 121 LDPSMHIATLDTGAKLAMEITLKKGQGYVSADRNKHTELEKAPVGTIAVDSIYTPVLKVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 YTVE+ R Q+ DYDKL++ + TDG+I+ +++V+LA++IL QL F++ + + Sbjct: 181 YTVENTRVEQITDYDKLTLEVWTDGTISAKEAVSLAAKILNRQLNHFVDLSDEVSATEIM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L +EEL+LSVR+ NCL+ + + DLI ++ +M+++ N G+KSL Sbjct: 241 DKKEDTGKDKLLEMTIEELDLSVRAFNCLKRAGVNTVADLINKSPDEMMKVRNLGKKSLE 300 Query: 305 EIKGVLGTMGLFLGMNLPD 323 E+ L ++G L + + Sbjct: 301 EVIWKLQSLGFDLSKDDDN 319 >gi|315222793|ref|ZP_07864679.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus anginosus F0211] gi|315188096|gb|EFU21825.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus anginosus F0211] Length = 312 Score = 335 bits (859), Expect = 5e-90, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E +N + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKNYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIGEGASLKAIMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 179 EPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAKSTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVSDDRVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|172040041|ref|YP_001799755.1| DNA-directed RNA polymerase subunit alpha [Corynebacterium urealyticum DSM 7109] gi|171851345|emb|CAQ04321.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium urealyticum DSM 7109] Length = 337 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 121/307 (39%), Positives = 183/307 (59%), Gaps = 3/307 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +++R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED++ Sbjct: 15 DDSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSLRIDGVLHEFTTVPGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DIILNIK + L D + + K G G VT DI+T +EV N D I L+ + Sbjct: 75 DIILNIKSLVLSSDFDEPVTMYLRKEGAGAVTGADIETPAGVEVHNKDLHIATLNEQGKL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +EL V +G GYVPA E G I +D +YSP+ KVSY VE+ R Q D+DKL + Sbjct: 135 DIELVVERGRGYVPAATSTDEI---GRIPVDQIYSPVLKVSYKVEATRVEQRTDFDKLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T S++ D++A A + L + G+ + ++ + + A +E+L Sbjct: 192 DVETKSSMSARDAMASAGKTLVELFGLAQELNIEAEGIEIGPSPQESEHIAAYNMPIEDL 251 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + SVRS NCL+ E I +G+L RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 252 DFSVRSYNCLKREEIHTVGELAARTESDLLDIRNFGQKSINEVKVKLAGLGLALKDSPEG 311 Query: 324 WPPESIE 330 + IE Sbjct: 312 FDLSDIE 318 >gi|260589249|ref|ZP_05855162.1| DNA-directed RNA polymerase, alpha subunit [Blautia hansenii DSM 20583] gi|331082657|ref|ZP_08331780.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 6_1_63FAA] gi|260540330|gb|EEX20899.1| DNA-directed RNA polymerase, alpha subunit [Blautia hansenii DSM 20583] gi|330400276|gb|EGG79918.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 6_1_63FAA] Length = 319 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 200/315 (63%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP I+ + +++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFNKP-KIQITEM-SDDKRYGKFVVEPLERGYGITLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K D K I G GVVT DIQ D+ Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKNLAIKNVSDSNEPKTAYIEFEGEGVVTGADIQVDQDL 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNPD VI L+ A ELT++KG GYV A +T++ PIG+I +D++Y+P+++V Sbjct: 121 EILNPDLVIATLNGGADCKFNAELTITKGRGYVSADKGKTDDMPIGMIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + VE+ R GQV DYDKL++ I T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMAVENTRVGQVTDYDKLTLDIYTNGTLDADEAVSLAAKVLSEHLSLFIDLSESAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|22536269|ref|NP_687120.1| DNA-directed RNA polymerase subunit alpha [Streptococcus agalactiae 2603V/R] gi|25010159|ref|NP_734554.1| DNA-directed RNA polymerase subunit alpha [Streptococcus agalactiae NEM316] gi|76798216|ref|ZP_00780466.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae 18RS21] gi|77412562|ref|ZP_00788854.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae CJB111] gi|77414960|ref|ZP_00791053.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae 515] gi|41688699|sp|Q8CX32|RPOA_STRA3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41688702|sp|Q8E2B1|RPOA_STRA5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|22533090|gb|AAM98992.1|AE014195_11 DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae 2603V/R] gi|23094510|emb|CAD45729.1| RNA polymerase (alpha subunit) [Streptococcus agalactiae NEM316] gi|76586425|gb|EAO62933.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae 18RS21] gi|77158989|gb|EAO70207.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae 515] gi|77161385|gb|EAO72404.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae CJB111] gi|319743969|gb|EFV96349.1| DNA-directed RNA polymerase subunit alpha [Streptococcus agalactiae ATCC 13813] Length = 312 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 IKLADLGLGLKND 311 >gi|171778401|ref|ZP_02919580.1| hypothetical protein STRINF_00431 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] gi|171282932|gb|EDT48356.1| hypothetical protein STRINF_00431 [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 312 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T +D+E+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKAIMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|332077536|gb|EGI87997.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA41301] Length = 311 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E + + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIARSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|329314907|gb|AEB89320.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus T0131] Length = 314 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I R G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTCVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+++ N GRKSL E+K Sbjct: 241 EEDQKEKVLEMSIEELDLSVRSYNCLKRAGINSVQELADKSEADMMKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 YKLEDLGLGL 310 >gi|227431316|ref|ZP_03913369.1| DNA-directed RNA polymerase, alpha subunit [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] gi|227352909|gb|EEJ43082.1| DNA-directed RNA polymerase, alpha subunit [Leuconostoc mesenteroides subsp. cremoris ATCC 19254] Length = 314 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 129/312 (41%), Positives = 191/312 (61%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EV Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIESDDERSLEIDIQGPADVTAADLQGGADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ E + Sbjct: 179 QVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDISPVAAEASVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EAEPVAASESDSAPIEDLDLSVRSYNCLKRAGINTILELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L M L Sbjct: 299 IQEKLTDMNLGF 310 >gi|302336353|ref|YP_003801560.1| DNA-directed RNA polymerase subunit alpha [Olsenella uli DSM 7084] gi|301320193|gb|ADK68680.1| DNA-directed RNA polymerase subunit alpha [Olsenella uli DSM 7084] Length = 313 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 127/314 (40%), Positives = 194/314 (61%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + + EN + AEPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPQ----VSVEEISENLARVSAEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 GV HE ++++GV+ED+TDI+LN+KG+ + G + +I GP VT GD + + Sbjct: 58 GVQHEFTTVEGVYEDVTDIVLNVKGLVFRSMGTGDEATASISIDGPCTVTGGDFKVPAEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D VIC L A + M++ + G GYV + + DPIG+I +D+LYSP+++ + Sbjct: 118 ELVNEDQVICTLGEGAHLSMQMRIGTGRGYVAGDDNERDGDPIGIIHVDSLYSPVRRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ +YD+L + ++TDGSIT D+V A+ I+ + F+ + ++ V++ Sbjct: 178 AVEPCRVGQHTNYDRLVLEVETDGSITPRDAVVDAANIVNQHMSAFMALADEEEPVEDAS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS+ Sbjct: 238 IFATGVEEDNTELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L TMGL L Sbjct: 298 EEVKDKLETMGLGL 311 >gi|260549815|ref|ZP_05824031.1| RNA polymerase alpha subunit [Acinetobacter sp. RUH2624] gi|260407065|gb|EEX00542.1| RNA polymerase alpha subunit [Acinetobacter sp. RUH2624] Length = 335 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NPDH+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPDHLIGTLSASGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|15674313|ref|NP_268486.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes M1 GAS] gi|19745267|ref|NP_606403.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS8232] gi|50913465|ref|YP_059437.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS10394] gi|71902735|ref|YP_279538.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS6180] gi|71909884|ref|YP_281434.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS5005] gi|94987701|ref|YP_595802.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS9429] gi|94989582|ref|YP_597682.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS10270] gi|94991570|ref|YP_599669.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS2096] gi|94993470|ref|YP_601568.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS10750] gi|139472953|ref|YP_001127668.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes str. Manfredo] gi|209558653|ref|YP_002285125.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes NZ131] gi|306828235|ref|ZP_07461495.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes ATCC 10782] gi|54039279|sp|P66711|RPOA_STRP8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042189|sp|P66710|RPOA_STRP1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215821|sp|Q5XEA9|RPOA_STRP6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110873|sp|Q48VS3|RPOA_STRPM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366735|sp|Q1JE33|RPOA_STRPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366736|sp|Q1JNZ1|RPOA_STRPC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366737|sp|Q1JJ35|RPOA_STRPD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366738|sp|Q1J8Y7|RPOA_STRPF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158512769|sp|A2RC40|RPOA_STRPG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|13621394|gb|AAK33208.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pyogenes M1 GAS] gi|19747362|gb|AAL96902.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pyogenes MGAS8232] gi|50902539|gb|AAT86254.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS10394] gi|71801830|gb|AAX71183.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS6180] gi|71852666|gb|AAZ50689.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS5005] gi|94541209|gb|ABF31258.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS9429] gi|94543090|gb|ABF33138.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS10270] gi|94545078|gb|ABF35125.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS2096] gi|94546978|gb|ABF37024.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes MGAS10750] gi|134271199|emb|CAM29412.1| DNA-directed RNA polymerase alpha chain [Streptococcus pyogenes str. Manfredo] gi|209539854|gb|ACI60430.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pyogenes NZ131] gi|304429546|gb|EFM32595.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes ATCC 10782] Length = 312 Score = 335 bits (859), Expect = 6e-90, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|190341453|gb|ACE74803.1| RpoA [Cronobacter sakazakii] Length = 308 Score = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I YMGDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYMGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|179184384|gb|ACB78145.1| RNA polymerase alpha subunit [Aliivibrio finisterrensis] gi|179184823|gb|ACB78161.1| RNA polymerase alpha subunit [Aliivibrio finisterrensis] Length = 313 Score = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 140/319 (43%), Positives = 208/319 (65%), Gaps = 10/319 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVD---IEQVSMTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHD 117 Query: 123 NDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYS 178 D+E+ NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YS Sbjct: 118 GDVEIANPEHVICHLTDDNAEISMRIRVERGRGYVPSTARIHTEEDERPIGRLLIDATYS 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ K+SY+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 PVDKISYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVR 237 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 GKKSLTEIKDVLASRGLSL 313 >gi|15900172|ref|NP_344776.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae TIGR4] gi|15902259|ref|NP_357809.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae R6] gi|111658776|ref|ZP_01409407.1| hypothetical protein SpneT_02000073 [Streptococcus pneumoniae TIGR4] gi|116516293|ref|YP_815737.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae D39] gi|148983635|ref|ZP_01816954.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP3-BS71] gi|148987973|ref|ZP_01819436.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP6-BS73] gi|148992813|ref|ZP_01822456.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP9-BS68] gi|148996658|ref|ZP_01824376.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP11-BS70] gi|149001657|ref|ZP_01826630.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae SP14-BS69] gi|149005987|ref|ZP_01829716.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP18-BS74] gi|149011106|ref|ZP_01832411.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP19-BS75] gi|149017926|ref|ZP_01834385.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP23-BS72] gi|168483873|ref|ZP_02708825.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC1873-00] gi|168485997|ref|ZP_02710505.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC1087-00] gi|168489713|ref|ZP_02713912.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae SP195] gi|168492190|ref|ZP_02716333.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC0288-04] gi|168493930|ref|ZP_02718073.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC3059-06] gi|168576337|ref|ZP_02722220.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae MLV-016] gi|169834017|ref|YP_001693767.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae Hungary19A-6] gi|182683213|ref|YP_001834960.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae CGSP14] gi|194396717|ref|YP_002036935.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae G54] gi|221231138|ref|YP_002510290.1| DNA-directed RNA polymerase alpha chain [Streptococcus pneumoniae ATCC 700669] gi|225853841|ref|YP_002735353.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae JJA] gi|225856000|ref|YP_002737511.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae P1031] gi|225858089|ref|YP_002739599.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae 70585] gi|225860277|ref|YP_002741786.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae Taiwan19F-14] gi|289168706|ref|YP_003446975.1| DNA-dependent RNA polymerase, alpha subunit [Streptococcus mitis B6] gi|298230392|ref|ZP_06964073.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae str. Canada MDR_19F] gi|298256013|ref|ZP_06979599.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae str. Canada MDR_19A] gi|298502049|ref|YP_003723989.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae TCH8431/19A] gi|303255069|ref|ZP_07341145.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae BS455] gi|303259287|ref|ZP_07345265.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae SP-BS293] gi|303261042|ref|ZP_07346991.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae SP14-BS292] gi|303263370|ref|ZP_07349293.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS397] gi|303265535|ref|ZP_07351435.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS457] gi|303267907|ref|ZP_07353709.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS458] gi|307066913|ref|YP_003875879.1| DNA-directed RNA polymerase subunit alpha/40 kD subunit [Streptococcus pneumoniae AP200] gi|307126454|ref|YP_003878485.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae 670-6B] gi|307704090|ref|ZP_07641019.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK597] gi|307708085|ref|ZP_07644553.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis NCTC 12261] gi|307709936|ref|ZP_07646383.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK564] gi|307711030|ref|ZP_07647452.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK321] gi|54039278|sp|P66709|RPOA_STRR6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|54042188|sp|P66708|RPOA_STRPN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122279377|sp|Q04ML1|RPOA_STRP2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|14971705|gb|AAK74416.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae TIGR4] gi|15457760|gb|AAK99019.1| RNA polymerase alpha subunit [Streptococcus pneumoniae R6] gi|116076869|gb|ABJ54589.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae D39] gi|147757233|gb|EDK64272.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP11-BS70] gi|147760115|gb|EDK67104.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae SP14-BS69] gi|147762343|gb|EDK69304.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP18-BS74] gi|147764742|gb|EDK71672.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP19-BS75] gi|147923782|gb|EDK74894.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP3-BS71] gi|147926437|gb|EDK77510.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP6-BS73] gi|147928539|gb|EDK79554.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP9-BS68] gi|147931490|gb|EDK82468.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae SP23-BS72] gi|168996519|gb|ACA37131.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae Hungary19A-6] gi|172042844|gb|EDT50890.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC1873-00] gi|182628547|gb|ACB89495.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae CGSP14] gi|183570913|gb|EDT91441.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC1087-00] gi|183571834|gb|EDT92362.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae SP195] gi|183573577|gb|EDT94105.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC0288-04] gi|183576079|gb|EDT96607.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae CDC3059-06] gi|183577825|gb|EDT98353.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae MLV-016] gi|194356384|gb|ACF54832.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae G54] gi|220673598|emb|CAR68084.1| DNA-directed RNA polymerase alpha chain [Streptococcus pneumoniae ATCC 700669] gi|225720212|gb|ACO16066.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae 70585] gi|225723399|gb|ACO19252.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae JJA] gi|225725259|gb|ACO21111.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae P1031] gi|225726707|gb|ACO22558.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae Taiwan19F-14] gi|288908273|emb|CBJ23115.1| DNA-dependent RNA polymerase, alpha subunit [Streptococcus mitis B6] gi|298237644|gb|ADI68775.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae TCH8431/19A] gi|301793507|emb|CBW35880.1| DNA-directed RNA polymerase alpha chain [Streptococcus pneumoniae INV104] gi|301799383|emb|CBW31918.1| DNA-directed RNA polymerase alpha chain [Streptococcus pneumoniae OXC141] gi|301801178|emb|CBW33851.1| DNA-directed RNA polymerase alpha chain [Streptococcus pneumoniae INV200] gi|302597899|gb|EFL64969.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae BS455] gi|302637879|gb|EFL68365.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae SP14-BS292] gi|302639705|gb|EFL70162.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae SP-BS293] gi|302642603|gb|EFL72948.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS458] gi|302644975|gb|EFL75222.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS457] gi|302647143|gb|EFL77367.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pneumoniae BS397] gi|306408450|gb|ADM83877.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus pneumoniae AP200] gi|306483516|gb|ADM90385.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae 670-6B] gi|307615870|gb|EFN95075.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis NCTC 12261] gi|307616992|gb|EFN96170.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK321] gi|307619307|gb|EFN98436.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK564] gi|307622380|gb|EFO01388.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus mitis SK597] gi|327390653|gb|EGE88993.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA04375] gi|332075900|gb|EGI86367.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA17570] gi|332076680|gb|EGI87142.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus pneumoniae GA17545] Length = 311 Score = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|302388059|ref|YP_003823881.1| DNA-directed RNA polymerase, alpha subunit [Clostridium saccharolyticum WM1] gi|302198687|gb|ADL06258.1| DNA-directed RNA polymerase, alpha subunit [Clostridium saccharolyticum WM1] Length = 322 Score = 335 bits (859), Expect = 7e-90, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 208/315 (66%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKPN-IEIAEI-SEDKKYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK +++K + D++ K I G GV+TA DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKSLSIKNNSDTNEAKVAYIEFEGEGVITAADIQADPDI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L D+ MELT++KG GYV A +++E+ PIG+I +D++Y+P+++V Sbjct: 121 EIMNPEQVIATLSGGTDSKFYMELTITKGRGYVSADKNKSEDLPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQV DYDKL++ + T+G+ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMTVENTRVGQVTDYDKLTLDVFTNGTSAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 301 EEVLAKLKELGLQLN 315 >gi|21909602|ref|NP_663870.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes MGAS315] gi|28894980|ref|NP_801330.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pyogenes SSI-1] gi|25009138|sp|Q8K8W9|RPOA_STRP3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21903783|gb|AAM78673.1| DNA-directed RNA polymerase alpha subunit [Streptococcus pyogenes MGAS315] gi|28810225|dbj|BAC63163.1| putative DNA-directed RNA polymerase, alpha subunit [Streptococcus pyogenes SSI-1] Length = 312 Score = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKSTEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|259500918|ref|ZP_05743820.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus iners DSM 13335] gi|302190629|ref|ZP_07266883.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus iners AB-1] gi|309803637|ref|ZP_07697727.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 11V1-d] gi|309804964|ref|ZP_07699022.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 09V1-c] gi|309806715|ref|ZP_07700710.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 03V1-b] gi|309808436|ref|ZP_07702335.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 01V1-a] gi|309809144|ref|ZP_07703017.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners SPIN 2503V10-D] gi|312871172|ref|ZP_07731270.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 3008A-a] gi|312872807|ref|ZP_07732872.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2062A-h1] gi|312874040|ref|ZP_07734075.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2052A-d] gi|312874841|ref|ZP_07734860.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2053A-b] gi|315654000|ref|ZP_07906916.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus iners ATCC 55195] gi|325913233|ref|ZP_08175602.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners UPII 60-B] gi|329920643|ref|ZP_08277330.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners SPIN 1401G] gi|259167612|gb|EEW52107.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus iners DSM 13335] gi|308164235|gb|EFO66492.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 11V1-d] gi|308165724|gb|EFO67949.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 09V1-c] gi|308166895|gb|EFO69079.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 03V1-b] gi|308168264|gb|EFO70383.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LactinV 01V1-a] gi|308170589|gb|EFO72609.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners SPIN 2503V10-D] gi|311089586|gb|EFQ48011.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2053A-b] gi|311090380|gb|EFQ48789.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2052A-d] gi|311091849|gb|EFQ50228.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 2062A-h1] gi|311093186|gb|EFQ51532.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners LEAF 3008A-a] gi|315488696|gb|EFU78342.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus iners ATCC 55195] gi|325477497|gb|EGC80640.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners UPII 60-B] gi|328935901|gb|EGG32361.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners SPIN 1401G] Length = 312 Score = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE+ + EPL RGF TLGN+LRRVL++S+ G A++ + IDG Sbjct: 3 EFEKPN----ITVIDQEESYGKFVVEPLERGFGTTLGNSLRRVLLTSISGTALSYIMIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + LK+ D K V I GP VVTA D++ D+E+ Sbjct: 59 VLHEFSTIPGVREDVTKIILNLKKLELKLLVDEEKMVEIDVEGPAVVTAADLKVDADVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + + G GY+PA +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMSIAIKNGRGYIPASENKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+AR G+ DYDKL++ + TDGSIT D+++ A++IL++ +F++ + + I Sbjct: 179 ENARVGKRDDYDKLTLELWTDGSITPNDALSFAAKILEEHFKVFMSADMSDQFANVMIEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDKSNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELNNKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL Sbjct: 299 NKLTELGLSF 308 >gi|251781544|ref|YP_002995845.1| DNA-directed RNA polymerase subunit alpha [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|242390172|dbj|BAH80631.1| DNA-directed RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis GGS_124] gi|322410884|gb|EFY01792.1| DNA-directed RNA polymerase subunit alpha [Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957] Length = 312 Score = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|229815743|ref|ZP_04446068.1| hypothetical protein COLINT_02792 [Collinsella intestinalis DSM 13280] gi|229808659|gb|EEP44436.1| hypothetical protein COLINT_02792 [Collinsella intestinalis DSM 13280] Length = 313 Score = 335 bits (858), Expect = 8e-90, Method: Composition-based stats. Identities = 119/314 (37%), Positives = 188/314 (59%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + + + + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPQ----VHVEEISDTAARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 G HE ++I + ED+TDI+LN+KG+ + G + + TI GP VT D ++ Sbjct: 58 GAQHEFTTIPNMVEDVTDIVLNVKGLVFRTLGTTDEGTATISVDGPCEVTGADFFIPSEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NPD I L + M + + G GYV + ++ +NDPIG+I +D+L+SP+K+ + Sbjct: 118 ELVNPDQHIATLTEGGHLTMSMRIGYGRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ DYD+L + I+T+G+I+ D+V A+ I+ + F+ + + +E Sbjct: 178 LVEACRVGQHTDYDRLVLEIETNGAISPRDAVVSAANIINQHMAAFMTLADEPEAEEEVS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS+ Sbjct: 238 IFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L +MGL L Sbjct: 298 EEVKDKLESMGLSL 311 >gi|322386328|ref|ZP_08059958.1| DNA-directed RNA polymerase subunit alpha [Streptococcus cristatus ATCC 51100] gi|321269552|gb|EFX52482.1| DNA-directed RNA polymerase subunit alpha [Streptococcus cristatus ATCC 51100] Length = 312 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 129/310 (41%), Positives = 194/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E +N + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKNYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVAISTDVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKSSDDRILERTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLADLGLGL 308 >gi|257784935|ref|YP_003180152.1| DNA-directed RNA polymerase, alpha subunit [Atopobium parvulum DSM 20469] gi|257473442|gb|ACV51561.1| DNA-directed RNA polymerase, alpha subunit [Atopobium parvulum DSM 20469] Length = 313 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 120/314 (38%), Positives = 190/314 (60%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+PN + + + N + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPN----VSVDEIGANVARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 GV HE ++++GV+ED+TDI+LN+KG+ + + +S + +I GP VT D+ Sbjct: 58 GVQHEFTTVEGVYEDVTDIVLNVKGLVFRNTNNSDEAEASISVDGPCTVTGADLDVPMGY 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NP IC L A + M L + G GYV + + ENDPIG I +D+++SP+++ + Sbjct: 118 ELVNPAQHICALAEGAHLSMRLRIGNGRGYVSGEDNERENDPIGFIHVDSIFSPVRRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R G+ DYD+L + ++T+G+I+ ++V A+ I+ + F+ + + +E Sbjct: 178 AVEPCRVGRHTDYDRLVLEVETNGAISPREAVVEAANIINQHMSAFMGLTDFDETQEEAS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+VE+L+LSVRS NCL+ I + L+ +E D+L + NFG KS+ Sbjct: 238 IFAKADVEDDSELEKQVEDLDLSVRSYNCLKRAGIHSVRQLVDFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L +MGL L Sbjct: 298 EEVKEKLESMGLSL 311 >gi|322377205|ref|ZP_08051697.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. M334] gi|321281918|gb|EFX58926.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. M334] Length = 311 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 132/313 (42%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 FKLIDLGLGLKDK 311 >gi|291280121|ref|YP_003496956.1| DNA-directed RNA polymerase subunit alpha [Deferribacter desulfuricans SSM1] gi|290754823|dbj|BAI81200.1| DNA-directed RNA polymerase, alpha subunit [Deferribacter desulfuricans SSM1] Length = 338 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 150/324 (46%), Positives = 217/324 (66%), Gaps = 4/324 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ ++++++KP IE +G+ + + EP RGF T+GN+LRRVL+S++ G A+ Sbjct: 1 MVLMDFRKVMKPKKIE--QIGEATDRYAKFVIEPYERGFGITIGNSLRRVLLSTIEGTAV 58 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 V+IDGV HE +I GV ED+ DIILNIK + L + + KRV I K+G G +TA DIQ Sbjct: 59 VGVKIDGVHHEYDTINGVLEDVVDIILNIKQLELNLLEHTLKRVYIHKKGEGRITANDIQ 118 Query: 121 TVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + + VLNPD I + + + V MEL V +G GYVP++ + + D I +I +DA+Y+P Sbjct: 119 SDGSVVVLNPDQHIATITNPETEVYMELYVERGIGYVPSEEIKDKFDDIDVIPVDAIYTP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IKKV+Y VE+AR GQ DYDKL ++TDGSI D++A A++I++DQ+ FINF+EP Sbjct: 179 IKKVNYVVENARVGQSTDYDKLIFELETDGSIKPVDAIAFAAKIIKDQMEFFINFDEPVY 238 Query: 240 EVKEDINVKSLPFNPALL-KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E E+ + + LL K +EELELSVR+ NCL+ NI + DL ++T+A++L+ NF Sbjct: 239 EEVEEEEKEDNSYILELLDKSIEELELSVRAYNCLKNANIKTLADLCEKTDAELLKTKNF 298 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLP 322 GR+SL EIK VL +GL LGM+L Sbjct: 299 GRRSLEEIKKVLAELGLSLGMDLE 322 >gi|262280200|ref|ZP_06057984.1| RNA polymerase [Acinetobacter calcoaceticus RUH2202] gi|299768691|ref|YP_003730717.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. DR1] gi|262257978|gb|EEY76712.1| RNA polymerase [Acinetobacter calcoaceticus RUH2202] gi|298698779|gb|ADI89344.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. DR1] Length = 335 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGEITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|251772518|gb|EES53084.1| DNA-directed RNA polymerase, alpha subunit [Leptospirillum ferrodiazotrophum] Length = 322 Score = 335 bits (858), Expect = 9e-90, Method: Composition-based stats. Identities = 132/316 (41%), Positives = 193/316 (61%), Gaps = 5/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P + + + ++ EP RGF T+GNALRRVL+SS+ G AITA++ V Sbjct: 8 QMPKGL---AVSHSSARSSRVVVEPFERGFGITVGNALRRVLLSSIPGVAITAIRAKNVF 64 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I GV ED+TDIILN+K + +K + + +GP +V A DI TV +E+++ Sbjct: 65 HEFSNIPGVVEDVTDIILNLKSLRMKPLLQGEHWLHLKVKGPRIVKASDIDTVGAVEMMD 124 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PDHVI LD + M+L G GYVPA H R+ +G+I IDA+++PI KV+Y VES Sbjct: 125 PDHVIATLDEGGHLDMDLKTEFGRGYVPADHSRSTETEVGIIPIDAIFTPINKVNYFVES 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--KKEVKEDINV 247 R G++ DYD+L I+TDGSIT ++++ A++IL+ L +F++ + + Sbjct: 185 TRVGRITDYDRLIFEIETDGSITPGEALSEAAKILRTHLDLFVSSDLHLANDSSPLSLES 244 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S + K V ELELSVR+ NCL+ +I +G+L+ RTE ++L+ NFG+KSL EIK Sbjct: 245 NSSKEETIMDKSVNELELSVRAANCLKSSDIKKIGELVIRTEDELLQTKNFGKKSLDEIK 304 Query: 308 GVLGTMGLFLGMNLPD 323 L +GL LGM+L Sbjct: 305 EALENIGLSLGMDLSK 320 >gi|76787566|ref|YP_328809.1| DNA-directed RNA polymerase subunit alpha [Streptococcus agalactiae A909] gi|90110872|sp|Q3K3U4|RPOA_STRA1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|76562623|gb|ABA45207.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae A909] Length = 312 Score = 334 bits (857), Expect = 9e-90, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDVPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 IKLADLGLGLKND 311 >gi|325912373|ref|ZP_08174769.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners UPII 143-D] gi|325475844|gb|EGC79014.1| DNA-directed RNA polymerase, alpha subunit [Lactobacillus iners UPII 143-D] Length = 312 Score = 334 bits (857), Expect = 9e-90, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 200/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I + +EE+ + EPL RGF TLGN+LRRVL++S+ G A++ + IDG Sbjct: 3 EFEKPN----ITVIDQEESYGKFVVEPLERGFGTTLGNSLRRVLLTSISGTALSYIMIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T IILN+K + LK+ D K V I GP VVTA D++ D+E+ Sbjct: 59 VLHEFSTIPGVREDVTKIILNLKKLELKLLVDEEKMVEIDVEGPAVVTAADLKVDADVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNPD IC + + M + + G GY+PA +++++ PIG+I +D+L+SPIKKV+Y V Sbjct: 119 LNPDQYICTIAEGGHLHMSIAIKSGRGYIPASENKSDDMPIGVIPVDSLFSPIKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+AR G+ DYDKL++ + TDGSIT D+++ A++IL++ +F++ + + I Sbjct: 179 ENARVGKRDDYDKLTLELWTDGSITPNDALSFAAKILEEHFKVFMSADMSDQFANVMIEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++EADM+R+ N GRKSL E+K Sbjct: 239 EDKSNEKKLEMTIEELDLSVRSYNCLKRAGINTVQELNNKSEADMMRVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL Sbjct: 299 NKLTELGLSF 308 >gi|90194008|gb|ABD92565.1| RpoA [Bibersteinia trehalosi] Length = 302 Score = 334 bits (857), Expect = 9e-90, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITADADVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASISMRIRVQRGRGYVPASARVHSQHEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|322388376|ref|ZP_08061979.1| DNA-directed RNA polymerase subunit alpha [Streptococcus infantis ATCC 700779] gi|321140689|gb|EFX36191.1| DNA-directed RNA polymerase subunit alpha [Streptococcus infantis ATCC 700779] Length = 311 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGIAVKSYVKDEKTIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGASFKATMTVNTGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|195977234|ref|YP_002122478.1| DNA-directed RNA polymerase subunit alpha [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|225867691|ref|YP_002743639.1| DNA-directed RNA polymerase alpha chain [Streptococcus equi subsp. zooepidemicus] gi|225869562|ref|YP_002745509.1| DNA-directed RNA polymerase alpha chain [Streptococcus equi subsp. equi 4047] gi|195973939|gb|ACG61465.1| DNA-directed RNA polymerase alpha chain [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|225698966|emb|CAW92015.1| DNA-directed RNA polymerase alpha chain [Streptococcus equi subsp. equi 4047] gi|225700967|emb|CAW97690.1| DNA-directed RNA polymerase alpha chain [Streptococcus equi subsp. zooepidemicus] Length = 312 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 200/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIRIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGYTLKASMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|225387210|ref|ZP_03756974.1| hypothetical protein CLOSTASPAR_00962 [Clostridium asparagiforme DSM 15981] gi|225046689|gb|EEG56935.1| hypothetical protein CLOSTASPAR_00962 [Clostridium asparagiforme DSM 15981] Length = 330 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 202/315 (64%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 13 DFEKPN-IEIAEI-SEDKRYGKFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 70 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D K I G GV+TA DIQ DI Sbjct: 71 VLHEFSSIAGVKEDVTEIIMNIKSLAIKNNSDTDEPKVAYIEFEGEGVITAADIQADADI 130 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD +I L D+ MELT++KG GYV A ++ ++ PIG+I +D++Y+P+++V Sbjct: 131 EIMNPDQIIATLSGGTDSKFYMELTITKGRGYVSADKNKNDDLPIGVIAVDSIYTPVERV 190 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V + R GQ DYDKL++ I T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 191 NMAVANTRVGQQTDYDKLTLEIYTNGTLAPDEAVSLAAKVLSEHLNLFIDLSENAKTAEI 250 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 251 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 310 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 311 EEVLAKLKELGLQLN 325 >gi|90194052|gb|ABD92587.1| RpoA [Mannheimia glucosida] Length = 304 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 135/305 (44%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|225020484|ref|ZP_03709676.1| hypothetical protein CORMATOL_00491 [Corynebacterium matruchotii ATCC 33806] gi|305679751|ref|ZP_07402561.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium matruchotii ATCC 14266] gi|224946873|gb|EEG28082.1| hypothetical protein CORMATOL_00491 [Corynebacterium matruchotii ATCC 33806] gi|305660371|gb|EFM49868.1| DNA-directed RNA polymerase, alpha subunit [Corynebacterium matruchotii ATCC 14266] Length = 341 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 120/318 (37%), Positives = 186/318 (58%), Gaps = 3/318 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +R+ + EPL GF +TLGN+LRR L+SS+ GAA+T+V+IDGVLHE ++I GV ED++ Sbjct: 15 DNSRSRFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSVKIDGVLHEFTTITGVKEDVS 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 DI+LNIKG+ + D + + G G VTAG I+ +E+ NPD I L+ + Sbjct: 75 DILLNIKGLAISSDSDEPVVMYLRAEGAGEVTAGTIEPPAGVEIHNPDLHIATLNDQGRL 134 Query: 144 RMELTVSKGHGYVP---AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 +E+ V +G GYVP + + IG I +D +YSP+ KVSY VE+ R Q D+DK Sbjct: 135 EIEMVVERGRGYVPVSSSTTTNSGTTEIGRIQVDQIYSPVLKVSYNVEATRVEQRTDFDK 194 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ ++T SI+ ++ A A + L + G+ + ++ + + A + Sbjct: 195 LTIDVETKNSISPRNAFASAGKTLVELFGLARELNVSAEGIEVGPSPQETEHIAAYGMPI 254 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 EEL SVRS NCL+ + I +G+L + TE+D+L + NFG+KS+ E+K L +GL L Sbjct: 255 EELRFSVRSYNCLKRQEIHTVGELAECTESDLLDIRNFGQKSINEVKIKLAGLGLTLKDA 314 Query: 321 LPDWPPESIEELAKKYED 338 D+ P +E + D Sbjct: 315 PEDFDPTQLEGYDAETGD 332 >gi|163816005|ref|ZP_02207375.1| hypothetical protein COPEUT_02185 [Coprococcus eutactus ATCC 27759] gi|158448815|gb|EDP25810.1| hypothetical protein COPEUT_02185 [Coprococcus eutactus ATCC 27759] Length = 318 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 131/316 (41%), Positives = 200/316 (63%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE + + + + EPL RG+ TLGN+LRR+++SSL G A++ V+I G Sbjct: 3 EFEKP-KIEIVETSDDNK-YGKFVIEPLERGYGITLGNSLRRIMLSSLPGTAVSHVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D K+ I G VV AGDI+ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNVVIKNNSDTFEPKQAYIDVVGERVVKAGDIKVDGDI 120 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD VI NL DA + MELT++ G GYV ++ + PI +I ID++++P+++V+ Sbjct: 121 EIVNPDLVIANLSGPDAKLEMELTIANGRGYVSLDKNKEADAPIDVIAIDSIFTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 TV++ R GQV DYDKL++ + T+G++ +++V+LA+ +L + L +F++ E + V Sbjct: 181 LTVQNTRVGQVTDYDKLTLDVYTNGALAPDEAVSLAANLLVEHLKLFVDLSENARLVDVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +LI +T DM+++ N GRKSL Sbjct: 241 VESTTDEKEKVLEMNIDELELSVRSYNCLKRAGINTVQELINKTPEDMMKVRNLGRKSLD 300 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L +GL L N Sbjct: 301 EVLAKLKELGLALNQN 316 >gi|237649697|ref|ZP_04523949.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae CCRI 1974] gi|237821395|ref|ZP_04597240.1| DNA-directed RNA polymerase subunit alpha [Streptococcus pneumoniae CCRI 1974M2] Length = 311 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + G VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGLAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|295093661|emb|CBK82752.1| DNA-directed RNA polymerase subunit alpha [Coprococcus sp. ART55/1] Length = 318 Score = 334 bits (857), Expect = 1e-89, Method: Composition-based stats. Identities = 131/316 (41%), Positives = 199/316 (62%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE + + + + EPL RG+ TLGN+LRR+++SSL G A++ V+I G Sbjct: 3 EFEKP-KIEIVETSDDNK-YGKFVIEPLERGYGITLGNSLRRIMLSSLPGTAVSHVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+NIK + +K + D K+ I G VV AGDI+ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNIKNVVIKNNSDTFEPKQAYIDVVGERVVKAGDIKVDGDI 120 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E++NPD VI NL DA + MELT+ G GYV ++ + PI +I ID++++P+++V+ Sbjct: 121 EIVNPDLVIANLSGPDAKLEMELTIVNGRGYVSLDKNKEADAPIDVIAIDSIFTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 TV++ R GQV DYDKL++ + T+G++ +++V+LA+ +L + L +F++ E + V Sbjct: 181 LTVQNTRVGQVTDYDKLTLDVYTNGALAPDEAVSLAANLLVEHLKLFVDLSENARLVDVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +LI +T DM+++ N GRKSL Sbjct: 241 VESTTDEKEKVLEMNIDELELSVRSYNCLKRAGINTVQELINKTPEDMMKVRNLGRKSLD 300 Query: 305 EIKGVLGTMGLFLGMN 320 E+ L +GL L N Sbjct: 301 EVLAKLKELGLSLNQN 316 >gi|322391224|ref|ZP_08064696.1| DNA-directed RNA polymerase subunit alpha [Streptococcus peroris ATCC 700780] gi|321145977|gb|EFX41366.1| DNA-directed RNA polymerase subunit alpha [Streptococcus peroris ATCC 700780] Length = 311 Score = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 134/313 (42%), Positives = 197/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGIAVKSYVKDEKTIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGASFKATMTVNTGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|262377287|ref|ZP_06070511.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter lwoffii SH145] gi|262307740|gb|EEY88879.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter lwoffii SH145] Length = 335 Score = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 220/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P + I + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTP---QAIKVEAASGTSAKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+G G VTA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGAGDVTAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLIIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|90194004|gb|ABD92563.1| RpoA [Lonepinella koalarum] Length = 302 Score = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 138/305 (45%), Positives = 204/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS + Sbjct: 1 LVDIEQISPTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A V M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDENASVNMRIRVQRGRGYVPASARVHTQDEERPIGRLLVDACYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|222152291|ref|YP_002561466.1| DNA-directed RNA polymerase subunit alpha [Streptococcus uberis 0140J] gi|222113102|emb|CAR40486.1| DNA-directed RNA polymerase alpha chain [Streptococcus uberis 0140J] Length = 312 Score = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++ DG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKFDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKMIELEVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|293364322|ref|ZP_06611048.1| DNA-directed RNA polymerase subunit alpha [Streptococcus oralis ATCC 35037] gi|291317168|gb|EFE57595.1| DNA-directed RNA polymerase subunit alpha [Streptococcus oralis ATCC 35037] Length = 311 Score = 334 bits (856), Expect = 1e-89, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|307244752|ref|ZP_07526853.1| DNA-directed RNA polymerase, alpha subunit [Peptostreptococcus stomatis DSM 17678] gi|306491850|gb|EFM63902.1| DNA-directed RNA polymerase, alpha subunit [Peptostreptococcus stomatis DSM 17678] Length = 315 Score = 334 bits (856), Expect = 2e-89, Method: Composition-based stats. Identities = 124/310 (40%), Positives = 200/310 (64%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RGF T+GNALRR+L+SSL G A+ AV+IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRYGKFVVEPLERGFGITIGNALRRILLSSLPGVAVYAVRIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T++IL++K ++ + G+ K + I GP VT DI ++E+ Sbjct: 61 VLHEFSTVPGVKEDVTEMILSLKELSATIDGEESKVLKIQAVGPCEVTGADIICPPEVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ D I LD +A + ME+ V+KG GYV A+ ++ ++ PIG + +D++Y+PI+KVSY V Sbjct: 121 VSKDLHIATLDENAKLNMEIHVNKGRGYVSAEENKNDSMPIGTLPVDSIYTPIEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSI ++ ++LA+++L++ L +FI+ E V+ + Sbjct: 181 ENTRVGQKTDFDKLTLEVLTNGSINPQEGMSLAAKVLEEHLKLFIDLSEHIGNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELSNKSEEDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 QKLNELDLKL 310 >gi|164608442|gb|ABY62524.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. MdR7] gi|164608444|gb|ABY62525.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. SA5] gi|164608446|gb|ABY62526.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. SA6] Length = 308 Score = 334 bits (856), Expect = 2e-89, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSQTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L +A + M + V +G GYVP+ H + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDGNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|90194046|gb|ABD92584.1| RpoA [Actinobacillus indolicus] Length = 303 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICN Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICN 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|329116068|ref|ZP_08244785.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus parauberis NCFD 2020] gi|326906473|gb|EGE53387.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus parauberis NCFD 2020] Length = 312 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + ++ +TV+K GY+PA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLKATMTVAKKRGYIPAEGNKQDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKTTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKILDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|90194006|gb|ABD92564.1| RpoA [Mannheimia haemolytica] Length = 302 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 135/305 (44%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|190341335|gb|ACE74744.1| RpoA [Enterobacter helveticus] Length = 307 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 137/313 (43%), Positives = 207/313 (66%), Gaps = 10/313 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVL Sbjct: 1 LKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVL 57 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 HEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVK 117 Query: 130 PDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSY 185 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++Y Sbjct: 118 PQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAY 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ Sbjct: 178 NVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EV 234 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 235 KEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 294 Query: 306 IKGVLGTMGLFLG 318 IK VL + GL LG Sbjct: 295 IKDVLASRGLSLG 307 >gi|293610849|ref|ZP_06693149.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|292827193|gb|EFF85558.1| conserved hypothetical protein [Acinetobacter sp. SH024] gi|325123579|gb|ADY83102.1| RNA polymerase, alpha subunit [Acinetobacter calcoaceticus PHEA-2] Length = 335 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 139/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSLKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|225571582|ref|ZP_03780578.1| hypothetical protein CLOHYLEM_07680 [Clostridium hylemonae DSM 15053] gi|225159659|gb|EEG72278.1| hypothetical protein CLOHYLEM_07680 [Clostridium hylemonae DSM 15053] Length = 322 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 133/314 (42%), Positives = 204/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 6 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+I++N+K + +K + D K I G GVVTA DIQ DI Sbjct: 64 VLHEFSSIPGVKEDVTEIVMNLKSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDI 123 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ A + MELT++KG GYV A ++ + PI +I ID++Y+P+++V Sbjct: 124 EIMNPETVIATLNGGADSKLYMELTITKGRGYVSADKNKNDELPIAVIPIDSIYTPVERV 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 184 NLTVENTRVGQITDFDKLTLDVYTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEV 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 244 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTPEDMMKVRNLGRKSL 303 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 304 EEVLAKLDELGLCL 317 >gi|190341379|gb|ACE74766.1| RpoA [Escherichia vulneris] Length = 308 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 206/313 (65%), Gaps = 10/313 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDDVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFL 317 EIK VL + GL L Sbjct: 295 EIKDVLASRGLSL 307 >gi|164608420|gb|ABY62513.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio sp. ATCC 33715] gi|164608422|gb|ABY62514.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.1.1] gi|164608424|gb|ABY62515.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.1.2] gi|164608426|gb|ABY62516.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.1.3] gi|164608428|gb|ABY62517.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.1.4] gi|164608430|gb|ABY62518.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.1] gi|164608432|gb|ABY62519.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.2] gi|164608434|gb|ABY62520.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.3] gi|164608436|gb|ABY62521.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.4] gi|164608438|gb|ABY62522.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.5] gi|164608440|gb|ABY62523.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. cann.2.6] Length = 308 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSQTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|320548029|ref|ZP_08042309.1| DNA-directed RNA polymerase subunit alpha [Streptococcus equinus ATCC 9812] gi|320447271|gb|EFW88034.1| DNA-directed RNA polymerase subunit alpha [Streptococcus equinus ATCC 9812] Length = 312 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T +D+E+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNTDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|317501801|ref|ZP_07959987.1| DNA-directed RNA polymerase [Lachnospiraceae bacterium 8_1_57FAA] gi|331088678|ref|ZP_08337588.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 3_1_46FAA] gi|316896834|gb|EFV18919.1| DNA-directed RNA polymerase [Lachnospiraceae bacterium 8_1_57FAA] gi|330407201|gb|EGG86704.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 3_1_46FAA] Length = 320 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 133/316 (42%), Positives = 203/316 (64%), Gaps = 7/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI++V+IDG Sbjct: 3 DFNKPN-IEITDV-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISSVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVND 124 VLHE SSI GV ED+T+II+N+K + ++ D K V I G GVVT DI D Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKSLAIRNMSESDEPKTVYIEFEGEGVVTGADININDPD 120 Query: 125 IEVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NPD VI L D + MELT++KG GYV + ++TE+ PIG+I ID++Y+P+++ Sbjct: 121 IEIVNPDQVIATLSGGKDCRLNMELTITKGRGYVSSDKNKTEDMPIGVIAIDSIYTPVER 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+ TVE+ R GQ+ DYDKL++ + T G++ +++V+LA+++L + L +F++ E + + Sbjct: 181 VNLTVENTRVGQITDYDKLTLDVWTKGTMLPDEAVSLAAKVLSEHLKLFVDLSEVAQVAE 240 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKS Sbjct: 241 VMIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTPEDMMKVRNLGRKS 300 Query: 303 LVEIKGVLGTMGLFLG 318 L E+ L + L L Sbjct: 301 LEEVLAKLKELNLELN 316 >gi|58416108|emb|CAH57468.1| RNA polymerase alpha-subunit [Aliivibrio wodanis] gi|58416110|emb|CAH57469.1| RNA polymerase alpha-subunit [Aliivibrio wodanis] gi|148536422|gb|ABQ85763.1| RNA polymerase alpha-subunit [Aliivibrio wodanis] Length = 308 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 206/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSQTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|164608414|gb|ABY62510.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio wodanis] Length = 308 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 206/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSQTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHSEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|256825858|ref|YP_003149818.1| DNA-directed RNA polymerase subunit alpha [Kytococcus sedentarius DSM 20547] gi|256689251|gb|ACV07053.1| DNA-directed RNA polymerase subunit alpha [Kytococcus sedentarius DSM 20547] Length = 340 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 120/320 (37%), Positives = 186/320 (58%), Gaps = 4/320 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + E R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVL Sbjct: 5 QRPTLSE----EKVSEARSRFTIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T++ILNIK + D + K+G G +T DI +EV N Sbjct: 61 HEFSTVPGVKEDVTELILNIKSLVFSSEHDEPVVAYLRKQGSGEMTGADISCPAGVEVHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ + + +ELT+ +G GYV A+ ++ IG I +D++YSP+ V+Y VE+ Sbjct: 121 PDLYLGALNDEGAIDLELTIERGRGYVSAQQNKGGEQEIGRIPVDSIYSPVLSVTYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+DKL + ++T S++ D++A A + L + G+ + + ++ Sbjct: 181 TRVEQRTDFDKLIVDVETKNSMSPADAMASAGKTLVELFGLARDLNVEAEGIEMGTVQTD 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L VEEL LSVRS NCL+ E I +G+L+ R++AD+L + NFG KS+ E++ Sbjct: 241 ASLAADLALPVEELNLSVRSYNCLKREGIHTVGELVARSQADLLDIRNFGNKSIDEVQVE 300 Query: 310 LGTMGLFLGMNLPDWPPESI 329 L +GL L D+ P +I Sbjct: 301 LHKLGLALKDTPADFDPSTI 320 >gi|90194032|gb|ABD92577.1| RpoA [Actinobacillus lignieresii] Length = 302 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 139/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|179184358|gb|ACB78144.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 315 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 138/321 (42%), Positives = 207/321 (64%), Gaps = 11/321 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >gi|270292026|ref|ZP_06198241.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. M143] gi|306828808|ref|ZP_07462000.1| DNA-directed RNA polymerase subunit alpha [Streptococcus mitis ATCC 6249] gi|315612357|ref|ZP_07887270.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis ATCC 49296] gi|322375014|ref|ZP_08049528.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. C300] gi|331267109|ref|YP_004326739.1| DNA-dependent RNA polymerase, alpha subunit [Streptococcus oralis Uo5] gi|270279554|gb|EFA25396.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. M143] gi|304428986|gb|EFM32074.1| DNA-directed RNA polymerase subunit alpha [Streptococcus mitis ATCC 6249] gi|315315338|gb|EFU63377.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis ATCC 49296] gi|321280514|gb|EFX57553.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus sp. C300] gi|326683781|emb|CBZ01399.1| DNA-dependent RNA polymerase, alpha subunit [Streptococcus oralis Uo5] Length = 311 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 LKLIDLGLGLKDK 311 >gi|293375416|ref|ZP_06621697.1| DNA-directed RNA polymerase, alpha subunit [Turicibacter sanguinis PC909] gi|325844489|ref|ZP_08168216.1| DNA-directed RNA polymerase, alpha subunit [Turicibacter sp. HGF1] gi|292645969|gb|EFF63998.1| DNA-directed RNA polymerase, alpha subunit [Turicibacter sanguinis PC909] gi|325489163|gb|EGC91547.1| DNA-directed RNA polymerase, alpha subunit [Turicibacter sp. HGF1] Length = 314 Score = 333 bits (855), Expect = 2e-89, Method: Composition-based stats. Identities = 122/311 (39%), Positives = 188/311 (60%), Gaps = 2/311 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE ++E + EPL RG+ TLGN+LRRVL+SSL GAA+T++ I+G Sbjct: 3 EIEKPR-IEVEEYI-KDEFYGKFVIEPLKRGYGTTLGNSLRRVLLSSLPGAAVTSISIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+T IILN+K + L + + K + I G VTA DI+ ++ + Sbjct: 61 VQHEFTAIDGVVEDVTQIILNLKNLILSIDTEEVKELRIDVAREGAVTAADIECDEEVTI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ I L +RM + +G+GYV A ++ + G I ID++Y+P+ +VSY V Sbjct: 121 INPELHIATLSATGRLRMTMKARRGNGYVGADDNKKLLESAGEIAIDSIYTPVTRVSYDV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ YDKL++ + T+GSI ++++++AS+IL + + +N E + + Sbjct: 181 EKTRVGQDASYDKLTLEVWTNGSINPQEAISVASKILVEHFSILVNLNEAGQLASFIVER 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EEL+LSVRS NCLR I + +L + +E DM+++ N G+KSL E+K Sbjct: 241 EDEEKNKVLEMPIEELDLSVRSYNCLRRAGINTVEELARHSEEDMMKVRNLGKKSLKEVK 300 Query: 308 GVLGTMGLFLG 318 L +GL LG Sbjct: 301 DKLDELGLSLG 311 >gi|164608416|gb|ABY62511.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio wodanis] gi|164608418|gb|ABY62512.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio wodanis] Length = 308 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 207/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSQTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H+ + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHNEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|319940035|ref|ZP_08014389.1| DNA-directed RNA polymerase subunit alpha [Streptococcus anginosus 1_2_62CV] gi|319810749|gb|EFW07076.1| DNA-directed RNA polymerase subunit alpha [Streptococcus anginosus 1_2_62CV] Length = 312 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 131/313 (41%), Positives = 201/313 (64%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGIFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIGEGASLKAIMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 179 EPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAKSTDVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EKVSDDRVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|90193996|gb|ABD92559.1| RpoA [Volucribacter psittacicida] Length = 302 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 139/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V AGDI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVLLTLSKSGIGPVVAGDIIHDGDVEIVNPEHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A ++M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDENASIQMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I ED++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEDAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|50086190|ref|YP_047700.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. ADP1] gi|61215915|sp|Q6F7T7|RPOA_ACIAD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|49532166|emb|CAG69878.1| RNA polymerase, alpha subunit [Acinetobacter sp. ADP1] Length = 335 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L VS+G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSIKMRLKVSQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|90194054|gb|ABD92588.1| RpoA [Mannheimia varigena] Length = 302 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTDVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICN Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICN 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARLHTQSDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|255283705|ref|ZP_05348260.1| DNA-directed RNA polymerase, alpha subunit [Bryantella formatexigens DSM 14469] gi|255265770|gb|EET58975.1| DNA-directed RNA polymerase, alpha subunit [Bryantella formatexigens DSM 14469] Length = 375 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 129/315 (40%), Positives = 199/315 (63%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E+ + EPL RG+ TLGN+LRR+++SSL GAA++ V+I+G Sbjct: 59 DFNKPR-IEIAEI-SEDRKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIEG 116 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+++II+N+K + +K + K I G GVVTA DIQ DI Sbjct: 117 VLHEFSSIPGVKEDVSEIIMNLKSLAIKNTSKTNEPKVAYIEYDGEGVVTAADIQVDQDI 176 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LN D +I L D+ + ME+T++KG GY+ A +T + PIG+I +D++Y+P+++V Sbjct: 177 EILNKDQIIATLSGGPDSKLYMEITITKGRGYISADEGKTPDMPIGVIAVDSIYTPVERV 236 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R Q D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E K + Sbjct: 237 NMTVENTRVAQATDFDKLTLDVYTNGTLAPDEAVSLAAKVLSEHLSLFIDLSESAKTAEI 296 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 297 MIEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTPEDMMKVRNLGRKSL 356 Query: 304 VEIKGVLGTMGLFLG 318 E+ L +GL L Sbjct: 357 EEVLAKLKELGLQLN 371 >gi|166031630|ref|ZP_02234459.1| hypothetical protein DORFOR_01330 [Dorea formicigenerans ATCC 27755] gi|166028607|gb|EDR47364.1| hypothetical protein DORFOR_01330 [Dorea formicigenerans ATCC 27755] Length = 322 Score = 333 bits (854), Expect = 2e-89, Method: Composition-based stats. Identities = 134/314 (42%), Positives = 205/314 (65%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 6 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISQVKIDG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K + D K I G GVVTA DIQ DI Sbjct: 64 VLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSETDEPKTAYIEFEGEGVVTAADIQVDQDI 123 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ A + MELT++KG GYV A+ ++ + PI +I ID++Y+P+++V Sbjct: 124 EIMNPETVIATLNGGADSKLYMELTITKGRGYVSAEKNKNDELPIAVIPIDSIYTPVERV 183 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 184 NLTVENTRVGQITDFDKLTLDVYTNGTLLPDEAVSLAAKVLSEHLKLFIDLSEVAQAAEV 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 244 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSL 303 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 304 EEVLAKLDELGLSL 317 >gi|323126337|gb|ADX23634.1| DNA-directed RNA polymerase subunit alpha [Streptococcus dysgalactiae subsp. equisimilis ATCC 12394] Length = 312 Score = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 128/313 (40%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKILELEVEGPAEVTAGDILTDSDIEL 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K + Sbjct: 179 EPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKET 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +E L+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKVNDEKVLDRTIEVLDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|169632375|ref|YP_001706111.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii SDF] gi|169794619|ref|YP_001712412.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii AYE] gi|184159573|ref|YP_001847912.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii ACICU] gi|213158810|ref|YP_002320808.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii AB0057] gi|215482208|ref|YP_002324390.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii AB307-0294] gi|239503209|ref|ZP_04662519.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii AB900] gi|260557052|ref|ZP_05829269.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii ATCC 19606] gi|294839722|ref|ZP_06784405.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. 6013113] gi|294860400|ref|ZP_06798169.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. 6013150] gi|301345035|ref|ZP_07225776.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii AB056] gi|301512034|ref|ZP_07237271.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii AB058] gi|301595209|ref|ZP_07240217.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii AB059] gi|158513671|sp|A3M959|RPOA_ACIBT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|226699350|sp|B7GW27|RPOA_ACIB3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|226699351|sp|B7IA14|RPOA_ACIB5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238688116|sp|B0V6U7|RPOA_ACIBY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238688241|sp|B0VQU3|RPOA_ACIBS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238691002|sp|B2HZ83|RPOA_ACIBC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|169147546|emb|CAM85407.1| RNA polymerase, alpha subunit [Acinetobacter baumannii AYE] gi|169151167|emb|CAO99839.1| RNA polymerase, alpha subunit [Acinetobacter baumannii] gi|183211167|gb|ACC58565.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Acinetobacter baumannii ACICU] gi|193078462|gb|ABO13453.2| RNA polymerase alpha subunit [Acinetobacter baumannii ATCC 17978] gi|213057970|gb|ACJ42872.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii AB0057] gi|213988894|gb|ACJ59193.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii AB307-0294] gi|260409658|gb|EEX02959.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter baumannii ATCC 19606] gi|322509483|gb|ADX04937.1| RNA polymerase, alpha subunit [Acinetobacter baumannii 1656-2] gi|323519504|gb|ADX93885.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii TCDC-AB0715] Length = 335 Score = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L VS+G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSATGSLKMRLKVSQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|306825961|ref|ZP_07459297.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sp. oral taxon 071 str. 73H25AP] gi|304431677|gb|EFM34657.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sp. oral taxon 071 str. 73H25AP] Length = 311 Score = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 199/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILDRTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 FKLIDLGLGLKDK 311 >gi|206890328|ref|YP_002249220.1| DNA-directed RNA polymerase, alpha subunit [Thermodesulfovibrio yellowstonii DSM 11347] gi|206742266|gb|ACI21323.1| DNA-directed RNA polymerase, alpha subunit [Thermodesulfovibrio yellowstonii DSM 11347] Length = 343 Score = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 147/340 (43%), Positives = 206/340 (60%), Gaps = 14/340 (4%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 ++E P +E+ + ++ EPL RG+ TLGN+LRRVL+SSL G A+ A++I Sbjct: 4 YKEFQMPKKVEFDQ-ESLTDTYGKLVIEPLERGYGITLGNSLRRVLLSSLDGVAVYAIRI 62 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVN 123 + LHE SSIKGV ED+ DIILN+K + K K TI +GP VTA IQT Sbjct: 63 NDALHEFSSIKGVKEDILDIILNVKKLRFKYYAQDSDKKIATIKIKGPADVTAESIQTDG 122 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 EVLN IC+LD DA + M L + KG GYVP++ + + P+ IT+DA++SP+KKV Sbjct: 123 TYEVLNKSQYICSLDQDAQMEMVLYIRKGRGYVPSEAIKDDELPVDAITVDAIFSPVKKV 182 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ VE R G++ DYD+L + I TDGSIT E +++ AS IL I F+E + + KE Sbjct: 183 NFRVEKTRVGELTDYDRLILEIWTDGSITPERAISDASSILIKHFEYLIFFKEAELQNKE 242 Query: 244 DINVKSLPF--------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 P N +LK +E+LELSVR+ NCL+ I + +L+QRTE ++++ Sbjct: 243 IHETVPNPEEDLNFDLLNENILKPIEDLELSVRAYNCLKSAGINTIAELVQRTEGELMKT 302 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 NFGR+SL EIK VL MGL LGM + PE +E+ +K Sbjct: 303 KNFGRRSLEEIKEVLTNMGLKLGMRI---NPELLEKFKEK 339 >gi|300174006|ref|YP_003773172.1| DNA-directed RNA polymerase subunit alpha [Leuconostoc gasicomitatum LMG 18811] gi|299888385|emb|CBL92353.1| DNA-directed RNA polymerase, alpha subunit [Leuconostoc gasicomitatum LMG 18811] Length = 314 Score = 333 bits (854), Expect = 3e-89, Method: Composition-based stats. Identities = 129/312 (41%), Positives = 190/312 (60%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEGARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+EV Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 119 LNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E + Sbjct: 179 HVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V+ + + + +E+L+LSVRS NCL+ I + +L RTEADM+++ N GRKSL E Sbjct: 239 EVEPVAVSASDSAPIEDLDLSVRSYNCLKRAGINTIVELTDRTEADMMKVRNLGRKSLDE 298 Query: 306 IKGVLGTMGLFL 317 I+ L M L Sbjct: 299 IQEKLTEMSLGF 310 >gi|90194018|gb|ABD92570.1| RpoA [Actinobacillus ureae ATCC 25976] Length = 302 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVKIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NPDHVIC+ Sbjct: 61 GIQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMCIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|190341313|gb|ACE74733.1| RpoA [Enterobacter amnigenus] Length = 308 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 136/314 (43%), Positives = 206/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGV Sbjct: 1 FLNPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIV 117 Query: 129 NPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA YSP+++++ Sbjct: 118 KPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ + Sbjct: 178 YNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---E 234 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 235 VKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|160881757|ref|YP_001560725.1| DNA-directed RNA polymerase, alpha subunit [Clostridium phytofermentans ISDg] gi|160430423|gb|ABX43986.1| DNA-directed RNA polymerase, alpha subunit [Clostridium phytofermentans ISDg] Length = 319 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 129/317 (40%), Positives = 204/317 (64%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA++ V+IDG Sbjct: 3 DFEKP-KIEIADI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 V+HE S I GV ED+T+II+NIK + +K + + K I G GVV AGDIQ DI Sbjct: 61 VVHEFSPIPGVKEDVTEIIMNIKNLAIKNTSETNEPKTAYIEFEGEGVVRAGDIQADPDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNP+ VI L A + +ELT++KG GY+ A ++ ++ PIG+I +D++Y+P+++V Sbjct: 121 EILNPELVIATLSGGADSKLYIELTITKGRGYISADKNKNDDLPIGVIAVDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + +VE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L FI+ E K + Sbjct: 181 NLSVENTRVGQITDFDKLTLDVFTNGTLGPDEAVSLAAKVLSEHLNSFIDLSENAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MVEKEDNEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFLGMN 320 E+ L +GL L ++ Sbjct: 301 EEVLAKLKELGLSLNLS 317 >gi|282882483|ref|ZP_06291104.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus lacrimalis 315-B] gi|300814667|ref|ZP_07094918.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus sp. oral taxon 836 str. F0141] gi|281297625|gb|EFA90100.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus lacrimalis 315-B] gi|300511286|gb|EFK38535.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus sp. oral taxon 836 str. F0141] Length = 315 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 130/313 (41%), Positives = 187/313 (59%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I L + I EPL G+ T+GN+LRRVL+SSL GAA++ + I G Sbjct: 3 EIEKP-KITIDKLDDSGK-YGKFIVEPLESGYGITIGNSLRRVLLSSLPGAAVSFINIRG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE +I GV ED+ +IILN+K I KM D ++ I K G G +TAGDI + V Sbjct: 61 VEHEFDTIPGVLEDVPEIILNVKSIVFKMENDEPVKLIIEKSGKGEITAGDIILEPSVSV 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+H I L+ DA V +E+TV KG GY P++ + E IG+I +D+ YSP++KV++ V Sbjct: 121 VNPNHHIATLNEDADVYIEMTVEKGRGYEPSELKKDEVTQIGIIPVDSNYSPVRKVNWKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYD+L + + TDGS+ +++ +LA++IL + L +FI EV + Sbjct: 181 ENTRVGQRTDYDRLILEVTTDGSMKADEATSLAAKILTEHLDLFIGLINHVDEVNIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + VEEL+LSVRS NCL+ I +G+L +TE DM+++ N G+KSL E+ Sbjct: 241 EEDQSEKVKEMTVEELDLSVRSFNCLKRAGINTVGELTNKTEEDMMKVRNLGKKSLEEVV 300 Query: 308 GVLGTMGLFLGMN 320 L M L L Sbjct: 301 SKLQEMNLSLKTE 313 >gi|258543844|ref|ZP_05704078.1| DNA-directed RNA polymerase, alpha subunit [Cardiobacterium hominis ATCC 15826] gi|258520933|gb|EEV89792.1| DNA-directed RNA polymerase, alpha subunit [Cardiobacterium hominis ATCC 15826] Length = 322 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 133/320 (41%), Positives = 195/320 (60%), Gaps = 7/320 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 EL+ P ++ +G N + + EPL RGF +TLG ALRRVL+SS+ GAA+T +I Sbjct: 3 LSELLTPRIVKIQEMG---LNTSRVTLEPLERGFGYTLGTALRRVLLSSIEGAAVTECEI 59 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S I+GV ED+ D++LN+KG+ L + + + G V A D +++ Sbjct: 60 DGVLHEYSGIEGVSEDVIDVLLNLKGLALILHEGERAEMRLSVNKAGEVKASDFSAPSNV 119 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVS 184 E+ NPDHVI +L D M + V KG GY A ++ +DA +SPIK+++ Sbjct: 120 EICNPDHVIAHLTQDVSFSMTVVVEKGRGYRVATQEIDTATHAPNVLRVDASFSPIKRIA 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + I+++G+I E ++ A+ IL Q+ +F+N E E Sbjct: 180 YRVEAARVEQHTDLDKLVIDIESNGTIDPEQAIREAATILHKQIAVFVNLE---STEVEA 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + +P LL+ V++LEL+VRS NCL+ ENI +GDL++RTE ++L+ N G+KSL Sbjct: 237 EYEEEVQVDPVLLRPVDDLELTVRSANCLKAENINNIGDLVRRTEVELLKTPNLGKKSLN 296 Query: 305 EIKGVLGTMGLFLGMNLPDW 324 EIK VL GL LGM+L +W Sbjct: 297 EIKEVLAAHGLELGMDLENW 316 >gi|255319790|ref|ZP_05360995.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter radioresistens SK82] gi|262380323|ref|ZP_06073477.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter radioresistens SH164] gi|255303109|gb|EET82321.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter radioresistens SK82] gi|262297769|gb|EEY85684.1| DNA-directed RNA polymerase, alpha subunit [Acinetobacter radioresistens SH164] Length = 335 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 138/330 (41%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---AKVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L V++G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSASGSIKMRLKVAQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I++VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IQRVSYTVENARVEQRTDLDKLIIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|58415836|emb|CAH57332.1| RNA polymerase alpha-subunit [Aliivibrio fischeri] gi|58415838|emb|CAH57333.1| RNA polymerase alpha-subunit [Aliivibrio fischeri] gi|148536414|gb|ABQ85759.1| RNA polymerase alpha-subunit [Aliivibrio fischeri] gi|148536416|gb|ABQ85760.1| RNA polymerase alpha-subunit [Aliivibrio fischeri] gi|148536418|gb|ABQ85761.1| RNA polymerase alpha-subunit [Aliivibrio fischeri] gi|148793252|gb|ABR12690.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio fischeri] gi|164608402|gb|ABY62504.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio fischeri] Length = 308 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + +DA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLVDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|149197867|ref|ZP_01874916.1| DNA-directed RNA polymerase subunit alpha [Lentisphaera araneosa HTCC2155] gi|149139088|gb|EDM27492.1| DNA-directed RNA polymerase subunit alpha [Lentisphaera araneosa HTCC2155] Length = 341 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 133/329 (40%), Positives = 190/329 (57%), Gaps = 1/329 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P N+ + E IAEP +GF HTLGN LRRVL+ SL G A+T ++IDGV Sbjct: 8 FAMPQNM-VLDEATATEKYGKFIAEPFEKGFGHTLGNGLRRVLLHSLEGVAVTWIKIDGV 66 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE + V ED+T+I+LN K + GD +++ + G VTA DI T +V+ Sbjct: 67 LHEYAQAADVVEDVTEIVLNFKNVRFTAEGDLPRKLELRANTKGPVTAADIVTDGVTQVV 126 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ IC LD D +R+E V+ G G+ A ++ PIGLI +D+L+SPI++VSY V Sbjct: 127 NPEQYICTLDKDTPLRIEFEVASGRGWKSADDNKPSEAPIGLIPVDSLFSPIERVSYDVS 186 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ+ DYDKL + I TDG I+ ED++ ++ IL+D L +F + + Sbjct: 187 DTRVGQMTDYDKLELEIWTDGRISPEDALRKSAIILRDHLCVFTDDNPEDSTASLIQTPE 246 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +L V +ELSVR+ NCLR I Y+G+LIQ++E++ML+ NFG+KSL EIK Sbjct: 247 DEAILSKMLIPVTSVELSVRAQNCLRNAEIKYLGELIQKSESEMLKYRNFGKKSLDEIKD 306 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYE 337 + MG+ L M L D + + +K E Sbjct: 307 KMLEMGITLNMKLKDEVRVAFNKKLEKEE 335 >gi|90193990|gb|ABD92556.1| RpoA [Pasteurella multocida] gi|90194060|gb|ABD92591.1| RpoA [Pasteurella multocida subsp. gallicida] Length = 302 Score = 333 bits (853), Expect = 3e-89, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 203/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDESASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|90193998|gb|ABD92560.1| RpoA [Avibacterium gallinarum] Length = 302 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ + +T+ K G G V A DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDNVFLTLSKSGIGPVVAADITYDGDVEIVNPEHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E PIG + +DA YSP+++++Y VE+ R Sbjct: 121 LTDENASINMCIRVQRGRGYVPASARVHSQDEERPIGRLLVDACYSPVQRIAYNVEATRV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|197288305|gb|ACH57435.1| RpoA [Aliivibrio finisterrensis] Length = 313 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 140/319 (43%), Positives = 207/319 (64%), Gaps = 10/319 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E +K + + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I Sbjct: 1 VTEFLK---LRLVDIEQVSMTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEI 57 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+ Sbjct: 58 EGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDV 117 Query: 126 EVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E+ NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ Sbjct: 118 EIANPEHVICHLTDDNAEISMRIRVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVD 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 K+SY+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 KISYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPE 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 EKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMN 320 SL EIK VL + GL LGM Sbjct: 295 SLTEIKDVLASRGLSLGMR 313 >gi|309799084|ref|ZP_07693337.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus infantis SK1302] gi|308117319|gb|EFO54742.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus infantis SK1302] Length = 311 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 198/313 (63%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K K + + +GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVKDEKIIELDVQGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP H + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y V Sbjct: 119 VNPGHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++EA+M+++ N GRKSL E+K Sbjct: 239 DTESDDRILERTIEELDLSVRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 299 VKLIDLGLGLKDK 311 >gi|90194048|gb|ABD92585.1| RpoA [Actinobacillus porcinus] Length = 303 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 204/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE SS + Sbjct: 1 LVNIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDHV+C+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPDHVLCH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDENASINMRIRVQRGRGYVPASARAHTQDEERPIGRLLVDACYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|58415916|emb|CAH57372.1| RNA polymerase alpha-subunit [Aliivibrio logei] gi|148536420|gb|ABQ85762.1| RNA polymerase alpha-subunit [Aliivibrio salmonicida] gi|164608404|gb|ABY62505.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio logei] gi|164608406|gb|ABY62506.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio logei] gi|164608408|gb|ABY62507.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio logei] gi|164608410|gb|ABY62508.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio salmonicida] gi|164608412|gb|ABY62509.1| DNA-directed RNA polymerase alpha subunit [Aliivibrio salmonicida] Length = 308 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 138/314 (43%), Positives = 205/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSLTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + +DA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLVDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|90194024|gb|ABD92573.1| RpoA [Actinobacillus genomosp. 1] Length = 303 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 139/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDAAISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|319760354|ref|YP_004124292.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Blochmannia vafer str. BVAF] gi|318039068|gb|ADV33618.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Blochmannia vafer str. BVAF] Length = 334 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 144/339 (42%), Positives = 211/339 (62%), Gaps = 15/339 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q +E +KP I + + + EPL RGF HTLGNALRRVL+SS+ G A+T Sbjct: 1 MQSPEKEFLKPRLINIEKISEV---HAKITLEPLERGFGHTLGNALRRVLLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE +G+ ED+ +I+LN+K + + + G +++ K G G V A DI Sbjct: 58 EVEIDGVLHEYGIKEGIREDVLEILLNLKTLAIAIEGKDSMILSLKKSGVGPVVASDILY 117 Query: 122 VND-IEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTEND-------PIGLIT 172 + ++++NP HVIC + D A++ M + V +G GYVPA PIG + Sbjct: 118 DSSIVKIVNPAHVICVITDDHAILSMRIKVQRGRGYVPAFSKFNSILDEQQTAIPIGRLV 177 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA YSP+++VSYTVE+AR + D DKL + ++T+G+I E+++ A+ IL DQL FI Sbjct: 178 LDACYSPVERVSYTVEAARVEKRTDLDKLIIDMETNGTIDPEEAIRRAATILSDQLSTFI 237 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + +I F+PALL V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++ Sbjct: 238 DLNNVYQP---EIKEDKPEFDPALLHLVDDLELTVRSANCLKAESIHYIGDLVQKTEVEL 294 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ N G+KSL EIK VL + GL LGM L WPP+S + Sbjct: 295 LKTPNLGKKSLTEIKDVLASRGLSLGMCLEKWPPKSFTD 333 >gi|320094553|ref|ZP_08026319.1| DNA-directed RNA polymerase subunit alpha [Actinomyces sp. oral taxon 178 str. F0338] gi|319978468|gb|EFW10045.1| DNA-directed RNA polymerase subunit alpha [Actinomyces sp. oral taxon 178 str. F0338] Length = 331 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 117/305 (38%), Positives = 177/305 (58%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+ Sbjct: 8 ILTEEKVSDLRSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIE 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +IILNIK I L D + + K GPG V AGDI +E+ NPD + Sbjct: 68 GVKEDVAEIILNIKQIVLSSENDEPVVMYLRKAGPGPVVAGDITPPAGVEIHNPDLHLAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + +ELTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q Sbjct: 128 LNEKGKLEIELTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T +IT D++A A + L + G+ E + ++ + L Sbjct: 188 DFDRLVIDVETKPAITPRDAIASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L T+G+ Sbjct: 248 ALPIENLNLQSRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLATLGMT 307 Query: 317 LGMNL 321 L ++ Sbjct: 308 LKDSV 312 >gi|90194016|gb|ABD92569.1| RpoA [Actinobacillus hominis] Length = 302 Score = 332 bits (852), Expect = 4e-89, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|90194064|gb|ABD92593.1| RpoA [Pasteurella canis] Length = 302 Score = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 203/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+H+IC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLNKSGIGPVVAADITHDGDVEIVNPEHIICH 120 Query: 137 LDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYVPA H + E PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDDNASINMRIRVQRGRGYVPASARVHAQDEERPIGRLLVDACYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|125717012|ref|YP_001034145.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK36] gi|323350965|ref|ZP_08086623.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis VMC66] gi|158513356|sp|A3CK90|RPOA_STRSV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|125496929|gb|ABN43595.1| DNA-directed RNA polymerase, alpha chain, putative [Streptococcus sanguinis SK36] gi|322122947|gb|EFX94653.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis VMC66] gi|324989977|gb|EGC21918.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK353] gi|324991840|gb|EGC23765.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK405] gi|324996270|gb|EGC28178.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK678] gi|325686430|gb|EGD28460.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK72] gi|325689206|gb|EGD31212.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK115] gi|325695785|gb|EGD37682.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK150] gi|325698001|gb|EGD39884.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK160] gi|327458456|gb|EGF04812.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK1] gi|327463697|gb|EGF10013.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK1057] gi|327467360|gb|EGF12860.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK330] gi|327471717|gb|EGF17158.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK408] gi|327490438|gb|EGF22220.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK1058] gi|328945192|gb|EGG39346.1| DNA-directed RNA polymerase subunit alpha [Streptococcus sanguinis SK1087] Length = 312 Score = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 195/313 (62%), Gaps = 4/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ I+G Sbjct: 3 EFEKPNITKI----DENKDYGKFVVEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE +I GV ED+ IILN+KGI +K K + + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + +TV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y V Sbjct: 119 INPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I T+G+I ED++ L++RIL + L +F N E Sbjct: 179 EPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTNLTEVAIAADVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ N GRKSL E+K Sbjct: 239 EKTSDDRILERTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVRNLGRKSLEEVK 298 Query: 308 GVLGTMGLFLGMN 320 L +GL L + Sbjct: 299 VKLADLGLGLKND 311 >gi|193214826|ref|YP_001996025.1| DNA-directed RNA polymerase subunit alpha [Chloroherpeton thalassium ATCC 35110] gi|238692721|sp|B3QYF0|RPOA_CHLT3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|193088303|gb|ACF13578.1| DNA-directed RNA polymerase, alpha subunit [Chloroherpeton thalassium ATCC 35110] Length = 328 Score = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 133/329 (40%), Positives = 206/329 (62%), Gaps = 10/329 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQ ++ P +E IA+PL RG+ T+GNA+RRVL+SSL G AI Sbjct: 1 MIQ----QMQMPEKLEVDEA-SYSNYYGKFIAQPLERGYGVTIGNAIRRVLLSSLPGTAI 55 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T ++I+GVLHE S+I GV ED+ DI+LN+K I + + VT+ RGP AGDI Sbjct: 56 TGIKIEGVLHEFSTIDGVKEDVPDIVLNLKQIRFRSISKRNAVVTLVLRGPKDFVAGDIV 115 Query: 121 TV-NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + D EVLNP+H I L+ DA ++++++V +G GY+PA+ ++ E PIG I++D++++P Sbjct: 116 SPEGDFEVLNPEHHIATLNEDATLKIDVSVGRGRGYMPAEDNKPETMPIGYISVDSIFTP 175 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 I+ V Y+VE+ R GQ DY+KLS+ ++TDGSI +++V++A +I+ D + +F F ++ Sbjct: 176 IRNVKYSVENTRVGQRTDYEKLSLEVETDGSIAPDEAVSMAGKIINDHVRLFSLFSPTQE 235 Query: 240 EVKEDINVKSLPFNPALLK----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E E+ + + K ++E+LELSVRS NCLR I +G L+ + E ++L Sbjct: 236 EEVEEEVQQEDEEFENMRKLLMTRIEDLELSVRSHNCLRSAEIDTLGQLVSKREDELLGY 295 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 NFG+KSL E+K +L + L GM + + Sbjct: 296 KNFGKKSLAELKELLESKNLSFGMEVTKY 324 >gi|90194030|gb|ABD92576.1| RpoA [Actinobacillus equuli subsp. haemolyticus] Length = 303 Score = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|227494572|ref|ZP_03924888.1| DNA-directed RNA polymerase [Actinomyces coleocanis DSM 15436] gi|226832306|gb|EEH64689.1| DNA-directed RNA polymerase [Actinomyces coleocanis DSM 15436] Length = 339 Score = 332 bits (851), Expect = 5e-89, Method: Composition-based stats. Identities = 121/312 (38%), Positives = 180/312 (57%), Gaps = 4/312 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + +NR+ I EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV Sbjct: 15 QRPTLTE----EKVSDNRSRFILEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVQ 70 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+ +IILNIK I L D + + K G GVVTAGDI +E+ N Sbjct: 71 HEFSTVPGVKEDVAEIILNIKNIVLSSENDEPVVMYLRKTGAGVVTAGDITPPAGVEIHN 130 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L V +ELTV +G GYV A ++ N I I ID++YSP+ KV+Y VE+ Sbjct: 131 PELELATLSEKGKVEIELTVERGRGYVSAMQNKDPNAEISRIPIDSIYSPVLKVTYKVEA 190 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R Q D+D+L + ++T +IT D++A A + L + G+ + ++ + Sbjct: 191 TRVEQRTDFDRLIVDVETKPAITPRDALASAGKTLVELFGLARELNVEAEGIEIGPSATD 250 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L +E L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK Sbjct: 251 ETLAADLALPIENLGLQSRSYNALRRRGILSVGELVAHSEADLLDIRNFGLKSIEEIKEK 310 Query: 310 LGTMGLFLGMNL 321 L +G+ L ++ Sbjct: 311 LAGLGMTLKDSV 322 >gi|90193994|gb|ABD92558.1| RpoA [Gallibacterium anatis] Length = 300 Score = 332 bits (851), Expect = 6e-89, Method: Composition-based stats. Identities = 134/303 (44%), Positives = 201/303 (66%), Gaps = 5/303 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISPTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NPDH+IC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVFLTLTKSGIGPVVAADITHDGDVEIVNPDHIICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPA-KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L D +A + M + V +G GYVPA E PIG + +DA YSP+ +++Y VE+AR Q Sbjct: 121 LTDENASINMRIRVQRGRGYVPASSRTHDEERPIGRLLVDACYSPVDRIAYNVEAARVEQ 180 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 181 RTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFDP 237 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 238 ILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 297 Query: 315 LFL 317 L L Sbjct: 298 LSL 300 >gi|58416068|emb|CAH57448.1| RNA polymerase alpha-subunit [Vibrio sp. R-23695] Length = 308 Score = 332 bits (851), Expect = 6e-89, Method: Composition-based stats. Identities = 139/314 (44%), Positives = 206/314 (65%), Gaps = 10/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSMTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ K+S Sbjct: 118 NPEHVICHLTDDNAEISMRIKVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKIS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 EIKDVLASRGLSLG 308 >gi|302023188|ref|ZP_07248399.1| DNA-directed RNA polymerase subunit alpha [Streptococcus suis 05HAS68] Length = 300 Score = 331 bits (850), Expect = 6e-89, Method: Composition-based stats. Identities = 129/302 (42%), Positives = 197/302 (65%), Gaps = 4/302 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T+++IDG Sbjct: 3 EFEKPTITKI----DENKDYGRFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K++ + GP VTAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDH + + A + LTV+ G GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y V Sbjct: 119 VNPDHYLFTIADGATFKAVLTVNSGRGYVPAEDNKKDDAPVGTLAVDSIYTPVKKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G +DKL++ I+T+G+I ED++ L++RIL + LG+F + E K + Sbjct: 179 EPARVGSNDGFDKLTLEINTNGTIVPEDALGLSARILMEHLGLFTDLTEVAKSAEVMKEA 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + L + +EEL+LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K Sbjct: 239 EVASDDRMLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKTEPEMMKVRNLGRKSLEEVK 298 Query: 308 GV 309 Sbjct: 299 VK 300 >gi|90194022|gb|ABD92572.1| RpoA [Actinobacillus suis ATCC 33415] Length = 302 Score = 331 bits (850), Expect = 6e-89, Method: Composition-based stats. Identities = 138/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + L Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNLEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|294842678|ref|ZP_06787361.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter sp. 6014059] Length = 335 Score = 331 bits (850), Expect = 7e-89, Method: Composition-based stats. Identities = 140/330 (42%), Positives = 221/330 (66%), Gaps = 8/330 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + E + P I+ + +I EPL RGF HTLGNALRR+L+SSL GAA+ Sbjct: 1 MTRTANEFLTPQAIKVEAVSGTS---ATVILEPLERGFGHTLGNALRRILLSSLPGAAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GV HE S+++G+ +D+ +++LN+KG+++K+ + +T+ K+GPG +TA D++ Sbjct: 58 EVEIEGVEHEYSTLEGLQQDIVELLLNLKGLSIKLFDQNEAYLTLEKQGPGDITAADLRL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH--HRTENDPIGLITIDALYSP 179 +++EV+NP+H+I L ++M L VS+G GY + E P+G + +DA YSP Sbjct: 118 PHNVEVVNPEHLIGTLSATGSLKMRLKVSQGRGYETSDSRFPEGETRPVGRLQLDASYSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+VSYTVE+AR Q D DKL + ++T+G++ E+++ A+ ILQ Q+ +F++ ++ + Sbjct: 178 IKRVSYTVENARVEQRTDLDKLVIDLETNGTVDPEEAIRKAATILQQQIAIFVDLQKDQT 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V ++ +P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRTE ++L+ N G Sbjct: 238 PVAQEP---REEVDPILLRPVDDLELTVRSANCLKAENIYYIGDLVQRTEVELLKTPNLG 294 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 +KSL EIK VL + GL LGM L +WPP S+ Sbjct: 295 KKSLTEIKDVLASKGLQLGMRLENWPPASL 324 >gi|179184592|gb|ACB78153.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 331 bits (850), Expect = 7e-89, Method: Composition-based stats. Identities = 139/319 (43%), Positives = 207/319 (64%), Gaps = 11/319 (3%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+ Sbjct: 2 SVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVE 58 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVN 123 I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 59 IEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDG 118 Query: 124 DIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSP 179 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP Sbjct: 119 DVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSP 178 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 179 VDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRV 238 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 KE+ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 239 PEKEEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLG 318 +KSL EIK VL + GL LG Sbjct: 296 KKSLTEIKDVLASRGLSLG 314 >gi|90194014|gb|ABD92568.1| RpoA [Actinobacillus genomosp. 2] Length = 303 Score = 331 bits (850), Expect = 7e-89, Method: Composition-based stats. Identities = 139/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + + +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDASISMRIRIQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ +I + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EIKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|91200694|emb|CAJ73745.1| strongly similar to DNA-directed RNA polymerase, alpha chain [Candidatus Kuenenia stuttgartiensis] Length = 338 Score = 331 bits (850), Expect = 8e-89, Method: Composition-based stats. Identities = 126/330 (38%), Positives = 195/330 (59%), Gaps = 10/330 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ W+ L P ++ + IA P RGF HT+GN+LRR+L+SSL G+A+ Sbjct: 1 MRIRWRGLELPVRVDVEN-ETLTDRYGKFIAAPFERGFGHTIGNSLRRILLSSLEGSAVV 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I+GV HE +++ GV ED+ DIILNIK + +KM D K + I G VT DI T Sbjct: 60 SVKIEGVAHEFTNVPGVIEDVADIILNIKNLIVKMHSDQPKIIKIEANKKGKVTGKDIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++EV+N D I L D +E+ V KG GYV A + E+ IGLI++D+ +SP++ Sbjct: 120 DENVEVVNDDLHIATLSEDMAFNVEMEVRKGRGYVTADENEAEDQEIGLISVDSFFSPVR 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V Y E R G+ +YD+L + I T+G++T E ++ A+ I + L FI + E +E+ Sbjct: 180 NVRYVTEETRVGRRTNYDRLILEIWTNGTVTPEMALVEAAMITRKHLNPFIQYFEIGREL 239 Query: 242 KEDI---------NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++ ++ S FN L + EL+LSVR++NCL NIV +GDL+ +TE D+ Sbjct: 240 QQIEKNMSAECISDMSSEEFNRTLSMPIAELDLSVRASNCLETVNIVTVGDLVVKTEDDL 299 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 L++ NFG+ ++ E+K L + L +GM L Sbjct: 300 LQIKNFGKTTMKELKKKLSQLNLAIGMPLE 329 >gi|284042830|ref|YP_003393170.1| DNA-directed RNA polymerase, subunit alpha [Conexibacter woesei DSM 14684] gi|283947051|gb|ADB49795.1| DNA-directed RNA polymerase, alpha subunit [Conexibacter woesei DSM 14684] Length = 333 Score = 331 bits (850), Expect = 8e-89, Method: Composition-based stats. Identities = 133/332 (40%), Positives = 191/332 (57%), Gaps = 26/332 (7%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P I EENR EPL RGF +T GN+LRRVL+SSL GAA+T+V+I+G Sbjct: 3 DFQVPR----ITTETVEENRGSFTIEPLDRGFGYTFGNSLRRVLLSSLAGAAVTSVRIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDIQTVNDIE 126 V HE S+I GV ED+TDI+LN+KGI +M D+ + + GPG +TA DI + +E Sbjct: 59 VAHEFSTIPGVKEDVTDIVLNLKGIVCRMHSDATEIEAPLVVTGPGDITAKDIDLPSGVE 118 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD I L+ + + LT+ +G GY PA+ +++ + PIG+I ID+++SP+++V+Y Sbjct: 119 ILNPDAHIATLEKKTKLEVYLTIGRGRGYRPAEENKSPDQPIGVIPIDSIFSPVRRVAYA 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------- 239 VE AR GQ DYDKL++ I+TDGSI ++ A+ IL QL +F + + + Sbjct: 179 VEQARVGQKTDYDKLTLDIETDGSIDPHAALREAAEILISQLAIFTDADRVIELRDTGGL 238 Query: 240 --------------EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 P N +EELEL VRS NCL+ I +GDLI Sbjct: 239 GALEPGLAGGGVGGVGGHGAGPGGRPANAMDDILIEELELGVRSYNCLKRAGIQTVGDLI 298 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +TE ++ + NFG+KS+ E+ L GL L Sbjct: 299 SKTENELNAIPNFGKKSIDEVIETLEGRGLHL 330 >gi|164608448|gb|ABY62527.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae] Length = 309 Score = 331 bits (850), Expect = 8e-89, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 207/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL +F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDVFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90194034|gb|ABD92578.1| RpoA [Actinobacillus pleuropneumoniae serovar 1] gi|90194036|gb|ABD92579.1| RpoA [Actinobacillus pleuropneumoniae serovar 2 str. S1536] gi|90194038|gb|ABD92580.1| RpoA [Actinobacillus pleuropneumoniae] gi|90194040|gb|ABD92581.1| RpoA [Actinobacillus pleuropneumoniae serovar 4 str. M62] gi|90194042|gb|ABD92582.1| RpoA [Actinobacillus pleuropneumoniae] gi|90194044|gb|ABD92583.1| RpoA [Actinobacillus pleuropneumoniae serovar 8 str. 405] Length = 301 Score = 331 bits (849), Expect = 8e-89, Method: Composition-based stats. Identities = 138/304 (45%), Positives = 205/304 (67%), Gaps = 7/304 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLF 316 GL Sbjct: 298 RGLS 301 >gi|331091639|ref|ZP_08340473.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 2_1_46FAA] gi|330403396|gb|EGG82955.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae bacterium 2_1_46FAA] Length = 319 Score = 331 bits (849), Expect = 9e-89, Method: Composition-based stats. Identities = 131/314 (41%), Positives = 203/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ + EPL RG+ TLGN+LRR+++SSL G+AI+ V+IDG Sbjct: 3 DFNKPN-IEITEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAISYVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+I++N+K + +K + D K I G GVVT DIQ +DI Sbjct: 61 VLHEFSSIPGVKEDVTEIVMNLKSLAIKNTSETDEPKTAYIEFEGEGVVTGADIQVDSDI 120 Query: 126 EVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NP+ VI L+ A + MELT++ G GYV A +++ PI +I ID++Y+P+++V Sbjct: 121 EIMNPETVIATLNGGADSKLYMELTITNGRGYVSADKNKSSELPIAVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ E + + Sbjct: 181 NLTVENTRVGQITDFDKLTLDVYTNGTLAPDEAVSLAAKVLNEHLKLFIDLSEVAQAAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL Sbjct: 241 MIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNRTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLKELGLEL 314 >gi|90194026|gb|ABD92574.1| RpoA [Actinobacillus capsulatus] Length = 303 Score = 331 bits (849), Expect = 1e-88, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 204/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D A + M + V +G GYV A H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKSASINMRIRVQRGRGYVSASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|58415776|emb|CAH57302.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415778|emb|CAH57303.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415780|emb|CAH57304.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415782|emb|CAH57305.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415784|emb|CAH57306.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415786|emb|CAH57307.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415788|emb|CAH57308.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415790|emb|CAH57309.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415792|emb|CAH57310.1| RNA polymerase alpha-subunit [Vibrio cholerae] gi|58415936|emb|CAH57382.1| RNA polymerase alpha-subunit [Vibrio mimicus] gi|58415938|emb|CAH57383.1| RNA polymerase alpha-subunit [Vibrio mimicus] gi|58415940|emb|CAH57384.1| RNA polymerase alpha-subunit [Vibrio mimicus] gi|58415942|emb|CAH57385.1| RNA polymerase alpha-subunit [Vibrio mimicus] Length = 309 Score = 331 bits (849), Expect = 1e-88, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|315605926|ref|ZP_07880957.1| DNA-directed RNA polymerase subunit alpha [Actinomyces sp. oral taxon 180 str. F0310] gi|315312208|gb|EFU60294.1| DNA-directed RNA polymerase subunit alpha [Actinomyces sp. oral taxon 180 str. F0310] Length = 331 Score = 331 bits (849), Expect = 1e-88, Method: Composition-based stats. Identities = 116/305 (38%), Positives = 176/305 (57%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+ Sbjct: 8 ILTEEKVSDLRSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIE 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +IILNIK I L D + + K GPG V AGDI +E+ NPD + Sbjct: 68 GVKEDVAEIILNIKQIVLSSENDEPVVMYLRKAGPGEVLAGDITPPAGVEIHNPDLHLAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + +ELTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q Sbjct: 128 LNEKGKLEIELTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVEQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T +IT D++A A + L + G+ E + ++ + L Sbjct: 188 DFDRLVIDVETKPAITPRDALASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ Sbjct: 248 ALPIENLNLQSRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLAALGMT 307 Query: 317 LGMNL 321 L ++ Sbjct: 308 LKDSV 312 >gi|179184569|gb|ACB78152.1| RNA polymerase alpha subunit [Vibrio crassostreae] Length = 315 Score = 331 bits (849), Expect = 1e-88, Method: Composition-based stats. Identities = 137/321 (42%), Positives = 206/321 (64%), Gaps = 11/321 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDXEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ ++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDXIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLG 318 G+KSL EIK VL + GL LG Sbjct: 295 LGKKSLTEIKDVLASRGLSLG 315 >gi|58415862|emb|CAH57345.1| RNA polymerase alpha-subunit [Vibrio gazogenes] Length = 309 Score = 331 bits (849), Expect = 1e-88, Method: Composition-based stats. Identities = 139/315 (44%), Positives = 208/315 (66%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L+ D A V M + V +G GYVPA H ++ PIG + +DA YSP+ K+ Sbjct: 118 VNPEHVICHLNDDNAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYTVEAARVEQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|294055196|ref|YP_003548854.1| DNA-directed RNA polymerase, alpha subunit [Coraliomargarita akajimensis DSM 45221] gi|293614529|gb|ADE54684.1| DNA-directed RNA polymerase, alpha subunit [Coraliomargarita akajimensis DSM 45221] Length = 333 Score = 331 bits (848), Expect = 1e-88, Method: Composition-based stats. Identities = 131/325 (40%), Positives = 190/325 (58%), Gaps = 4/325 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K + PN + V + + AEP G+ HT+GN+LRRVL+SS+ GAAI+ Sbjct: 1 MPKRLGKFELPNRL-VKVEETATDTFAVFQAEPFEAGYGHTIGNSLRRVLLSSIEGAAIS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +++IDGV HE SI+GV ED+TDI+LN+K + L + I G +TA DIQ Sbjct: 60 SIKIDGVQHEFQSIEGVVEDVTDIVLNLKKVLLVSESRESVNLIIDVTREGAITAADIQE 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +I+V+NPD VIC L+ + EL V G GY ++ PIG+I ID+L+SP+K Sbjct: 120 DANIQVVNPDQVICTLEKEQRFFAELEVRVGRGYCTGDDNKKAEQPIGVIAIDSLFSPVK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V Y+VE+ R GQ +DYDKL + I TDG I+ +D++ ++ IL+ L +F + E Sbjct: 180 LVKYSVENTRVGQEMDYDKLVLEITTDGRISPDDALKQSAAILKHHLDVFDEVSQDDIEF 239 Query: 242 KEDINVKSLPFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + S N V E+ELSVR+ NCL NI +G+L ++E +ML+ NF Sbjct: 240 ESESKEISEEQNRLRKLLNMSVNEIELSVRAANCLNNANITTVGELAMKSEQEMLKYRNF 299 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPD 323 G+KSL EIK L +GL LGM + + Sbjct: 300 GKKSLNEIKDKLEQLGLSLGMKIDE 324 >gi|90194056|gb|ABD92589.1| RpoA [Mannheimia ruminalis] Length = 302 Score = 331 bits (848), Expect = 1e-88, Method: Composition-based stats. Identities = 136/305 (44%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q R + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTRAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDH+IC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHIICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA YSP+ +++Y VE+AR Sbjct: 121 LTDKNASISMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARYSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|295698626|ref|YP_003603281.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Riesia pediculicola USDA] gi|291157272|gb|ADD79717.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Riesia pediculicola USDA] Length = 344 Score = 331 bits (848), Expect = 1e-88, Method: Composition-based stats. Identities = 141/327 (43%), Positives = 220/327 (67%), Gaps = 9/327 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E IKP + + + + + EPL RGF HT+GNALRR+L+SS+ G A+T V+IDG Sbjct: 22 EFIKPKLADIQKI---SKTQARITLEPLERGFGHTIGNALRRILLSSMPGFAVTEVEIDG 78 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +LHE S+ GV ED+ +I+LN+K + +++ G +++ K+G VTA DI+ ++E+ Sbjct: 79 ILHEYSTKDGVQEDIVEILLNLKELGVRIYGKEEIVLSLVKKGICTVTAQDIERNENVEI 138 Query: 128 LNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVS 184 +NP+HVIC++ D + V++M + ++KG GYVP +E N IG + +DA YSP+++VS Sbjct: 139 INPEHVICHITDENTVIKMRIKINKGRGYVPVSSRSSEEQNRSIGRLLVDACYSPVERVS 198 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+ R Q D DKL + I+T+G+I ++++ ++ IL +QL F+ E + E K++ Sbjct: 199 YKVEATRVEQRTDLDKLIIEIETNGTIDPKEAIHKSATILANQLESFV---ELQNEDKKE 255 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + F+P LLK V++LEL+VRS NCL+ E+I Y+GDL+QRTE ++L+ N G+KSL+ Sbjct: 256 VQEDHPKFDPMLLKTVDDLELTVRSANCLKTESIHYIGDLVQRTEVELLKTPNLGKKSLM 315 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 EIK +L + GL LGM L +WPP +E Sbjct: 316 EIKDILASRGLSLGMKLENWPPSKKDE 342 >gi|313884601|ref|ZP_07818362.1| DNA-directed RNA polymerase, alpha subunit [Eremococcus coleocola ACS-139-V-Col8] gi|312620385|gb|EFR31813.1| DNA-directed RNA polymerase, alpha subunit [Eremococcus coleocola ACS-139-V-Col8] Length = 314 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 204/310 (65%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP V ++E ++ EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKPEITTIQV--SDDEKYGKIVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE ++I GV ED+ IILNIK + LK+ + K + + GP +VTA DI ND+++ Sbjct: 61 VVHEFATIDGVVEDVPTIILNIKNLALKLYTEEDKVLELNAVGPKIVTAADIIHDNDVQI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ IC L A ++M L S G GYV + +++++ IG++ ID++Y+P+KKV+Y V Sbjct: 121 LNPELEICTLAEGAEIKMLLNASTGRGYVRSDFNKSDDTTIGVLPIDSIYTPVKKVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DKL++ I TDGSI+ E S++LA++IL + L +F++ E ++V+ + Sbjct: 181 ENTRIGQQNICDKLTLDIWTDGSISPEKSLSLAAKILIEYLNVFVDLNEEARDVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L+ +EEL+LSVRS NCL+ I + +L +TEA+M+++ N GRKSL E+K Sbjct: 241 EETEKEKVLVMTIEELDLSVRSYNCLKRAGINTIQELTNKTEAEMMKVRNLGRKSLTEVK 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLNDLGLGL 310 >gi|268609564|ref|ZP_06143291.1| DNA-directed RNA polymerase, alpha subunit [Ruminococcus flavefaciens FD-1] Length = 321 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 124/315 (39%), Positives = 199/315 (63%), Gaps = 6/315 (1%) Query: 9 LIKPNNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 L K N + ++ + + + PL RG+ TLGN+LRRVL+SSL G A+T+V++ G Sbjct: 2 LEKINKPDIDIVELKSDGKYGKFVLAPLERGYGITLGNSLRRVLLSSLPGVAVTSVKLSG 61 Query: 68 ----VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 V HE+S+I GV ED+T+IIL+IKG+ K+ G+ K V I G +TAGDI+T + Sbjct: 62 KDGTVHHELSTIPGVKEDVTEIILSIKGLTAKLYGEGPKTVYIEAEGECEITAGDIKTDS 121 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKK 182 ++ +L+P I L DA + ME+T+ +G GYV A+ ++ + N P+ +I +D++Y+P+ K Sbjct: 122 EVNILDPGMHIATLGKDAKLYMEITIDRGRGYVSAERNKKQINLPVDVIAVDSIYTPVLK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+YTVE R GQV DYDKL+M + TDG+I+ +++++ A+ +L + L +FI+ E + Sbjct: 182 VNYTVEDTRLGQVTDYDKLTMEVWTDGTISAKEALSQAANLLGEHLKLFIDLSEEAGLAE 241 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L +E+L+LSVRS NCL+ I + DLI ++E +M+++ N G+KS Sbjct: 242 VLVEKDEKGKEKILEMTIEDLDLSVRSFNCLKRAGINTVDDLINKSEEEMMKVRNLGKKS 301 Query: 303 LVEIKGVLGTMGLFL 317 E+K L ++G L Sbjct: 302 FDEVKEKLQSLGFDL 316 >gi|37523140|ref|NP_926517.1| DNA-directed RNA polymerase subunit alpha [Gloeobacter violaceus PCC 7421] gi|41688630|sp|Q7NFF5|RPOA_GLOVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|35214143|dbj|BAC91512.1| RNA polymerase alpha subunit [Gloeobacter violaceus PCC 7421] Length = 314 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 112/311 (36%), Positives = 180/311 (57%), Gaps = 8/311 (2%) Query: 15 IEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + E +N + EPL RG TLGNALRRVL+S+L G A+TAV+I GV HE Sbjct: 6 IECVETRTEADNGQYGKFVLEPLERGQGTTLGNALRRVLLSNLEGTAVTAVRITGVNHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++KG+ ED+ DI+LN+K + L+ + + +GP VTA D++ +++V++P H Sbjct: 66 ATMKGIREDVLDILLNMKELVLRSYTSDIQIGRLAVQGPKRVTAADLELPTEVQVVHPRH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L D + ME + +G GY + + I ++IDA++ P++KV++TVES R Sbjct: 126 YIATLAEDGQLEMEFQIERGKGYRAIERGSEDGAAIDYLSIDAIFMPVRKVNWTVESERS 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 ++ D+L++ I T GS++ +++++ A++IL DQL + + + Sbjct: 186 AANVEQDRLTLEIWTSGSLSPQEALSQAAKILVDQLRPL-----QEITFEPPAEPQRSAP 240 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG- 311 N +EEL+LSVR+ NCL+ I + DL++ TE D+L + NFG+KS E+ L Sbjct: 241 NTVGQVPIEELQLSVRAYNCLKRAQINTVADLLEYTEEDLLEIKNFGQKSAEEVIEALQD 300 Query: 312 TMGLFLGMNLP 322 MGL L + P Sbjct: 301 KMGLSLPKDKP 311 >gi|179184612|gb|ACB78154.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 314 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 139/320 (43%), Positives = 207/320 (64%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + KE+ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEKEEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >gi|179184539|gb|ACB78151.1| RNA polymerase alpha subunit [Vibrio gigantis] Length = 314 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 137/320 (42%), Positives = 206/320 (64%), Gaps = 11/320 (3%) Query: 3 QKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 QGSVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTE 57 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 VEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITH 117 Query: 122 VNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 SPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G+KSL EIK VL + GL L Sbjct: 295 LGKKSLTEIKDVLASRGLSL 314 >gi|90194000|gb|ABD92561.1| RpoA [Nicoletella semolina] Length = 302 Score = 330 bits (847), Expect = 1e-88, Method: Composition-based stats. Identities = 134/305 (43%), Positives = 203/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVSIEQVSLTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDVILTLTKSGIGPVIAADIVHDGDVEIVNPNHVICH 120 Query: 137 LDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L +A + M + V +G GYVPA H + +N PIG + +DA +SP+ ++SY VE+AR Sbjct: 121 LTDNNASINMRIRVRRGRGYVPASALVHTQDDNRPIGRLLVDARFSPVDRISYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|154507837|ref|ZP_02043479.1| hypothetical protein ACTODO_00319 [Actinomyces odontolyticus ATCC 17982] gi|293190232|ref|ZP_06608728.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces odontolyticus F0309] gi|153797471|gb|EDN79891.1| hypothetical protein ACTODO_00319 [Actinomyces odontolyticus ATCC 17982] gi|292821048|gb|EFF80001.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces odontolyticus F0309] Length = 331 Score = 330 bits (847), Expect = 2e-88, Method: Composition-based stats. Identities = 116/305 (38%), Positives = 176/305 (57%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + + R+ EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGV HE +I+ Sbjct: 8 ILTEEKVSDLRSRFTLEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVPHEFRTIE 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +IILNIK I L D + + K GPG V AGDI +E+ NPD + Sbjct: 68 GVKEDVAEIILNIKQIVLSSENDEPVVMYLRKAGPGEVLAGDITPPAGVEIHNPDLHLAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + +ELTV +G GYV A ++ I I ID++YSP+ KV+Y VE+ R Q Sbjct: 128 LNEKGKLEIELTVERGRGYVSAAQNKDPQAEISRIPIDSIYSPVVKVTYKVEATRVQQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+D+L + ++T +IT D++A A + L + G+ E + ++ + L Sbjct: 188 DFDRLVIDVETKPAITPRDALASAGKTLVELFGLMRELNEEAEGIEVGPSTTDATLAADL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E L L RS N LR I+ +G+L+ +EAD+L + NFG KS+ EIK L +G+ Sbjct: 248 ALPIENLNLQSRSYNALRRRGILTVGELVAHSEADLLDIRNFGTKSIEEIKESLAALGMT 307 Query: 317 LGMNL 321 L ++ Sbjct: 308 LKDSV 312 >gi|197288307|gb|ACH57436.1| RpoA [Vibrio gallaecicus] Length = 311 Score = 330 bits (847), Expect = 2e-88, Method: Composition-based stats. Identities = 138/317 (43%), Positives = 206/317 (64%), Gaps = 11/317 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVL Sbjct: 1 LKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVL 57 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 HEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIA 117 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVS 184 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++ Sbjct: 118 NPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 YAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLT 294 Query: 305 EIKGVLGTMGLFLGMNL 321 EIK VL + GL LGM L Sbjct: 295 EIKDVLASRGLSLGMRL 311 >gi|58415840|emb|CAH57334.1| RNA polymerase alpha-subunit [Vibrio fluvialis] gi|58415842|emb|CAH57335.1| RNA polymerase alpha-subunit [Vibrio fluvialis] gi|58415852|emb|CAH57340.1| RNA polymerase alpha-subunit [Vibrio furnissii] gi|58415854|emb|CAH57341.1| RNA polymerase alpha-subunit [Vibrio furnissii] gi|58415856|emb|CAH57342.1| RNA polymerase alpha-subunit [Vibrio furnissii] gi|58415858|emb|CAH57343.1| RNA polymerase alpha-subunit [Vibrio furnissii] Length = 309 Score = 330 bits (847), Expect = 2e-88, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90194020|gb|ABD92571.1| RpoA [Actinobacillus arthritidis] Length = 303 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 138/305 (45%), Positives = 206/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+SG +T+ K G G VTA DI D+E++NP H+IC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPVTAADITHDGDVEIVNPHHIICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + + +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDASISMRIRIQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ +I + F Sbjct: 181 EQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EIKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|58415962|emb|CAH57395.1| RNA polymerase alpha-subunit [Vibrio nereis] Length = 309 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +++LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415844|emb|CAH57336.1| RNA polymerase alpha-subunit [Vibrio fluvialis] Length = 309 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFGP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415930|emb|CAH57379.1| RNA polymerase alpha-subunit [Vibrio metschnikovii] gi|58415932|emb|CAH57380.1| RNA polymerase alpha-subunit [Vibrio metschnikovii] gi|58415934|emb|CAH57381.1| RNA polymerase alpha-subunit [Vibrio metschnikovii] Length = 309 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 134/315 (42%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRLGENKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|289423648|ref|ZP_06425447.1| DNA-directed RNA polymerase, alpha subunit [Peptostreptococcus anaerobius 653-L] gi|289155898|gb|EFD04564.1| DNA-directed RNA polymerase, alpha subunit [Peptostreptococcus anaerobius 653-L] Length = 315 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 120/310 (38%), Positives = 196/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RGF T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRFGKFVVEPLERGFGITVGNALRRILLSSLPGVAVYAIRIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+T+IIL++K ++ + + K + I GP V DI ++ + Sbjct: 61 VLHEFSTVPGVKEDVTEIILSLKELSATIDDEEPKVLRIQAIGPCEVKGSDIICPPEVNI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ D I LD A + ME+ V+KG GY+ A+ ++ E+ PIG++ +D++Y+P++KVSY V Sbjct: 121 VSKDLHIATLDEGAKLNMEIYVNKGRGYISAEENKKESMPIGVLPVDSIYTPVEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQRSDFDKLTLEVLTNGSINPQEGISLAAKVLDEHLKLFIDLTEHVGNVEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+ Sbjct: 241 EEDKKEKVLEMTIEELDLSVRSYNCLKRAGINTVEELSNKSEDDMMKVRNLGKKSLEEVI 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 HKLEELELRL 310 >gi|90193992|gb|ABD92557.1| RpoA [Histophilus somni] Length = 302 Score = 330 bits (846), Expect = 2e-88, Method: Composition-based stats. Identities = 137/305 (44%), Positives = 204/305 (66%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q +I EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVDIEQISSTHAKVILEPLERGFGHTLGNALRRILLSSMPGYAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ + +T+ K G G V A DI D+E++NPDHVIC+ Sbjct: 61 GVQEDIIEVLLNLKGLAVKVQNKDNVFLTLSKSGIGPVVAADITHDGDVEIVNPDHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H E PIG + +DA YSP+ +++Y V++AR Sbjct: 121 LTDENASINMRIRVQRGRGYVPASSRVHSLDEERPIGRLLVDACYSPVDRIAYNVQAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIELETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLVS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|58415948|emb|CAH57388.1| RNA polymerase alpha-subunit [Vibrio navarrensis] Length = 309 Score = 330 bits (845), Expect = 2e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|90194002|gb|ABD92562.1| RpoA [Phocoenobacter uteri] Length = 302 Score = 330 bits (845), Expect = 2e-88, Method: Composition-based stats. Identities = 134/305 (43%), Positives = 205/305 (67%), Gaps = 7/305 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G V A DI D+E++NP+HVIC+ Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIVLTLNKSGIGPVIAADITHDGDVEIVNPEHVICH 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D DA + M + V +G GYVPA H ++++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKDASINMRIRVQRGRGYVPASARVHSQSDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLIIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLAS 297 Query: 313 MGLFL 317 GL L Sbjct: 298 RGLSL 302 >gi|58415754|emb|CAH57291.1| RNA polymerase alpha-subunit [Vibrio brasiliensis] gi|58415756|emb|CAH57292.1| RNA polymerase alpha-subunit [Vibrio brasiliensis LMG 20546] gi|58415798|emb|CAH57313.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415800|emb|CAH57314.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415802|emb|CAH57315.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415804|emb|CAH57316.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus ATCC BAA-450] gi|58415806|emb|CAH57317.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415808|emb|CAH57318.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415810|emb|CAH57319.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] gi|58415892|emb|CAH57360.1| RNA polymerase alpha-subunit [Vibrio hepatarius] gi|58415956|emb|CAH57392.1| RNA polymerase alpha-subunit [Vibrio neptunius] gi|58415958|emb|CAH57393.1| RNA polymerase alpha-subunit [Vibrio neptunius] gi|58415960|emb|CAH57394.1| RNA polymerase alpha-subunit [Vibrio neptunius] gi|58415974|emb|CAH57401.1| RNA polymerase alpha-subunit [Vibrio orientalis] gi|58416052|emb|CAH57440.1| RNA polymerase alpha-subunit [Vibrio sp. R-23286] gi|58416070|emb|CAH57449.1| RNA polymerase alpha-subunit [Vibrio sp. R-23696] gi|58416098|emb|CAH57463.1| RNA polymerase alpha-subunit [Vibrio tubiashii] gi|58416100|emb|CAH57464.1| RNA polymerase alpha-subunit [Vibrio tubiashii] gi|58416102|emb|CAH57465.1| RNA polymerase alpha-subunit [Vibrio tubiashii] gi|58416112|emb|CAH57470.1| RNA polymerase alpha-subunit [Vibrio xuii] gi|58416114|emb|CAH57471.1| RNA polymerase alpha-subunit [Vibrio xuii] gi|58416116|emb|CAH57472.1| RNA polymerase alpha-subunit [Vibrio xuii] Length = 309 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|179184326|gb|ACB78143.1| RNA polymerase alpha subunit [Vibrio breoganii] Length = 311 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 139/317 (43%), Positives = 206/317 (64%), Gaps = 11/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+ Sbjct: 1 TEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIE 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+ Sbjct: 58 GVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDV 117 Query: 126 EVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIK 181 E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ Sbjct: 118 EIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVD 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 K++Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + Sbjct: 178 KIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPE 237 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 KE+ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 KEEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLG 318 SL EIK VL + GL LG Sbjct: 295 SLTEIKDVLASRGLSLG 311 >gi|90194028|gb|ABD92575.1| RpoA [Actinobacillus equuli subsp. equuli] Length = 300 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 136/300 (45%), Positives = 204/300 (68%), Gaps = 7/300 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV ED Sbjct: 3 NNQFTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQED 62 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVD 140 + +++LN+KG+ +K+S +T+ K G G VTA DI D+E++NP+HVIC+L D + Sbjct: 63 ILEVLLNLKGLAVKVSNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPNHVICHLTDKN 122 Query: 141 AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A + M + V +G GYVPA H + E+ PIG + +DA +SP+ +++Y VE+AR Q D Sbjct: 123 ASINMRIRVQRGRGYVPASARVHSQDEDRPIGRLLVDARFSPVDRIAYNVEAARVEQRTD 182 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P LL Sbjct: 183 LDKLIIEMETNGTIDPEEAIRRAATILAEQLDAFVDLRDVRQP---EVKEEKPEFDPILL 239 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 240 RPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 299 >gi|45644721|gb|AAS73109.1| predicted DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EBAC20E09] Length = 321 Score = 330 bits (845), Expect = 3e-88, Method: Composition-based stats. Identities = 133/325 (40%), Positives = 204/325 (62%), Gaps = 6/325 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +L+ P I+ + + + EPL RGF HTLGNALRR+L+SS+ GAA+T Sbjct: 1 MQTSVIDLLVPTEIQ---VDDVSPTLSKVTLEPLERGFGHTLGNALRRILLSSMPGAAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V I+G+ HE S+I+GV ED+ DI+LNIK + +K+ + + GP V A Sbjct: 58 DVAIEGISHEYSTIEGVREDVIDILLNIKDMPIKLIEGDAAEIILDVTGPCDVLASSFAA 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++E+++ D I + ++M LTV G GY PA E+ +G + +DA YSP++ Sbjct: 118 PGNLELVDQDFHIATIVDKVNLKMTLTVKTGRGYEPADLREDEDRAVGALKVDASYSPVR 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +VSYTV++AR G+ D DKL + ++TDG++ + ++ ++ ILQ QLG F++ + Sbjct: 178 RVSYTVDNARSGKRTDLDKLVIELETDGTLDPKMAIEHSATILQQQLGAFVDLDAIA--- 234 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +++ F+P LL+ +EELEL+VRSTNCL+ E+I +GDLI R+E D+L+ N G+K Sbjct: 235 EQEAKKDQNDFDPILLRSIEELELTVRSTNCLKAESIFLIGDLIHRSEFDLLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 SL EIK VL + L LGMN+ +WPP Sbjct: 295 SLNEIKDVLASKNLSLGMNVENWPP 319 >gi|58415986|emb|CAH57407.1| RNA polymerase alpha-subunit [Vibrio pectenicida] gi|58415988|emb|CAH57408.1| RNA polymerase alpha-subunit [Vibrio pectenicida] gi|58415990|emb|CAH57409.1| RNA polymerase alpha-subunit [Vibrio pectenicida] Length = 309 Score = 329 bits (844), Expect = 3e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 TNPEHVICHLTDGNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415794|emb|CAH57311.1| RNA polymerase alpha-subunit [Vibrio cincinnatiensis] Length = 309 Score = 329 bits (844), Expect = 3e-88, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRLGENKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 +NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 VNPEHVICHLTSDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|326792578|ref|YP_004310399.1| DNA-directed RNA polymerase subunit alpha [Clostridium lentocellum DSM 5427] gi|326543342|gb|ADZ85201.1| DNA-directed RNA polymerase subunit alpha [Clostridium lentocellum DSM 5427] Length = 321 Score = 329 bits (844), Expect = 3e-88, Method: Composition-based stats. Identities = 128/316 (40%), Positives = 196/316 (62%), Gaps = 8/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP IE L Q+ + + EPL RG+ TLGN+LRR+L SSL G+AI++V++DG Sbjct: 3 EFEKP-QIEIKELSQDGK-YGCFVVEPLERGYGITLGNSLRRILSSSLPGSAISSVKVDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+ +IILN+KG+ ++ G K + I K G G VT DI+ +I Sbjct: 61 VLHEFSSIPGVKEDVVEIILNLKGLAIRDTSQGTEPKVIYIEKSGEGPVTGADIKCGPEI 120 Query: 126 EVLNPDHVICNLDVDAV--VRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL--YSPIK 181 E+LNP+H I L+ A + +E+TV+ G GY + + PIG+I +DA Y+P++ Sbjct: 121 EILNPEHHIATLNGGANSNLSIEMTVTTGRGYEGVDKLKKTDLPIGVIPVDANANYTPVE 180 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V++ VE R GQ DYDKL++ + T+G++ +++V+LA+++L + L +FI+ E + Sbjct: 181 RVNFIVEDTRVGQQTDYDKLTLEVWTNGTLKPDEAVSLAAKVLSEHLNLFIDLSENARTT 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + + L +EEL+LSVRS NCL+ I + DL +TE +M+++ N GRK Sbjct: 241 EIMVTKEDDSKEKTLEMTIEELDLSVRSFNCLKRAGINTVEDLTNKTEEEMMKVRNLGRK 300 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+ L +G L Sbjct: 301 SLEEVFQKLNELGFQL 316 >gi|58416062|emb|CAH57445.1| RNA polymerase alpha-subunit [Vibrio sp. R-23692] Length = 309 Score = 329 bits (844), Expect = 3e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +++LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|210631180|ref|ZP_03296791.1| hypothetical protein COLSTE_00676 [Collinsella stercoris DSM 13279] gi|210160147|gb|EEA91118.1| hypothetical protein COLSTE_00676 [Collinsella stercoris DSM 13279] Length = 313 Score = 329 bits (844), Expect = 4e-88, Method: Composition-based stats. Identities = 118/314 (37%), Positives = 188/314 (59%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + + + + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPQ----VHVEEISDTAARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 G HE ++I + ED+TDI+LN+KG+ + G + + TI GP VT D ++ Sbjct: 58 GAQHEFTTIPNMVEDVTDIVLNVKGLVFRTLGTTDEGTATISVDGPCEVTGADFFIPSEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NP+ I L + M + + G GYV + ++ +NDPIG+I +D+L+SP+K+ + Sbjct: 118 ELVNPEQHIATLTEGGHLTMSMRIGYGRGYVSYEQNKRDNDPIGIIHVDSLFSPVKRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ DYD+L + I+T+G+I D+V A+ I+ + F+ + + +E Sbjct: 178 LVEACRVGQHTDYDRLVLEIETNGAINPRDAVVSAANIINQHMAAFMTLADEPEAEEEIS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS+ Sbjct: 238 IFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L +MGL L Sbjct: 298 EEVKDKLESMGLSL 311 >gi|58416028|emb|CAH57428.1| RNA polymerase alpha-subunit [Vibrio sp. R-21415] Length = 309 Score = 329 bits (844), Expect = 4e-88, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|312144220|ref|YP_003995666.1| DNA-directed RNA polymerase, alpha subunit [Halanaerobium sp. 'sapolanicus'] gi|311904871|gb|ADQ15312.1| DNA-directed RNA polymerase, alpha subunit [Halanaerobium sp. 'sapolanicus'] Length = 314 Score = 329 bits (844), Expect = 4e-88, Method: Composition-based stats. Identities = 129/313 (41%), Positives = 201/313 (64%), Gaps = 5/313 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + + ++N PL RG+ TLGN+LRR+L+SSL GAA+T+V+++G Sbjct: 3 EIEKPR----VERLESDDNYGRYEISPLERGYGTTLGNSLRRILLSSLPGAALTSVKVEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED+TD+ILN+K + +K SG+ + I G G VTAGD T D++V Sbjct: 59 VKHEFSAISGVVEDMTDLILNLKEVVVKFSGEEQSTIRIEAEGEGEVTAGDFITSGDVQV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYT 186 +N DH I L D + +E TV KG GY A+ ++ + IGLI ID+ +SPI++ ++ Sbjct: 119 INKDHHIATLAEDGRLLLEATVEKGRGYHTAEENKDHFDKVIGLIPIDSSFSPIERANFN 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ R GQV DYD+L + + T+GSI +D+++LA++I+ + L +FIN + ++V+ + Sbjct: 179 IENTRVGQVTDYDRLILEVKTNGSIHPDDAISLAAKIMVEHLELFINLTDEIEDVEIMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V+ + L +EELELSVRS+NCL+ I + +L+ +TE D++++ N G+KSL EI Sbjct: 239 VEEEEKDKILDTTIEELELSVRSSNCLKRAGINTVEELVDKTEDDLMKVRNLGKKSLQEI 298 Query: 307 KGVLGTMGLFLGM 319 K L + L L Sbjct: 299 KDKLDELELELKD 311 >gi|241888925|ref|ZP_04776229.1| DNA-directed RNA polymerase, alpha subunit [Gemella haemolysans ATCC 10379] gi|241864174|gb|EER68552.1| DNA-directed RNA polymerase, alpha subunit [Gemella haemolysans ATCC 10379] Length = 313 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 130/309 (42%), Positives = 190/309 (61%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ I ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKP-KIQIIE-ESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE +IKGV ED+T+II+N+K I + + K+V+I +GP VVTA DI +DIEV+ Sbjct: 62 QHEFQAIKGVVEDVTEIIMNVKNIAFVVHSEEEKQVSISVKGPAVVTAADIAIDSDIEVV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D I + M + V KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE Sbjct: 122 NTDQHIATVSEGGQFEMIIYVGKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ D+DKL + + T+GSIT D++ALAS+IL L +F+ E K + + + Sbjct: 182 KTRVGQSTDFDKLILDVTTNGSITANDALALASKILISHLELFMEMSEEAKAAEILVAKE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L +EEL+LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 242 EDNKVQMLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEQEMIKVRNLGRKSLEEVKI 301 Query: 309 VLGTMGLFL 317 L + L Sbjct: 302 KLQELELGF 310 >gi|116515234|ref|YP_802863.1| DNA-directed RNA polymerase subunit alpha [Buchnera aphidicola str. Cc (Cinara cedri)] gi|122285370|sp|Q057C9|RPOA_BUCCC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116257088|gb|ABJ90770.1| RNA polymerase, a subunit [Buchnera aphidicola str. Cc (Cinara cedri)] Length = 329 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 140/334 (41%), Positives = 211/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPRLVDIQQI---SATHAKITLEPLERGFGHTLGNALRRILLSSISGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDG+LHE +GV ED+ DI+LN+KG+++K+ G + + K G G V A DI Sbjct: 58 EVEIDGILHEYMHKEGVKEDILDILLNLKGLSIKLFGKDEVTLYLKKSGIGPVLAKDINH 117 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D +I +D Y Sbjct: 118 DNSTEIINNKHIICNLTCSDASIDIRMKVTRGRGYITAKSRKENYDNEHIIGKLFLDVTY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI+++ YTVESAR Q D DKL + ++T+G+I ED++ A+ IL QL F++ Sbjct: 178 SPIERIMYTVESARVEQRTDLDKLIIEMETNGTIDPEDAIRKAATILAQQLEAFVDLRGV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPEIKEEKPEFEP---VLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >gi|58416006|emb|CAH57417.1| RNA polymerase alpha-subunit [Vibrio rotiferianus] gi|58416008|emb|CAH57418.1| RNA polymerase alpha-subunit [Vibrio rotiferianus] gi|58416030|emb|CAH57429.1| RNA polymerase alpha-subunit [Vibrio sp. R-21416] gi|58416034|emb|CAH57431.1| RNA polymerase alpha-subunit [Vibrio sp. R-21422] gi|58416104|emb|CAH57466.1| RNA polymerase alpha-subunit [Vibrio vulnificus] gi|58416106|emb|CAH57467.1| RNA polymerase alpha-subunit [Vibrio vulnificus] Length = 309 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|32423696|gb|AAP81239.1| RNA polymerase alpha subunit [Candidatus Portiera aleyrodidarum] Length = 329 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 143/326 (43%), Positives = 208/326 (63%), Gaps = 7/326 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + E ++P+ I + N ++ EPL RGF HTLGNALRR+L+S + G A+ + Sbjct: 3 SVNEFVRPSKINVEAISN---NHAIISLEPLERGFGHTLGNALRRILLSYMPGCAVVEAE 59 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I GV HE S I G+ ED+ +IILNIK I +K+ G + + K G GVV AGDI+ D Sbjct: 60 IKGVQHEYSVIDGIKEDVIEIILNIKEIAIKLYGIDEIELELKKIGSGVVKAGDIKARQD 119 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +EV+NPDHVI +L+ + M+L +G GY PA + G I IDA +SP+K+V+ Sbjct: 120 VEVINPDHVIAHLNDHGELNMKLRFVRGRGYEPAYLRNKSDKNYGRIQIDAKFSPVKRVA 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-FEEPKKEVKE 243 Y VESAR Q D+DKL + ++T+G++ E+++ +++IL++QL F++ E KK V+ Sbjct: 180 YFVESARVEQKTDFDKLIIELETNGTLDPEEAIRTSAKILRNQLDFFVDLSCENKKHVEN 239 Query: 244 DIN---VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ + ALL VE+LEL+VRS NCL+ ENI Y+GDL++RTE ++L+ N G+ Sbjct: 240 EVEHDRRTDTKIDKALLLPVEDLELTVRSANCLKAENIFYIGDLVKRTEGELLKTPNLGK 299 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP 326 KSL EIK VL GL LGM++ WPP Sbjct: 300 KSLNEIKKVLKVRGLALGMHIDLWPP 325 >gi|58415866|emb|CAH57347.1| RNA polymerase alpha-subunit [Vibrio halioticoli] gi|58415868|emb|CAH57348.1| RNA polymerase alpha-subunit [Vibrio halioticoli] gi|58415870|emb|CAH57349.1| RNA polymerase alpha-subunit [Vibrio halioticoli] gi|58415950|emb|CAH57389.1| RNA polymerase alpha-subunit [Vibrio neonatus] gi|58415952|emb|CAH57390.1| RNA polymerase alpha-subunit [Vibrio neonatus] gi|58415954|emb|CAH57391.1| RNA polymerase alpha-subunit [Vibrio neonatus] Length = 309 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDDVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNADIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPI 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|190341461|gb|ACE74807.1| RpoA [Cronobacter sakazakii] Length = 301 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 136/303 (44%), Positives = 203/303 (66%), Gaps = 7/303 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV Sbjct: 2 IEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQ 61 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-D 138 ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI D+E++ P HVIC+L D Sbjct: 62 EDILEILLNLKGLAVRVQGKDEVVLTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTD 121 Query: 139 VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 +A + M + V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q Sbjct: 122 ENASISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQR 181 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 182 TDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPI 238 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL Sbjct: 239 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGL 298 Query: 316 FLG 318 LG Sbjct: 299 SLG 301 >gi|58415918|emb|CAH57373.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58415920|emb|CAH57374.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58415922|emb|CAH57375.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58415924|emb|CAH57376.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58415926|emb|CAH57377.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58415928|emb|CAH57378.1| RNA polymerase alpha-subunit [Vibrio mediterranei] gi|58416020|emb|CAH57424.1| RNA polymerase alpha-subunit [Vibrio shilonii AK1] gi|58416072|emb|CAH57450.1| RNA polymerase alpha-subunit [Vibrio sp. R-23697] Length = 309 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415740|emb|CAH57284.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] gi|58415742|emb|CAH57285.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] gi|58415746|emb|CAH57287.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] gi|58415748|emb|CAH57288.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] gi|58415760|emb|CAH57294.1| RNA polymerase alpha-subunit [Vibrio campbellii] gi|58415762|emb|CAH57295.1| RNA polymerase alpha-subunit [Vibrio campbellii] gi|58415764|emb|CAH57296.1| RNA polymerase alpha-subunit [Vibrio campbellii] gi|58415766|emb|CAH57297.1| RNA polymerase alpha-subunit [Vibrio campbellii] gi|58415768|emb|CAH57298.1| RNA polymerase alpha-subunit [Vibrio campbellii] gi|58415818|emb|CAH57323.1| RNA polymerase alpha-subunit [Vibrio diabolicus] gi|58415872|emb|CAH57350.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415874|emb|CAH57351.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415876|emb|CAH57352.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415878|emb|CAH57353.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415880|emb|CAH57354.1| RNA polymerase alpha-subunit [Vibrio communis] gi|58415882|emb|CAH57355.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415884|emb|CAH57356.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415886|emb|CAH57357.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415888|emb|CAH57358.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415890|emb|CAH57359.1| RNA polymerase alpha-subunit [Vibrio harveyi] gi|58415982|emb|CAH57405.1| RNA polymerase alpha-subunit [Vibrio parahaemolyticus] gi|58415984|emb|CAH57406.1| RNA polymerase alpha-subunit [Vibrio parahaemolyticus] gi|58416024|emb|CAH57426.1| RNA polymerase alpha-subunit [Vibrio sp. R-21410] gi|58416026|emb|CAH57427.1| RNA polymerase alpha-subunit [Vibrio sp. R-21413] gi|58416036|emb|CAH57432.1| RNA polymerase alpha-subunit [Vibrio sp. R-21426] gi|58416038|emb|CAH57433.1| RNA polymerase alpha-subunit [Vibrio sp. R-21427] gi|58416066|emb|CAH57447.1| RNA polymerase alpha-subunit [Vibrio sp. R-23694] Length = 309 Score = 329 bits (843), Expect = 4e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415830|emb|CAH57329.1| RNA polymerase alpha-subunit [Vibrio ezurae] gi|58415832|emb|CAH57330.1| RNA polymerase alpha-subunit [Vibrio ezurae] gi|58415834|emb|CAH57331.1| RNA polymerase alpha-subunit [Vibrio ezurae] Length = 309 Score = 329 bits (843), Expect = 5e-88, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNADIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPI 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|269925858|ref|YP_003322481.1| DNA-directed RNA polymerase, alpha subunit [Thermobaculum terrenum ATCC BAA-798] gi|269789518|gb|ACZ41659.1| DNA-directed RNA polymerase, alpha subunit [Thermobaculum terrenum ATCC BAA-798] Length = 367 Score = 328 bits (842), Expect = 5e-88, Method: Composition-based stats. Identities = 126/325 (38%), Positives = 190/325 (58%), Gaps = 8/325 (2%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + EL P +E I + +N PL G+ T+GNALRRVL+SSL GAAIT+VQ Sbjct: 21 SVIELTTP-KVECIGI---ADNYGRFSISPLAPGYGLTIGNALRRVLLSSLEGAAITSVQ 76 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+G HE ++ GV ED+TDIILNIK I ++ D + + GP VVTA DI+ D Sbjct: 77 IEGARHEFMALPGVKEDVTDIILNIKRIRVRSYSDRPVTLRLEATGPKVVTAADIRPHAD 136 Query: 125 IEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +++++ D I LD DA + M+LTV KG GYVPA+ + IG I +DA+YSP+ KV Sbjct: 137 VDIVSLDQPIATLDSEDATLSMQLTVQKGRGYVPAESQ--DFFEIGRIPVDAIYSPVTKV 194 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE R GQ DYD L + I TDG+I ++++ A+ IL Q + + + Sbjct: 195 NYVVERTRVGQRTDYDNLIIEIWTDGTIAPGEALSQAASILVGQFQIIAAYANAETSFGI 254 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ +++ + ++EL LS R+ N L+ +I +G ++ +T+ D+L + NFG KSL Sbjct: 255 ELPTETMSVPEVDNRSIDELGLSARTLNSLKRAHITTVGQVLSKTKDDLLSIRNFGDKSL 314 Query: 304 VEIKGVLGTMGLFLGMNLPDWPPES 328 E++ L G +L +LP+ E+ Sbjct: 315 HELEAKLKEFG-YLPSDLPEGAIEN 338 >gi|58415822|emb|CAH57325.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 328 bits (842), Expect = 5e-88, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 ANPEHVICHLTDSNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V+ AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDPARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|329768299|ref|ZP_08259800.1| DNA-directed RNA polymerase subunit alpha [Gemella haemolysans M341] gi|328837498|gb|EGF87127.1| DNA-directed RNA polymerase subunit alpha [Gemella haemolysans M341] Length = 313 Score = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 130/309 (42%), Positives = 190/309 (61%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ I ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKP-KIQIIE-ESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE +IKGV ED+T+II+N+K I + + K+V+I +GP VVTA DI +DIEV+ Sbjct: 62 QHEFQAIKGVVEDVTEIIMNVKNIAFVVHSEEEKQVSISVKGPAVVTAADIAIDSDIEVV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D I + M + V KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE Sbjct: 122 NTDQHIATVSEGGQFEMIIYVGKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ D+DKL + + T+GSIT D++ALAS+IL L +F+ E K + + + Sbjct: 182 KTRVGQSTDFDKLILDVTTNGSITANDALALASKILISHLELFMEMSEEAKAAEILVAKE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L +EEL+LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 242 EDNKVQMLEMTIEELDLSVRSYNCLKRAGINTVQELASKTEQEMIKVRNLGRKSLEEVKI 301 Query: 309 VLGTMGLFL 317 L + L Sbjct: 302 KLQELELGF 310 >gi|58415758|emb|CAH57293.1| RNA polymerase alpha-subunit [Vibrio campbellii] Length = 309 Score = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+++++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLSVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|139438878|ref|ZP_01772338.1| Hypothetical protein COLAER_01342 [Collinsella aerofaciens ATCC 25986] gi|133775589|gb|EBA39409.1| Hypothetical protein COLAER_01342 [Collinsella aerofaciens ATCC 25986] Length = 313 Score = 328 bits (842), Expect = 6e-88, Method: Composition-based stats. Identities = 122/314 (38%), Positives = 187/314 (59%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + + E + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPQ----VQVEEINETSARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 G HE +I + ED+TDI+LN+KG+ + G + + TI GP VT D ++ Sbjct: 58 GAQHEFMTIPNMVEDVTDIVLNVKGLVFRALGTTDEATATISVDGPCEVTGADFFIPSEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NP+ I L + M + + G GYV + ++ +NDPIG+I +D+LYSP+ + + Sbjct: 118 ELVNPEQHIATLTEGGHLTMSMRIGYGRGYVSGEANKRDNDPIGVIHVDSLYSPVSRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ DYD+L + I+T+GSI D+V A+ I+ + F+N E + +E Sbjct: 178 LVEACRVGQHTDYDRLVLEIETNGSIAPRDAVVQAANIINQHMAAFMNLAETPEVEEEAS 237 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS+ Sbjct: 238 IFAPEVTNDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L +MGL L Sbjct: 298 EEVKDKLESMGLSL 311 >gi|58415898|emb|CAH57363.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri] gi|58415900|emb|CAH57364.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri] gi|58415902|emb|CAH57365.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri] gi|58416014|emb|CAH57421.1| RNA polymerase alpha-subunit [Vibrio scophthalmi LMG 19158] gi|58416016|emb|CAH57422.1| RNA polymerase alpha-subunit [Vibrio scophthalmi] gi|58416018|emb|CAH57423.1| RNA polymerase alpha-subunit [Vibrio scophthalmi] Length = 309 Score = 328 bits (842), Expect = 7e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 TNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|300244653|gb|ADJ93835.1| RNA polymerase alpha subunit [Vibrio sp. G21] Length = 309 Score = 328 bits (842), Expect = 7e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVYITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ +L +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATVLAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58416002|emb|CAH57415.1| RNA polymerase alpha-subunit [Vibrio proteolyticus] gi|58416004|emb|CAH57416.1| RNA polymerase alpha-subunit [Vibrio proteolyticus] Length = 309 Score = 328 bits (841), Expect = 7e-88, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|40063201|gb|AAR38038.1| DNA-directed RNA polymerase, alpha subunit [uncultured marine bacterium 562] Length = 321 Score = 328 bits (841), Expect = 7e-88, Method: Composition-based stats. Identities = 133/325 (40%), Positives = 204/325 (62%), Gaps = 6/325 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +L+ P I+ + N + + EPL RGF HTLGNALRR+L+SS+ GAA+T Sbjct: 1 MQISVIDLLVPTEIQ---VDDITPNLSKITLEPLERGFGHTLGNALRRILLSSMPGAAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDG+ HE S+I+GV ED+ DI+LNIK + + + + +T+ GP V A Sbjct: 58 DVAIDGISHEYSTIEGVREDVIDILLNIKDMPVNIIEGNTAEITLDVTGPCDVLASSFDV 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++E++N D + + ++M LTV G GY PA E+ +G + +DA YSP++ Sbjct: 118 PGNVELVNQDFHVATIVDKVNLKMTLTVQTGRGYEPADTRDDEDRVVGALKVDASYSPVR 177 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +VSYTV++AR + D DKL + ++TDG++ + ++ ++ ILQ QL F++ + Sbjct: 178 RVSYTVDNARFEKRTDLDKLVIELETDGTLDPKMAIEHSATILQQQLSSFVDLDAIA--- 234 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +++ F+P LL+ +EELEL+VRSTNCL+ E+I +GDLI R+E D+L+ N G+K Sbjct: 235 EQEAKKDQNDFDPFLLRSIEELELTVRSTNCLKAESIFLIGDLIHRSEFDLLKTPNLGKK 294 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPP 326 SL EIK VL + L LGMN+ +WPP Sbjct: 295 SLNEIKDVLASKELSLGMNVDNWPP 319 >gi|58415820|emb|CAH57324.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] gi|58415824|emb|CAH57326.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 328 bits (841), Expect = 7e-88, Method: Composition-based stats. Identities = 133/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 ANPEHVICHLTDSNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415946|emb|CAH57387.1| RNA polymerase alpha-subunit [Vibrio natriegens] Length = 309 Score = 328 bits (840), Expect = 9e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GY+PA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYIPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415744|emb|CAH57286.1| RNA polymerase alpha-subunit [Vibrio alginolyticus] Length = 309 Score = 328 bits (840), Expect = 9e-88, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +++LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEVLLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASCGLSLG 309 >gi|58415860|emb|CAH57344.1| RNA polymerase alpha-subunit [Vibrio gallicus] gi|58416084|emb|CAH57456.1| RNA polymerase alpha-subunit [Vibrio superstes] gi|179184721|gb|ACB78158.1| RNA polymerase alpha subunit [Vibrio superstes] gi|179184755|gb|ACB78159.1| RNA polymerase alpha subunit [Vibrio gallicus] Length = 309 Score = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + KE Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKE 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415770|emb|CAH57299.1| RNA polymerase alpha-subunit [Vibrio chagasii] gi|58415772|emb|CAH57300.1| RNA polymerase alpha-subunit [Vibrio chagasii] gi|58415774|emb|CAH57301.1| RNA polymerase alpha-subunit [Vibrio chagasii] gi|58415812|emb|CAH57320.1| RNA polymerase alpha-subunit [Vibrio cyclitrophicus] gi|58415814|emb|CAH57321.1| RNA polymerase alpha-subunit [Vibrio cyclitrophicus] gi|58415816|emb|CAH57322.1| RNA polymerase alpha-subunit [Vibrio cyclitrophicus] gi|58415846|emb|CAH57337.1| RNA polymerase alpha-subunit [Vibrio fortis] gi|58415848|emb|CAH57338.1| RNA polymerase alpha-subunit [Vibrio fortis] gi|58415850|emb|CAH57339.1| RNA polymerase alpha-subunit [Vibrio fortis] gi|58415904|emb|CAH57366.1| RNA polymerase alpha-subunit [Vibrio kanaloae] gi|58415906|emb|CAH57367.1| RNA polymerase alpha-subunit [Vibrio kanaloae] gi|58415908|emb|CAH57368.1| RNA polymerase alpha-subunit [Vibrio lentus] gi|58415910|emb|CAH57369.1| RNA polymerase alpha-subunit [Vibrio lentus] gi|58415912|emb|CAH57370.1| RNA polymerase alpha-subunit [Vibrio lentus] gi|58415914|emb|CAH57371.1| RNA polymerase alpha-subunit [Vibrio lentus] gi|58415992|emb|CAH57410.1| RNA polymerase alpha-subunit [Listonella pelagia] gi|58415994|emb|CAH57411.1| RNA polymerase alpha-subunit [Listonella pelagia] gi|58415998|emb|CAH57413.1| RNA polymerase alpha-subunit [Vibrio pomeroyi] gi|58416000|emb|CAH57414.1| RNA polymerase alpha-subunit [Vibrio pomeroyi] gi|58416022|emb|CAH57425.1| RNA polymerase alpha-subunit [Vibrio sp. R-21409] gi|58416040|emb|CAH57434.1| RNA polymerase alpha-subunit [Vibrio sp. R-21431] gi|58416054|emb|CAH57441.1| RNA polymerase alpha-subunit [Vibrio sp. R-23685] gi|58416056|emb|CAH57442.1| RNA polymerase alpha-subunit [Vibrio sp. R-23689] gi|58416058|emb|CAH57443.1| RNA polymerase alpha-subunit [Vibrio sp. R-23690] gi|58416060|emb|CAH57444.1| RNA polymerase alpha-subunit [Vibrio sp. R-23691] gi|58416064|emb|CAH57446.1| RNA polymerase alpha-subunit [Vibrio sp. R-23693] gi|58416074|emb|CAH57451.1| RNA polymerase alpha-subunit [Vibrio splendidus] gi|58416076|emb|CAH57452.1| RNA polymerase alpha-subunit [Vibrio splendidus] gi|58416078|emb|CAH57453.1| RNA polymerase alpha-subunit [Vibrio splendidus] gi|58416080|emb|CAH57454.1| RNA polymerase alpha-subunit [Vibrio splendidus] gi|58416082|emb|CAH57455.1| RNA polymerase alpha-subunit [Vibrio splendidus] gi|58416092|emb|CAH57460.1| RNA polymerase alpha-subunit [Vibrio tasmaniensis] gi|58416094|emb|CAH57461.1| RNA polymerase alpha-subunit [Vibrio tasmaniensis] gi|58416096|emb|CAH57462.1| RNA polymerase alpha-subunit [Vibrio tasmaniensis] gi|179184408|gb|ACB78146.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7226] gi|179184453|gb|ACB78148.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7224] gi|179184476|gb|ACB78149.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7225] Length = 309 Score = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415976|emb|CAH57402.1| RNA polymerase alpha-subunit [Vibrio pacinii] gi|58415978|emb|CAH57403.1| RNA polymerase alpha-subunit [Vibrio pacinii] gi|58415980|emb|CAH57404.1| RNA polymerase alpha-subunit [Vibrio pacinii] Length = 309 Score = 328 bits (840), Expect = 1e-87, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ + + G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVHVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L + +A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTNDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|299143167|ref|ZP_07036247.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus sp. oral taxon 386 str. F0131] gi|298517652|gb|EFI41391.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus sp. oral taxon 386 str. F0131] Length = 315 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 136/310 (43%), Positives = 197/310 (63%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP+ IE + L + + EPL G+ T+GN+LRRVL+SSL GAAI+ + I G Sbjct: 3 EIEKPS-IEKLELDE-SGVYGKFVVEPLESGYGITIGNSLRRVLLSSLPGAAISFINIRG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ IILNIKGI LK + D +V I K+G G + A DIQT D+E+ Sbjct: 61 VEHEFATIPGVLEDVPQIILNIKGIVLKTNEDEPVKVIIEKKGEGEILASDIQTGGDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH I L+ DA V +ELT+ +G GY P++ + E IG+I ID+ Y+PIKKV++ V Sbjct: 121 INLDHHIATLNEDADVYIELTIERGRGYEPSELKKDEITEIGVIPIDSNYTPIKKVNWKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R G DYD+L + + TDGS+ +++ +LA++IL + L +FI E V + Sbjct: 181 ENTRVGNRTDYDRLILEVTTDGSMKADEATSLAAKILTEHLNLFIGLTEHVNNVNIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ NI + +L Q++E DM+++ N G+KSL E++ Sbjct: 241 EEDQKEKVLEMTVEELDLSVRSFNCLKRANINTVEELTQKSEDDMMKVRNLGKKSLEEVE 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 NKLAELGLGL 310 >gi|58416086|emb|CAH57457.1| RNA polymerase alpha-subunit [Vibrio tapetis] gi|58416088|emb|CAH57458.1| RNA polymerase alpha-subunit [Vibrio tapetis] gi|58416090|emb|CAH57459.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 309 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|119484809|ref|ZP_01619291.1| DNA-directed RNA polymerase alpha subunit [Lyngbya sp. PCC 8106] gi|119457627|gb|EAW38751.1| DNA-directed RNA polymerase alpha subunit [Lyngbya sp. PCC 8106] Length = 314 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 112/311 (36%), Positives = 173/311 (55%), Gaps = 10/311 (3%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE I + + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 KIECIESNTDTDRSQYGKFVLEPLDRGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +I+LN+K I L + + + +GP VTAG +++EV++ + Sbjct: 65 FATIPGVREDVLEILLNLKEIVLNSYSNQRQIGRLLVQGPATVTAGHFDLPSEVEVVDKN 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L + + ME V KG GY +R E + + IDA++ P++KV+YTVE AR Sbjct: 125 QYIATLSPGSTLEMEFQVEKGTGYRAIDRNRDEATAVDFLQIDAVFMPVRKVNYTVEDAR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G L+ D+L + I T+GS+T +++++ A+ IL D ++ ++ Sbjct: 185 VGGSLEKDRLILDIWTNGSLTPQEALSQAATILVDLFVPL-----KDITLESIKTDQTDD 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL T+ D+L + NFG+KS E+ L Sbjct: 240 VDPTSQIPIEELQLSVRAYNCLKRAQINSVADLRDYTQEDLLEIKNFGQKSAEEVIEAL- 298 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 299 --QKRLGITLP 307 >gi|160914535|ref|ZP_02076750.1| hypothetical protein EUBDOL_00541 [Eubacterium dolichum DSM 3991] gi|158433693|gb|EDP11982.1| hypothetical protein EUBDOL_00541 [Eubacterium dolichum DSM 3991] Length = 319 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 127/301 (42%), Positives = 187/301 (62%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED Sbjct: 15 NEADNYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 ++ +ILNIK + +K+ D + I K+GPG VT DI +EVL+ D IC L+ Sbjct: 75 VSAMILNIKTLVMKIQDDEIYTLRISKQGPGEVTGADIICPEGVEVLSKDLHICTLEEGG 134 Query: 142 VVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 ++ MEL G GYV A ++ T N P+G+I D++Y+PI++V+Y E R GQ Sbjct: 135 MLEMELQARNGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIERVAYNAEPTRVGQNAH 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE-DINVKSLPFNPAL 256 YDK+++ I TD SI+ +SVALA++IL D L + N E +++ + N L Sbjct: 195 YDKVTLEIWTDSSISPAESVALAAKILIDHLELLTNVHEAVNDMESLMKEAQGEVQNKGL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 255 VMMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGLS 314 Query: 317 L 317 Sbjct: 315 F 315 >gi|58415738|emb|CAH57283.1| RNA polymerase alpha-subunit [Vibrio aestuarianus] Length = 309 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 TNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|88606699|ref|YP_504915.1| DNA-directed RNA polymerase subunit alpha [Anaplasma phagocytophilum HZ] gi|119366662|sp|Q2GL36|RPOA_ANAPZ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|88597762|gb|ABD43232.1| DNA-directed RNA polymerase, alpha subunit [Anaplasma phagocytophilum HZ] Length = 344 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 164/345 (47%), Positives = 234/345 (67%), Gaps = 10/345 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + +W +L +P++I+ +G +E ++ EPL GFA TLGNALRRV+MSSLRG A+ Sbjct: 1 MADHWNKLTRPSSIKV--VGGKEPCVMELVIEPLESGFALTLGNALRRVMMSSLRGFAVY 58 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++I+G HE++++ GV ED+ D++LN+ + +K+ + + + + RGPG VTA I Sbjct: 59 GIEIEGASHELTALSGVREDVADLVLNLSMLRVKLLNSNQRVLRLVARGPGEVTAASIVD 118 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-------IGLITID 174 D VLN D IC L D M++ V+ G GYVPA +R + G I + Sbjct: 119 SADHVVLNKDLHICTLGKDVDFCMKIYVNSGKGYVPATEYRAASRSGGASEVGSGFIATN 178 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ALYSP+KKV+ +ES+R GQ DYD+L +T++TDGS+ +D+VA+A++ILQDQL FI+F Sbjct: 179 ALYSPVKKVALKIESSRIGQFTDYDRLMLTVETDGSVAPDDAVAVAAKILQDQLQSFISF 238 Query: 235 EEPKKEVK-EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +E ++ K D LP++ LL+KV+ELELSVRS NCL+ +NI Y+GDL+QRTE+DML Sbjct: 239 DEVEETRKSVDKEEGVLPYDHNLLRKVDELELSVRSHNCLKNDNITYIGDLVQRTESDML 298 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 R NFGRKSL EI VL +M L LGM +P+WPPESIE L+K+Y + Sbjct: 299 RTPNFGRKSLNEINEVLASMNLHLGMKVPNWPPESIENLSKQYSE 343 >gi|58384667|gb|AAW72682.1| DNA-directed RNA polymerase alpha chain [Buchnera aphidicola (Cinara cedri)] Length = 329 Score = 327 bits (839), Expect = 1e-87, Method: Composition-based stats. Identities = 140/334 (41%), Positives = 211/334 (63%), Gaps = 10/334 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q ++ +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGFVEDFLKPGLVDIQQI---SATHAKITLEPLERGFGHTLGNALRRILLSSISGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDG+LHE +GV ED+ DI+LN+KG+++K+ G + + K G G V A DI Sbjct: 58 EVEIDGILHEYMHKEGVKEDILDILLNLKGLSIKLFGKDEVTLYLKKSGIGPVLAKDINH 117 Query: 122 VNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALY 177 N E++N H+ICNL DA + + + V++G GY+ AK + D +I +D Y Sbjct: 118 DNSTEIINNKHIICNLTCSDASIDIRMKVTRGRGYITAKSRKENYDNEHIIGKLFLDVTY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI+++ YTVESAR Q D DKL + ++T+G+I ED++ A+ IL QL F++ Sbjct: 178 SPIERIMYTVESARVEQRTDLDKLIIEMETNGTIDPEDAIRKAATILAQQLEAFVDLRGV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + P LL+ V++LEL+VRS NCL+ E+I Y+GDL+Q+TE ++L+ N Sbjct: 238 REPEIKEEKPEFEP---VLLRPVDDLELTVRSANCLKAESIHYIGDLVQKTEVELLKTPN 294 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 G+KSL EIK VL + GL LGM L +WPP+S+ E Sbjct: 295 LGKKSLTEIKDVLASRGLSLGMKLDNWPPKSLLE 328 >gi|313904923|ref|ZP_07838294.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium cellulosolvens 6] gi|313470180|gb|EFR65511.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium cellulosolvens 6] Length = 320 Score = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 130/314 (41%), Positives = 203/314 (64%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP IE + E++ + EPL RG+ TLGN+LRR+++SSL G+A++ V+I+G Sbjct: 3 DFNKP-KIEITEI-SEDKKFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K +++K S D K I G G+V A DIQ DI Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNLKNLSIKNNSSSDEPKVAYIEYDGEGIVRASDIQVDQDI 120 Query: 126 EVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E++NPD +I +L+ D + MELT++ G GYV A + E+ PIG+I +DA+Y+P+++V Sbjct: 121 EIMNPDQIIAHLNGGPDCKLYMELTITNGRGYVGADKGKPEDLPIGVIAVDAIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + TVE+ R GQ+ D+DKL++ + T+ ++ +++V+LA+++L + L +FI+ E K + Sbjct: 181 NMTVENTRVGQITDFDKLTLDVYTNKTLGPDEAVSLAAKVLSEHLKLFIDLSENAKTAEV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 MIEHQDDEKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCNKTSEDMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVLAKLNELGLSL 314 >gi|58415894|emb|CAH57361.1| RNA polymerase alpha-subunit [Vibrio hispanicus] Length = 309 Score = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L ++ + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 ANPEHVICHLTDSNSEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|58415996|emb|CAH57412.1| RNA polymerase alpha-subunit [Vibrio penaeicida] Length = 309 Score = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 138/315 (43%), Positives = 206/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + ++ Sbjct: 178 AYTVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|329770014|ref|ZP_08261409.1| DNA-directed RNA polymerase subunit alpha [Gemella sanguinis M325] gi|328837325|gb|EGF86955.1| DNA-directed RNA polymerase subunit alpha [Gemella sanguinis M325] Length = 313 Score = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 129/309 (41%), Positives = 188/309 (60%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ I ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I GV Sbjct: 4 IEKP-KIQIIE-ESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIQGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE ++KGV ED+T+II+N+K I K+ + K V+I +GP VVTA DI +DIEV+ Sbjct: 62 QHEFQAVKGVVEDVTEIIMNVKNIAFKVHSEEEKVVSINVKGPAVVTAEDIAIDSDIEVI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D I + M + V KG G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE Sbjct: 122 NTDQHIATVSEGGQFEMLIYVGKGRGFVPADGNKKRDLPIGVIPIDSIYTPVSKVNYTVE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ D+DKL + + T+G+IT D++ALAS+IL L +F+ E K + + Sbjct: 182 KTRVGQSTDFDKLILDVTTNGTITANDALALASKILISHLELFMEMSEEAKAADILVAKE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L +EEL+LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 242 EDNKVQMLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEQEMIKVRNLGRKSLEEVKI 301 Query: 309 VLGTMGLFL 317 L + L Sbjct: 302 KLQDLELGF 310 >gi|58415964|emb|CAH57396.1| RNA polymerase alpha-subunit [Vibrio nigripulchritudo] Length = 309 Score = 327 bits (838), Expect = 2e-87, Method: Composition-based stats. Identities = 137/315 (43%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +YTVE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + ++ Sbjct: 178 AYTVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|169350821|ref|ZP_02867759.1| hypothetical protein CLOSPI_01595 [Clostridium spiroforme DSM 1552] gi|169292407|gb|EDS74540.1| hypothetical protein CLOSPI_01595 [Clostridium spiroforme DSM 1552] Length = 314 Score = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 112/296 (37%), Positives = 183/296 (61%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RGF TLGN+LRRVL+SSL G+A+ A+++ G +HE S++ GV ED Sbjct: 15 DETDNYGKFVIEPLERGFGTTLGNSLRRVLLSSLPGSAVYAIKVQGAIHEFSAVDGVVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + + D + I GP VT DIQ +++ +++ D VI ++ A Sbjct: 75 VTSIILNLKKLVFDVDSDESATMIIDVEGPATVTGADIQCPSEVTMISNDLVIAHVAQGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MEL K GY+ A ++ + + IG+I D+++SP+++VSY VE R G+ YD+L Sbjct: 135 HLYMELYAKKDRGYISADQNKKDINTIGIIPTDSIFSPVERVSYAVEPTRVGESAKYDQL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ I+T+G++ ++++LA++IL + L MF+ + ++ ++ N L +E Sbjct: 195 TLEIETNGALKPYEAISLAAKILVEHLNMFVELTDMAVNMEVMSEAQNDTSNKVLDMTIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGF 310 >gi|326407604|gb|ADZ64675.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. lactis CV56] Length = 312 Score = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP ++ E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+G Sbjct: 3 EFEKPKITKF----DESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ I+L +KGI +K +S K++ + GP VTAGDI T +DIE+ Sbjct: 59 VQHEFATIPGVREDVIQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + ++ +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y V Sbjct: 119 VNKDHYLFSIAEGHSIRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G YDKL++ I T+G+I +++++L+++IL D L +F++ E E + + Sbjct: 179 EPARVGGDSSYDKLTLEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVASEAETLVVK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EE++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K Sbjct: 239 DEVKTERVLDKIIEEMDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTELGLSL 308 >gi|319827250|gb|ADV74824.1| RNA polymerase subunit A [Vibrio neptunius] gi|319827252|gb|ADV74825.1| RNA polymerase subunit A [Vibrio coralliilyticus] Length = 305 Score = 326 bits (837), Expect = 2e-87, Method: Composition-based stats. Identities = 136/306 (44%), Positives = 201/306 (65%), Gaps = 8/306 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV E Sbjct: 3 STVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQE 62 Query: 81 DLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 63 DILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTD 122 Query: 140 D-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q Sbjct: 123 DNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQR 182 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 183 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---I 239 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL Sbjct: 240 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGL 299 Query: 316 FLGMNL 321 LGM L Sbjct: 300 SLGMRL 305 >gi|146742342|gb|ABQ42692.1| RNA polymerase alpha subunit [Vibrio porteresiae] gi|156106873|gb|ABU49636.1| RNA polymerase alpha subunit [Vibrio porteresiae] Length = 307 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 133/313 (42%), Positives = 203/313 (64%), Gaps = 11/313 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLHE Sbjct: 1 PRLVDIEQI---SATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEAEIEGVLHE 57 Query: 72 ISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP Sbjct: 58 YSTKEGVQEDILEILLNLKGLAVRVADGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNP 117 Query: 131 DHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYT 186 +HVIC+L D A + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+ Sbjct: 118 EHVICHLTDDNAEIAMRIKVQRGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYS 177 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 V +AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 VAAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEK 237 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 PEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEI 294 Query: 307 KGVLGTMGLFLGM 319 K VL + GL LGM Sbjct: 295 KDVLASRGLSLGM 307 >gi|179184854|gb|ACB78162.1| RNA polymerase alpha subunit [Aliivibrio finisterrensis] Length = 306 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 139/312 (44%), Positives = 205/312 (65%), Gaps = 10/312 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P ++ + E + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE Sbjct: 1 PRLVDIEQVSMTHE---KVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHE 57 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+ Sbjct: 58 YSTKEGVQEDILEILLNLKGLAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPE 117 Query: 132 HVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTV 187 HVIC+L D A + M + V +G GYVP+ H + PIG + IDA YSP+ K+SY+V Sbjct: 118 HVICHLTDDNAEISMRIRVERGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSV 177 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 EAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKP 237 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 238 EFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 294 Query: 308 GVLGTMGLFLGM 319 VL + GL LGM Sbjct: 295 DVLASRGLSLGM 306 >gi|58415750|emb|CAH57289.1| RNA polymerase alpha-subunit [Listonella anguillarum] gi|58415752|emb|CAH57290.1| RNA polymerase alpha-subunit [Listonella anguillarum] gi|58415966|emb|CAH57397.1| RNA polymerase alpha-subunit [Vibrio ordalii] gi|58415968|emb|CAH57398.1| RNA polymerase alpha-subunit [Vibrio ordalii] gi|58415970|emb|CAH57399.1| RNA polymerase alpha-subunit [Vibrio ordalii] gi|58415972|emb|CAH57400.1| RNA polymerase alpha-subunit [Vibrio ordalii] Length = 309 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 205/315 (65%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +G+ ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGIQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 TNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|269218963|ref|ZP_06162817.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 848 str. F0332] gi|269212074|gb|EEZ78414.1| DNA-directed RNA polymerase, alpha subunit [Actinomyces sp. oral taxon 848 str. F0332] Length = 334 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 120/292 (41%), Positives = 176/292 (60%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + Q E R+ I EPL GF +TLGN++RR L+SS+ GAA+T+V+IDGVLHE S+I Sbjct: 8 VLTEEQVSEYRSRFILEPLEPGFGYTLGNSMRRTLLSSIPGAAVTSVRIDGVLHEFSTIA 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ DIILN+K + + D + + K+GPG VTA DI +E+ NPD I Sbjct: 68 GVKEDVADIILNLKELVVSSENDEPVLMYLHKQGPGEVTAADITPPAGVEIHNPDLHIAT 127 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L+ + ++LTV +G GYV A ++ E D IG I ID++YSP+ KVSY VE+ R Q Sbjct: 128 LNDKGKIEIDLTVERGRGYVSAAQNKGEEDEIGRIPIDSIYSPVLKVSYKVEATRVAQRT 187 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D+DKL + ++ S T D++A A + L + G+ + + ++ + L Sbjct: 188 DFDKLVVDVEVKPSTTPRDALASAGKTLVELFGLCVELNNEVEGIELGPPPVVETQSSDL 247 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + + L L RS NCL+ E I +G+LIQR+EAD+L + NFG KS+ ++K Sbjct: 248 QRPITILNLPARSQNCLQREGIRTIGELIQRSEADLLDIRNFGAKSIEDVKD 299 >gi|302390985|ref|YP_003826805.1| DNA-directed RNA polymerase subunit alpha [Acetohalobium arabaticum DSM 5501] gi|302203062|gb|ADL11740.1| DNA-directed RNA polymerase subunit alpha [Acetohalobium arabaticum DSM 5501] Length = 314 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 123/311 (39%), Positives = 190/311 (61%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I + + PL RG+ TLGN+LRR+++SSL G A T+V+I+G Sbjct: 3 EFEKP----AIERIESTDTYGKFAITPLERGYGITLGNSLRRIMLSSLPGTAPTSVKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED+TDI+LN+K + L+M + + + + G G VTA + +IE+ Sbjct: 59 VEHEFSTISGVVEDVTDIVLNLKELVLRMESEEPEILRLNASGEGEVTADEFTVSGNIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYT 186 LNPD I L D + ME+TV G GYV A+ ++ + + IG+I +D+ +SPIK+V++ Sbjct: 119 LNPDQHIATLSDDGQLDMEVTVENGRGYVSAEENKDDEEHVIGVIPMDSSFSPIKRVNFD 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE G D DKL + I+TDGS+T E++++LA+++L + L + IN E +V + Sbjct: 179 VEDVWVGNRTDLDKLVLEINTDGSLTPEEAISLAAKVLDEHLDLLINLNEEITDVDLMVE 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + L +EEL+LSVRS+NCL+ I + +L ++TE D++++ N G+KSL EI Sbjct: 239 KEEEEKDKVLETTIEELDLSVRSSNCLKRAGIDNVEELTEQTEDDLMKVRNLGKKSLQEI 298 Query: 307 KGVLGTMGLFL 317 K L + L L Sbjct: 299 KDKLDELDLSL 309 >gi|300867111|ref|ZP_07111777.1| DNA-directed RNA polymerase subunit alpha [Oscillatoria sp. PCC 6506] gi|300334866|emb|CBN56943.1| DNA-directed RNA polymerase subunit alpha [Oscillatoria sp. PCC 6506] Length = 320 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 102/311 (32%), Positives = 167/311 (53%), Gaps = 12/311 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + I EPL RG T+GNALRRV++S+L G A+T+V+I GV HE Sbjct: 12 QIECIESNTDKDRSQYGKFILEPLDRGQGTTVGNALRRVMLSNLEGTAVTSVRIAGVNHE 71 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I+GV ED+ +I+LN+K + LK + + GP VTA ++++V++ Sbjct: 72 FATIEGVREDVLEILLNMKEVVLKSHSSQPQIGRLRVEGPATVTADRFDVPSEVDVIDRS 131 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L + + ME + +G GY R + + + IDA++ P++KV+Y+VE AR Sbjct: 132 QYIATLSPGSTLEMEFRIERGVGYRAVDRSRDDGGALDFLAIDAIFMPVRKVNYSVEDAR 191 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G + D+L M I T+GS+T +++++ A+ IL D ++ + Sbjct: 192 VGGSTEKDRLIMEIWTNGSLTPQEALSQAASILVDLFSPL-----KDITLESLRSDVGSD 246 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL+ T+ D+L + NFG+KS E+ L Sbjct: 247 ADPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYTQEDLLEIKNFGQKSAEEVIEAL- 305 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 306 --QKRLGITLP 314 >gi|78186095|ref|YP_374138.1| DNA-directed RNA polymerase subunit alpha [Chlorobium luteolum DSM 273] gi|119366706|sp|Q3B6D6|RPOA_PELLD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78165997|gb|ABB23095.1| DNA-directed RNA polymerase subunit alpha [Chlorobium luteolum DSM 273] Length = 328 Score = 326 bits (836), Expect = 3e-87, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 192/318 (60%), Gaps = 6/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT +++DGV Sbjct: 5 MQMPAKIEVDEATHTDQ-YGRFIAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE SSI+GV ED+ +I+LN+K + K + + T+ GP TAGDI + EV Sbjct: 64 FHEFSSIEGVREDVPEIVLNLKKVRFKSTCKRSCKTTLSIVGPKDFTAGDIVAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ + + +++ + +G GY PA+ R ++ PIG I IDA+Y+PI+ V + V Sbjct: 124 LNKDLYIATVNEGSTLNIDVYIGRGRGYTPAEESRPDSMPIGYIAIDAIYTPIRNVKFAV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----E 243 E+ R GQ DY+K+ + ++TDGSIT +DS++LA RI+ + + F NF ++E + Sbjct: 184 ENTRVGQRTDYEKMVLDVETDGSITPDDSISLAGRIINEHVTFFANFSPTEEEFTEEEYK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFETMRRLLNTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNL 321 E+K L L GM++ Sbjct: 304 TELKEQLEKFELKFGMDI 321 >gi|315652326|ref|ZP_07905318.1| DNA-directed RNA polymerase subunit alpha [Eubacterium saburreum DSM 3986] gi|315485449|gb|EFU75839.1| DNA-directed RNA polymerase subunit alpha [Eubacterium saburreum DSM 3986] Length = 330 Score = 326 bits (835), Expect = 3e-87, Method: Composition-based stats. Identities = 128/312 (41%), Positives = 198/312 (63%), Gaps = 5/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ I EPL RG+ TLGN+LRR+++SSL G+A++ V+IDG Sbjct: 16 DFEKPN-IEIAEI-SEDKKFGRFICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDG 73 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + +K + K I G GV+TA DIQ I Sbjct: 74 VLHEFSSIPGVKEDVTEIIMNVKSLAIKNSAEDNEPKIAYIDFDGEGVITAEDIQCDPCI 133 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D VI + MELT++ G GYV + ++ E+ PIG+I ID++Y+P+++V+ Sbjct: 134 EIINKDQVIATVSEG-KFYMELTITNGRGYVSSDKNKGEDTPIGVIAIDSIYTPVERVNL 192 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQV D+DKL++ + T+G++ +++V+LA+++L + L +FI+ + K + + Sbjct: 193 RVENTRVGQVTDFDKLTLDVTTNGTLEPDEAVSLAAKVLSEHLNLFIDLSDNAKTIDVMV 252 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL E Sbjct: 253 EKEEDDKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCSRTSDDMMKVRNLGRKSLEE 312 Query: 306 IKGVLGTMGLFL 317 + L +GL L Sbjct: 313 VLQKLEELGLHL 324 >gi|255994834|ref|ZP_05427969.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium saphenum ATCC 49989] gi|255993547|gb|EEU03636.1| DNA-directed RNA polymerase, alpha subunit [Eubacterium saphenum ATCC 49989] Length = 316 Score = 326 bits (835), Expect = 3e-87, Method: Composition-based stats. Identities = 126/309 (40%), Positives = 194/309 (62%), Gaps = 2/309 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP ++ E+ + + EPL RG+ TLGN+LRRVL+S+L GAA+T+++IDG+ Sbjct: 4 IEKPTI--KMLHDNEKASEGRFVIEPLERGYGITLGNSLRRVLLSTLPGAAVTSIRIDGI 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S+I GV ED+T+IILNIK + ++ + TI GP +TA DI +++++ Sbjct: 62 LHEFSTIPGVTEDVTEIILNIKRLAIRAWSEEPIVATIKASGPCEITAADIDCGSEVKIF 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N DH I LD DA + MEL + +G GY A+ ++ ++DPI I ID+++SP++K ++ V Sbjct: 122 NEDHHIATLDKDAELDMELVIDRGRGYSSAEQNKGKDDPISTIAIDSIFSPVEKANFIVS 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQV D+DKL + + TDGSI+ D+VA+A+RI+Q+ L +F+ E E + + Sbjct: 182 DTRVGQVTDFDKLELEVRTDGSISANDAVAVAARIMQEHLALFVELSEEATEYSIMLEHE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + L K +E+LEL+VRS N L I + DL+ TE ++ + N G+KSL EIK Sbjct: 242 DIEQTRVLEKNIEDLELTVRSLNALTQAGIDTVSDLVSMTEGELNSVKNLGKKSLSEIKD 301 Query: 309 VLGTMGLFL 317 + +GL L Sbjct: 302 KIRELGLSL 310 >gi|307154818|ref|YP_003890202.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. PCC 7822] gi|306985046|gb|ADN16927.1| DNA-directed RNA polymerase, alpha subunit [Cyanothece sp. PCC 7822] Length = 314 Score = 326 bits (835), Expect = 3e-87, Method: Composition-based stats. Identities = 104/311 (33%), Positives = 172/311 (55%), Gaps = 9/311 (2%) Query: 14 NIEYIVLG--QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + L + + I EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE Sbjct: 5 QIECVELKAHKNQGQYGKFILEPLDRGQGTTVGNALRRVLLSNLEGAAVTALRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ ++ILN+K I LK + + GP VTAG +++E+++P Sbjct: 65 FATISGVREDVMELILNMKEITLKSYTSQPQIGRLVATGPATVTAGQFDLPSEVEIVDPS 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + + ME + KG GY + + ++ + + ID+++ P+ KV+Y+VE R Sbjct: 125 QYVATLAEGSKLEMEFRIEKGKGYRAIERGKDDSTSLDFLQIDSVFMPVTKVNYSVEDVR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D+L++ I T+GS+ +++++ A+ I+ D + E ++ + Sbjct: 185 VDGTSSKDRLTIEIWTNGSVNPKEALSEAAAIIVDLFSPLRDLNE----LEATQSDYPDE 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 VNPESQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 --QKRLGITLP 308 >gi|229823511|ref|ZP_04449580.1| hypothetical protein GCWU000282_00809 [Catonella morbi ATCC 51271] gi|229786955|gb|EEP23069.1| hypothetical protein GCWU000282_00809 [Catonella morbi ATCC 51271] Length = 314 Score = 326 bits (835), Expect = 3e-87, Method: Composition-based stats. Identities = 133/310 (42%), Positives = 208/310 (67%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I+ I + + + ++ EPL RG+ TLGN+LRR+L+SSL G+A+T++QIDG Sbjct: 3 EIEKPE-IKTIEVSDDAKF-GKIVVEPLERGYGTTLGNSLRRILLSSLPGSAVTSIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++++G+ ED+ IILN+K + LK+ K + + GP VVTA DI ND+++ Sbjct: 61 VLHEFATVEGIVEDVPTIILNLKKLALKLHTQESKVIELNVTGPKVVTAADIMHDNDVQI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ IC L A ++M L V+ G GYV ++H++ E+ PIG++ ID++Y+PIKKV+Y V Sbjct: 121 LNPELYICTLADGAELKMRLNVANGRGYVRSEHNKREDMPIGVLPIDSIYTPIKKVNYQV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ YDKL++ I TDGSI+ E S++LA++IL + L +F+N + ++ + + Sbjct: 181 ENTRIGQKNVYDKLTLDIWTDGSISPEKSLSLAAKILTEHLNIFVNLNDEARQTEIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L+ +EEL+LSVRS NCL+ I + +L ++EA+M+++ N GRKSL E+K Sbjct: 241 EEAEKEKMLIMTIEELDLSVRSYNCLKRAGINTIQELTNKSEAEMIKVRNLGRKSLEEVK 300 Query: 308 GVLGTMGLFL 317 L + L L Sbjct: 301 QKLANLELSL 310 >gi|317496164|ref|ZP_07954524.1| DNA-directed RNA polymerase [Gemella moribillum M424] gi|316913739|gb|EFV35225.1| DNA-directed RNA polymerase [Gemella moribillum M424] Length = 313 Score = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 125/312 (40%), Positives = 187/312 (59%), Gaps = 2/312 (0%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KP I+ I ++ + EPL RG+ TLGN+LRR+L+SSL GAA ++ I+GV Sbjct: 4 IEKP-KIQIIE-ESSDKRFGRFVVEPLERGYGTTLGNSLRRMLISSLPGAAARSIDIEGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE +IKGV ED+T+II+N+K I + + K ++I +GP VVTA DI +D+EV+ Sbjct: 62 QHEFQAIKGVVEDVTEIIMNVKNIAFIIHSEEEKVLSINVKGPAVVTAADIAIDSDVEVV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D I + M + V G G+VPA ++ + PIG+I ID++Y+P+ KV+YTVE Sbjct: 122 NVDQHIATVAEGGHFEMLIYVGTGRGFVPADGNKRRDLPIGVIPIDSIYTPVSKVNYTVE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ D+DKL + + T+G+I+ D++ALAS+IL L +F+ E K + + Sbjct: 182 KTRVGQSTDFDKLILDVTTNGTISANDALALASKILISHLELFMEMSEQAKAADILVAKE 241 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L +EEL+LSVRS NCL+ I + +L +TE +M+++ N GRKSL E+K Sbjct: 242 EDNKVQMLEMTIEELDLSVRSYNCLKRAGINTVQELASKTEQEMIKVRNLGRKSLEEVKI 301 Query: 309 VLGTMGLFLGMN 320 L + L Sbjct: 302 KLQELELGFKDE 313 >gi|328955885|ref|YP_004373218.1| DNA-directed RNA polymerase subunit alpha [Coriobacterium glomerans PW2] gi|328456209|gb|AEB07403.1| DNA-directed RNA polymerase subunit alpha [Coriobacterium glomerans PW2] Length = 313 Score = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 121/314 (38%), Positives = 189/314 (60%), Gaps = 7/314 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + + +E + EPL RG+ TLGN+LRRVL+SSL GAA+ A+QID Sbjct: 2 SEFIRPQ----VQVEEIDEVSARVSVEPLERGYGDTLGNSLRRVLLSSLEGAAVEAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 G HE +I + ED+TDI+LN+KG+ + G + + TI GPG VT D +D Sbjct: 58 GAQHEFMTIPNMVEDVTDIVLNVKGLVFRSLGTTDEATATISVDGPGEVTGADFFVPSDF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NPD I L + M + + G GY+ + ++ +NDPIG+I +D+LYSP+++ + Sbjct: 118 ELVNPDQHIATLTEGGHLTMSMRIGYGRGYISYEANKHDNDPIGIIHVDSLYSPVRRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPKKEVKE 243 VE+ R GQ DYD+L + I+T+G+++ D+V A+ I+ + F+N +E Sbjct: 178 LVEATRVGQHTDYDRLVLEIETNGALSPRDAVVSAANIINQHMASFMNLAEVPEVEEEVS 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + N L K++E+L+LSVRS NCL+ +I + L++ +E D+L + NFG KS+ Sbjct: 238 IFAPEVTSDNAELDKQIEDLDLSVRSYNCLKRASIHSVRQLVEFSENDLLNIRNFGVKSI 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L +MGL L Sbjct: 298 EEVKDKLESMGLGL 311 >gi|28493495|ref|NP_787656.1| DNA-directed RNA polymerase subunit alpha [Tropheryma whipplei str. Twist] gi|28572392|ref|NP_789172.1| DNA-directed RNA polymerase subunit alpha [Tropheryma whipplei TW08/27] gi|41688659|sp|Q820D4|RPOA_TROWT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41688662|sp|Q820D8|RPOA_TROW8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|28410523|emb|CAD66909.1| DNA-directed RNA polymerase alpha chain [Tropheryma whipplei TW08/27] gi|28476537|gb|AAO44625.1| DNA-directed RNA polymerase alpha chain [Tropheryma whipplei str. Twist] Length = 327 Score = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 121/321 (37%), Positives = 189/321 (58%), Gaps = 5/321 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +P IE V + R+ I EPL GF +TLGN+LRR L+SS+ GAA+T++ I GV+H Sbjct: 6 RPTLIEKKV----SDIRSRFIIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSINIQGVMH 61 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I GV ED+T+I+LN+K + + D V ++K G G V A DI+ IE+ N Sbjct: 62 EFSTIPGVKEDVTEIVLNVKRLVISSEIDEPFTVRLYKTGEGEVLAKDIEVPTGIEIGNG 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVES 189 D VI L DAV M+LT+ +G GYV A+ +R + G I +D++YSP+ KV+Y VE+ Sbjct: 122 DLVIATLAKDAVFDMQLTIERGRGYVSAEQNRNDGMSLAGHIPVDSIYSPVHKVTYRVEA 181 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+D+L + ++T SI D+VA A + L + G+ + V+ ++ Sbjct: 182 TRAGERTDFDRLIIDVETKPSILPRDAVASAGKTLCELFGLARELNSQAEGVEFGVDSMI 241 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +E+L LSVRS NCL+ E + Y+ +L+ +E ++L + NFG+KS E++ Sbjct: 242 PESDEDLRIPIEDLGLSVRSYNCLKREGVNYVSELLGFSEQELLDIRNFGQKSADEVQEK 301 Query: 310 LGTMGLFLGMNLPDWPPESIE 330 L +G L ++P + + Sbjct: 302 LAELGHSLKGSVPGFDGSYFD 322 >gi|110598114|ref|ZP_01386392.1| DNA-directed RNA polymerase, alpha subunit [Chlorobium ferrooxidans DSM 13031] gi|110340246|gb|EAT58743.1| DNA-directed RNA polymerase, alpha subunit [Chlorobium ferrooxidans DSM 13031] Length = 327 Score = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 131/321 (40%), Positives = 196/321 (61%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPAKIEVDEA-NHTDSFGRFIAQPLERGYGVTLGNVMRRVLLASLPGTAITGLKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE +++ GV ED+ +I+LN+K + K + + + T+ GP TAGDI + EV Sbjct: 64 FHEFAAVDGVREDVPEIVLNLKRVRFKSTCKRNCKTTLAIVGPKEFTAGDIIAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ A ++++L V +G GYVPA+ +R E PIG I IDA+Y+PI+ V +TV Sbjct: 124 LNKDMHIATVNAGATLKIDLYVGRGRGYVPAEENRPEGMPIGYIAIDAIYTPIRNVRFTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGS+T +DS++LA +I+ D + F NF E +E + Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSVTPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFETMRRLLHTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLEKFDLKFGMDITKY 324 >gi|256371243|ref|YP_003109067.1| DNA-directed RNA polymerase, alpha subunit [Acidimicrobium ferrooxidans DSM 10331] gi|256007827|gb|ACU53394.1| DNA-directed RNA polymerase, alpha subunit [Acidimicrobium ferrooxidans DSM 10331] Length = 312 Score = 326 bits (835), Expect = 4e-87, Method: Composition-based stats. Identities = 120/309 (38%), Positives = 174/309 (56%), Gaps = 4/309 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + +P LG E +NR PL GF H++GNALRRVL+SS+ GAAIT V+ D Sbjct: 4 MQRPT---VESLGDEVDNRQRFAIGPLEPGFGHSIGNALRRVLISSVPGAAITQVRFDDA 60 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE ++I GV ED+ DIILN+K I + + V + RGP VTAGD +D+EV+ Sbjct: 61 LHEFTTIPGVKEDVIDIILNLKDIVWRSWSEEPVTVRLDVRGPKEVTAGDFMLPSDVEVI 120 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 N D I ++ + ++ V +G GYV A IG+I IDA++SP++ V+Y VE Sbjct: 121 NRDLHIASVSEHGRLGLDAVVEQGRGYVSA-EGNKRTTTIGIIAIDAIFSPVRHVNYRVE 179 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ D+D++ + ++TDGS+T ++VA A+R L G+ ++ Sbjct: 180 PVRVGQSTDFDQVVLEVETDGSVTPREAVASAARTLTSLFGLVAELATDVNALEVAATAD 239 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EELEL+ R NCL+ +I +GDL++RT D+L + NFG+KSL E+ Sbjct: 240 DSVRPAEYDLPIEELELTERPRNCLKRASINTIGDLVERTPEDLLSITNFGQKSLDEVVE 299 Query: 309 VLGTMGLFL 317 L GL L Sbjct: 300 RLTQRGLEL 308 >gi|58415864|emb|CAH57346.1| RNA polymerase alpha-subunit [Vibrio halioticoli] Length = 309 Score = 325 bits (834), Expect = 4e-87, Method: Composition-based stats. Identities = 136/315 (43%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDDVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNADIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPI 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ + G+KSL Sbjct: 238 EEK---PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPSLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|224542265|ref|ZP_03682804.1| hypothetical protein CATMIT_01440 [Catenibacterium mitsuokai DSM 15897] gi|224524807|gb|EEF93912.1| hypothetical protein CATMIT_01440 [Catenibacterium mitsuokai DSM 15897] Length = 314 Score = 325 bits (834), Expect = 4e-87, Method: Composition-based stats. Identities = 119/296 (40%), Positives = 179/296 (60%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+EN I EPL RGF TLGN+LRRVL+SS+ GAA+ AV+I+G +HE S++ GV ED Sbjct: 15 NEDENYGKFIIEPLERGFGTTLGNSLRRVLLSSMPGAAVFAVKINGAIHEFSAVDGVLED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK + ++ D + I GP VT DIQ +++++++ D VI ++ Sbjct: 75 VTAIILNIKKLVFELDSDEDVTMVIDVTGPATVTGADIQCPSEVKMISNDLVIAHVAEGQ 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ME+ K GY+ A ++ + IG+I D+++SP+ V+Y VE R GQ YD+L Sbjct: 135 HFYMEMYAHKDRGYMSADQNKKYVNTIGVIPTDSIFSPVVNVAYLVEPTRVGQSAKYDQL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI + +A+A+++L + L MF+ + + V+ N L +E Sbjct: 195 TMEITTDGSIKPHEVLAIAAKVLVEHLNMFVELTDQAMNMDVMSEVQQDTGNKVLDMTIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L +TE DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQELASKTEDDMIKVRNLGKKSLKEVKEKLNELGLGF 310 >gi|281492732|ref|YP_003354712.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. lactis KF147] gi|281376384|gb|ABX75652.2| DNA-directed RNA polymerase, alpha chain [Lactococcus lactis subsp. lactis KF147] Length = 312 Score = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP ++ E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+G Sbjct: 3 EFEKPKITKF----DESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ I+L +KGI +K +S K++ + GP VTAGDI T +DIE+ Sbjct: 59 VQHEFATIPGVREDVIQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + ++ +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y V Sbjct: 119 VNKDHYLFSIAEGHSMRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G YDKL++ I T+G+I +++++L+++IL D L +F++ E E + + Sbjct: 179 EPARVGGDSSYDKLTLEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EE++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K Sbjct: 239 DEVKTERVLDKIIEEMDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTELGLSL 308 >gi|189501184|ref|YP_001960654.1| DNA-directed RNA polymerase subunit alpha [Chlorobium phaeobacteroides BS1] gi|238692283|sp|B3EP34|RPOA_CHLPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189496625|gb|ACE05173.1| DNA-directed RNA polymerase, alpha subunit [Chlorobium phaeobacteroides BS1] Length = 328 Score = 325 bits (834), Expect = 5e-87, Method: Composition-based stats. Identities = 129/321 (40%), Positives = 200/321 (62%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P I+ ++N + IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPEKIDVDEGTHNDKN-GIFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I GV ED+ DIILN+K + + S + T+ GP VTAGDI + EV Sbjct: 64 FHEFSAIDGVREDVPDIILNLKKVRFRSSTKRSCKTTVTVDGPADVTAGDIVAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ + + M++ + +G GYVPA+ +R + P+G I ID++++PIK V ++V Sbjct: 124 LNTDLHIATVNEGSRLSMDVYIGRGRGYVPAEDNRGDGMPLGFIAIDSIFTPIKNVKFSV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-- 245 E+ R GQ DY+K+ + ++TDGS++ +DS++LA +I+ + + +F NF +E E+ Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSVSPDDSISLAGKIINEHVSLFANFSPTDEEFTEEEYK 243 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + LL ++E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFENMRKMLLTRIEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLEKFELKFGMDITKY 324 >gi|125625115|ref|YP_001033598.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. cremoris MG1363] gi|158512804|sp|A2RNM7|RPOA_LACLM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|124493923|emb|CAL98918.1| RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris MG1363] gi|300071923|gb|ADJ61323.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. cremoris NZ9000] Length = 312 Score = 325 bits (834), Expect = 6e-87, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP ++ E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+G Sbjct: 3 EFEKPKITKF----DESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ I+L +KGI +K +S K++ + GP VTAGDI T +DIE+ Sbjct: 59 VQHEFATIPGVREDVIQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + ++ +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y V Sbjct: 119 VNKDHYLFSIAEGHSMRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G YDKL++ I T+G+I +++++L+++IL D L +F++ E E + + Sbjct: 179 EPARVGGDSSYDKLTLEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EE++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K Sbjct: 239 DEVKTERVLDKIIEEMDFSVRTYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTELGLSL 308 >gi|298491422|ref|YP_003721599.1| DNA-directed RNA polymerase subunit alpha ['Nostoc azollae' 0708] gi|298233340|gb|ADI64476.1| DNA-directed RNA polymerase, alpha subunit ['Nostoc azollae' 0708] Length = 314 Score = 325 bits (833), Expect = 6e-87, Method: Composition-based stats. Identities = 101/311 (32%), Positives = 170/311 (54%), Gaps = 11/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + + EPL RG T+GNALRRVL+S+L G A+TAV+IDGV HE Sbjct: 5 QIECVESNTEESRSHYSKFVLEPLERGQGITVGNALRRVLLSNLEGTAVTAVRIDGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +I++ +K + LK + + GP VTA +++EV++P Sbjct: 65 FATVPGVREDVLEILMRMKEVILKNYSSQPQIGRLLVNGPVTVTAAHFDLPSEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + + + ME + +G GY + R E + + ID+++ P++KV+Y+VE AR Sbjct: 125 QYVATIADGGKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSVFMPVRKVNYSVEEAR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G D+L + + T+GSI+ +++++ A+ IL D ++ +P Sbjct: 185 -GDGSLKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPL-----KDISLEPTDTGSDIP 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 299 RR---LGITLP 306 >gi|179184433|gb|ACB78147.1| RNA polymerase alpha subunit [Vibrio sp. CECT 7223] Length = 308 Score = 325 bits (833), Expect = 7e-87, Method: Composition-based stats. Identities = 135/314 (42%), Positives = 203/314 (64%), Gaps = 11/314 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFL 317 EIK VL + GL L Sbjct: 295 TEIKDVLASRGLSL 308 >gi|297571895|ref|YP_003697669.1| DNA-directed RNA polymerase, subunit alpha [Arcanobacterium haemolyticum DSM 20595] gi|296932242|gb|ADH93050.1| DNA-directed RNA polymerase, alpha subunit [Arcanobacterium haemolyticum DSM 20595] Length = 334 Score = 325 bits (832), Expect = 7e-87, Method: Composition-based stats. Identities = 115/315 (36%), Positives = 182/315 (57%), Gaps = 4/315 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +P E + + R+ PL GF +TLGN+LRR L+SS+ GAA+T++ IDGVL Sbjct: 5 QRPTLTE----EKISDTRSRFTLNPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIHIDGVL 60 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+ IILN+K + + D ++ + K GPG VTA DI +E+ N Sbjct: 61 HEFSTIEGVKEDVAQIILNLKDLVVTSENDEPVQMYLRKAGPGQVTAEDITPPAGVEIHN 120 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ +I L+ + ++LTV +G GYV A+ + + + IG I +D++YSP+ KVSY VE+ Sbjct: 121 PELLIATLNEKGKLEIDLTVERGRGYVSAQQNNSPDYEIGRIPVDSIYSPVVKVSYKVEA 180 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R GQ D+DKL + ++T S+ D+ A A + L + G+ + + ++ Sbjct: 181 TRVGQRTDFDKLIVDVETKPSMAPRDAFASAGKTLVELFGLTTELNQEVEGLELKEAPVV 240 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L + + L L RS NCL+ E I +G+L+ R+EAD+L + NFG KS+ ++K Sbjct: 241 EQQSSDLQRPITILNLPARSQNCLQREGIHTIGELVLRSEADLLDIRNFGAKSIEDVKDE 300 Query: 310 LGTMGLFLGMNLPDW 324 L + L L + + Sbjct: 301 LAKLDLRLKDSPAGF 315 >gi|160872598|ref|ZP_02062730.1| DNA-directed RNA polymerase, alpha subunit [Rickettsiella grylli] gi|159121397|gb|EDP46735.1| DNA-directed RNA polymerase, alpha subunit [Rickettsiella grylli] Length = 348 Score = 325 bits (832), Expect = 8e-87, Method: Composition-based stats. Identities = 137/339 (40%), Positives = 207/339 (61%), Gaps = 12/339 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N ++ + P IE + NR+L+ +P GF HTLGNALRRVL+SS+ G A+ Sbjct: 1 MSTNVKKFLTPQTIEVQTI---APNRSLITLQPFEAGFGHTLGNALRRVLLSSMPGCAVV 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +I+GVLHE SS++GV ED+ DI+LN+KG+ +M G + + K G V AGDI Sbjct: 58 EAKIEGVLHEYSSLEGVQEDIIDILLNLKGVAFQMHGKEEVTLELIKNTVGPVCAGDITL 117 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYS 178 +DIEV NPD VI +L +M L V++G GY PA + + +G + +DA ++ Sbjct: 118 PSDIEVKNPDFVIAHLTKPKEFKMTLKVARGRGYQPASLRKADERFVSEVGALQLDARFN 177 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI + +Y+VE+AR Q D DKL + ++T+G+I E+++ A+ I+Q+QL F+ E K Sbjct: 178 PILRATYSVENARVEQRTDLDKLVIDLETNGTIDPEEAIRRAATIIQEQLRTFV---ELK 234 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 E +E++ + + NP LL V+ELEL+VR+ NCL+ E+I + DL+ +TE+++L N Sbjct: 235 HETEEEVVDEFVDINPMLLLPVDELELTVRAANCLKAEHIYRIADLVTKTESELLSTPNL 294 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 G+ SL EIK L GL LGM + P + + L K E Sbjct: 295 GKVSLWEIKTALQKRGLSLGMEV---PIQQLASLKKSLE 330 >gi|58415728|emb|CAH57278.1| RNA polymerase alpha-subunit [Photobacterium leiognathi subsp. leiognathi] Length = 292 Score = 325 bits (832), Expect = 8e-87, Method: Composition-based stats. Identities = 134/295 (45%), Positives = 198/295 (67%), Gaps = 7/295 (2%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+L Sbjct: 1 AKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILL 60 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRME 146 N+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC++ D A + M Sbjct: 61 NLKGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHITDDNAELSMR 120 Query: 147 LTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + V +G GYVPA H + PIG + +DA YSP+ +++Y VE+AR Q D DKL + Sbjct: 121 IKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDRIAYAVEAARVEQRTDLDKLVI 180 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++L Sbjct: 181 DMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDL 237 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 EL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 ELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 292 >gi|167755938|ref|ZP_02428065.1| hypothetical protein CLORAM_01458 [Clostridium ramosum DSM 1402] gi|237733255|ref|ZP_04563736.1| DNA-directed RNA polymerase [Mollicutes bacterium D7] gi|167703930|gb|EDS18509.1| hypothetical protein CLORAM_01458 [Clostridium ramosum DSM 1402] gi|229383636|gb|EEO33727.1| DNA-directed RNA polymerase [Coprobacillus sp. D7] Length = 314 Score = 325 bits (832), Expect = 9e-87, Method: Composition-based stats. Identities = 116/296 (39%), Positives = 182/296 (61%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RGF TLGN+LRRVL+SSL G+A+ A+++ G +HE S++ GV ED Sbjct: 15 DETDNYGKFVIEPLERGFGTTLGNSLRRVLLSSLPGSAVYAIKVQGAIHEFSAVDGVVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + + D + I GP VT DIQ +++ +++ D I ++ A Sbjct: 75 VTSIILNLKKLVFDVDSDESATMIIDVEGPATVTGADIQCPSEVTMISNDMEIAHVAQGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + MEL K GYV A ++ E + IG+I D++YSP++KVSY VE R G+ YD+L Sbjct: 135 HLYMELYAKKDRGYVSADQNKKEINTIGIIPTDSIYSPVEKVSYAVEPTRVGESAKYDQL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ I+T+G++ ++++LA++IL + L MF+ + ++ +S N L +E Sbjct: 195 TLEIETNGALKPYEAISLAAKILVEHLNMFVELTDMAVNMEVMSEAQSDTTNKVLDMTIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + DL ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQDLAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGF 310 >gi|298243941|ref|ZP_06967748.1| DNA-directed RNA polymerase, alpha subunit [Ktedonobacter racemifer DSM 44963] gi|297556995|gb|EFH90859.1| DNA-directed RNA polymerase, alpha subunit [Ktedonobacter racemifer DSM 44963] Length = 326 Score = 325 bits (832), Expect = 9e-87, Method: Composition-based stats. Identities = 115/302 (38%), Positives = 177/302 (58%), Gaps = 3/302 (0%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 + I + + N EPL G+ TLGNALRRVL+SSL GAA+T+++I+GV HE Sbjct: 6 LPRIKNTKTQGNYASYDIEPLEAGYGQTLGNALRRVLLSSLPGAAVTSIRIEGVQHEFQD 65 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+TDI+LNIK + L+ + + + G VTA DI + +E++NP+ I Sbjct: 66 VPGVLEDVTDIVLNIKKLRLRSFSEHPVTMRLEVNGEREVTAADIVAPSTVEIVNPELHI 125 Query: 135 CNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 +LD +A + MEL V G YVPA E+ PIG+I +DA+Y+P++KV+YTVE R G Sbjct: 126 ASLDNDNAHLDMELVVETGRSYVPA--DSKEDQPIGVIPVDAIYTPVQKVNYTVEHTRVG 183 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q+ +YDK+ + + TDG+IT ++++ ++ +L + N+ E ++ Sbjct: 184 QMTNYDKIVLEVTTDGTITPDEALRQSADVLVRHFTLLANYRASLPEPEKAPLSSLPIPQ 243 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +EEL+LSVR+ NCL+ NI +G ++ E D+L + NFG KSL E++ L Sbjct: 244 KIYDTPIEELDLSVRAYNCLKRSNITKVGQVLSMNEEDLLGVRNFGEKSLQELRERLLAR 303 Query: 314 GL 315 Sbjct: 304 NF 305 >gi|58416010|emb|CAH57419.1| RNA polymerase alpha-subunit [Vibrio rumoiensis] gi|58416012|emb|CAH57420.1| RNA polymerase alpha-subunit [Vibrio rumoiensis] Length = 309 Score = 325 bits (832), Expect = 9e-87, Method: Composition-based stats. Identities = 135/315 (42%), Positives = 202/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ + G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVP+ H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDKAEIAMRIKVQRGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|288818044|ref|YP_003432391.1| DNA-directed RNA polymerase alpha subunit [Hydrogenobacter thermophilus TK-6] gi|288787443|dbj|BAI69190.1| DNA-directed RNA polymerase alpha subunit [Hydrogenobacter thermophilus TK-6] gi|308751645|gb|ADO45128.1| DNA-directed RNA polymerase, alpha subunit [Hydrogenobacter thermophilus TK-6] Length = 316 Score = 325 bits (832), Expect = 9e-87, Method: Composition-based stats. Identities = 111/317 (35%), Positives = 178/317 (56%), Gaps = 7/317 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +E + P+ + + + + + EPL RGF TLGN+LRR L+SS++G AITAV+I Sbjct: 3 REFLFPSKVYW---EERGKTYGRFVVEPLERGFGITLGNSLRRTLLSSIQGTAITAVKIY 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 G+ HE S I+GV ED+ ++I N+K I + + + + K+G G VTA DI +++ Sbjct: 60 GIYHEFSPIEGVQEDVLEVIANLKKIRFNLKSSDVETLYLKKKGEGTVTAKDITCPPNVD 119 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NPD I + + + ME+ + +G GY+ + +G I +DA +SP+++VS+ Sbjct: 120 IINPDQKIATITDPNKELNMEIRIERGFGYMTTEEMEV-IGEVGWILVDADFSPVRQVSF 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R + DYD+L M I T+G+ T E+ V A IL + V+E + Sbjct: 179 RVEKTRVEKRSDYDRLIMEIYTNGTKTPEEVVKEAISILVKYFSSLEHISYELPVVEEPV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 F L VEEL++S R+ N ++ I +GDL++ +E D+ N GRK++ E Sbjct: 239 --IVDEFAEKLSLPVEELDVSQRALNSIKRMGINTIGDLVRLSEEDLKGTKNVGRKAINE 296 Query: 306 IKGVLGTMGLFLGMNLP 322 IK L MGL+LGM++ Sbjct: 297 IKEALKQMGLYLGMDIE 313 >gi|293402527|ref|ZP_06646662.1| DNA-directed RNA polymerase, alpha subunit [Erysipelotrichaceae bacterium 5_2_54FAA] gi|291304041|gb|EFE45295.1| DNA-directed RNA polymerase, alpha subunit [Erysipelotrichaceae bacterium 5_2_54FAA] Length = 319 Score = 324 bits (831), Expect = 1e-86, Method: Composition-based stats. Identities = 126/301 (41%), Positives = 191/301 (63%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E ++ + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED Sbjct: 15 DESKHYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T +ILNIK + +K+ D + I K+GPG VT DI +EVL+ D IC L+ Sbjct: 75 VTTMILNIKTLVMKIQDDEIYTLRISKQGPGEVTGADIYCPEGVEVLSKDLHICTLEEGG 134 Query: 142 VVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 ++ MEL G GYV A ++ T N P+G+I D++Y+PI+KVSY+V+ R GQ + Sbjct: 135 MLEMELQARVGRGYVNADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYSVDPTRVGQNAN 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPAL 256 YDK+++ + +D SI+ +S+AL+++IL D L + N +E +++ + N L Sbjct: 195 YDKVTLEVWSDSSISPAESLALSAKILIDHLELLTNVDEAVNDMESVMKEAQGEVQNKGL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K L +GL Sbjct: 255 VMMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKLYDLGLN 314 Query: 317 L 317 Sbjct: 315 F 315 >gi|227499168|ref|ZP_03929303.1| DNA-directed RNA polymerase [Acidaminococcus sp. D21] gi|226904615|gb|EEH90533.1| DNA-directed RNA polymerase [Acidaminococcus sp. D21] Length = 323 Score = 324 bits (831), Expect = 1e-86, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 191/318 (60%), Gaps = 9/318 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +E+ KP+ + I + + EPL RG+ TLGN+LRRVL+SSL G A+T ++ID Sbjct: 2 KEIEKPSLV--IDEISPDGRYGKFVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-----HKRVTIFKRGPGVVTAGDIQT 121 GVLHE S+I+GV ED+ DI+LNIK + K++ D K I K G G VT DI T Sbjct: 60 GVLHEFSTIEGVREDVADIVLNIKALCFKVNLDDQGTYEPKTFYIKKSGEGEVTGADIIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D EVLNP+ I LD +A + ME+ V G GYV A +++++ PIG I +D++YSPI Sbjct: 120 DQDTEVLNPELHIATLDKNANLNMEIYVDIGRGYVSADKNKSKDQPIGFIPVDSIYSPIT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V + V R G V +YD+L++ + TDGS+ +++V A+ IL + L +F PK + Sbjct: 180 RVKFGVTDTRVGNVTNYDRLTLEVWTDGSLGPDEAVTSAAEILINYLALFKTTNVPKIQG 239 Query: 242 KEDINVKSLP--FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 E+ + L +++L+L+VRS NCLR I + D+I +TE +++ + N G Sbjct: 240 SEESGKPDEEGTKSSVLQMSIDDLDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNLG 299 Query: 300 RKSLVEIKGVLGTMGLFL 317 KSL E+K + +GL L Sbjct: 300 SKSLEEVKNKIEELGLHL 317 >gi|116513027|ref|YP_811934.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. cremoris SK11] gi|122939924|sp|Q02W51|RPOA_LACLS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116108681|gb|ABJ73821.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. cremoris SK11] Length = 312 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 127/310 (40%), Positives = 199/310 (64%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP ++ E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+G Sbjct: 3 EFEKPKITKF----DESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ I+L +KGI +K +S K++ + GP VTAGDI T +DIE+ Sbjct: 59 VQHEFATIPGVREDVIQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + ++ +R +TV KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y V Sbjct: 119 VNKDHYLFSIAEGHSMRAVMTVKKGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G YDKL++ I T+G+I +++++L+++IL D L +F++ E E + + Sbjct: 179 EPARVGGDSSYDKLTLEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EE++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K Sbjct: 239 DEVKTERVLDKIIEEMDFSVRAYNGLKRAGINTVTDIVEMSEADMIKVKNLGHKSVEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTELGLSL 308 >gi|229825289|ref|ZP_04451358.1| hypothetical protein GCWU000182_00643 [Abiotrophia defectiva ATCC 49176] gi|229790661|gb|EEP26775.1| hypothetical protein GCWU000182_00643 [Abiotrophia defectiva ATCC 49176] Length = 319 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 124/315 (39%), Positives = 197/315 (62%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + PN IE + E++ + EPL RG+ TLGN+LRR+++SSL GAA+T V+I+G Sbjct: 3 DFKIPN-IEIAEI-SEDKKYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVTTVKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + HE+SSI GV ED+T+II+NIK + ++ D K I G GVVTA +IQ +DI Sbjct: 61 IKHELSSIPGVKEDVTEIIMNIKSLAIRNDSETDEPKTAYIEFEGEGVVTAANIQADSDI 120 Query: 126 EVLNPDHVICNLDVDAV--VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 + NPD VI L+ + MEL + +GHGYV A +++++ I +I ID++Y+P+++V Sbjct: 121 TITNPDQVIATLNGGNNCRLYMELNIGRGHGYVSADKNKSDDLAIDVIPIDSIYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + +E+ R G + DYDKL++ + T+G++ +++V+LA+R++ + L FI+ E K V Sbjct: 181 NINIENTRVGHMTDYDKLTLEVYTNGTMGPDEAVSLAARVMSEHLNSFIDLSENAKVVDV 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + L ++ELELSVR+ NCL+ I + +L+ +T DM+++ N G KSL Sbjct: 241 MVAKPDNERGRVLEMSIDELELSVRAFNCLKRSGINTVQELVGKTHEDMMKVRNLGNKSL 300 Query: 304 VEIKGVLGTMGLFLG 318 EIK + +GL L Sbjct: 301 EEIKAKIKALGLSLN 315 >gi|291334082|gb|ADD93755.1| DNA directed RNA polymerase alpha subunit [uncultured marine bacterium MedDCM-OCT-S05-C114] Length = 332 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 126/324 (38%), Positives = 185/324 (57%), Gaps = 4/324 (1%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + PN + ++ IA+P G+ HT+GNA RRVL+SS+ GAAI+ Sbjct: 1 MATRLGKFELPNRL-VKEEDTSTDSYAKFIADPFESGYGHTIGNAFRRVLLSSIEGAAIS 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 ++++DGV HE SI GV ED+TDI+LN+K + + +TI G VTAGDI Sbjct: 60 SLKLDGVQHEFQSIDGVVEDVTDIVLNLKKVLVISHKADPVTLTIDVEKDGEVTAGDISP 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 IE++NP+ +I D V E+ V+ G G+ + +++ PIG+I +DALYSP+K Sbjct: 120 AEGIEIINPEQIILTTDRKLQVTGEMIVTVGRGFCLGEDSKSDEQPIGMINVDALYSPVK 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V Y V++ R GQ+ DYDKL + + TDG IT +D++ ++ IL+ L +F E + E Sbjct: 180 LVKYEVQNTRVGQMTDYDKLLLEVTTDGRITPDDALKQSAAILRHHLDVFDQISEEQIEF 239 Query: 242 KEDINVKSLPFNPALL---KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + S N V E+ELSVR+ NCL NI +G+L ++E +ML+ NF Sbjct: 240 ESHTKEVSEEQNRLRNLLSMSVNEIELSVRAANCLNNANITTVGELATKSEPEMLKYRNF 299 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLP 322 G+KSL EIK L +GL LGM Sbjct: 300 GKKSLNEIKAKLEQLGLSLGMKFE 323 >gi|15674050|ref|NP_268225.1| DNA-directed RNA polymerase subunit alpha [Lactococcus lactis subsp. lactis Il1403] gi|13878751|sp|Q9CDY3|RPOA_LACLA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|12725120|gb|AAK06166.1|AE006436_15 DNA-directed RNA polymerase alpha chain [Lactococcus lactis subsp. lactis Il1403] Length = 312 Score = 324 bits (830), Expect = 1e-86, Method: Composition-based stats. Identities = 126/310 (40%), Positives = 198/310 (63%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP ++ E EN + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+G Sbjct: 3 EFEKPKITKF----DESENYGKFVVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE ++I GV ED+ I+L +KGI +K +S K++ + GP VTAGDI T +DIE+ Sbjct: 59 VQHEFATIPGVREDVIQIVLAVKGIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N DH + ++ +R +TV KG+GYVP ++ + PIG I +D++Y+P+ KV+Y V Sbjct: 119 VNKDHYLFSIAEGHSMRAVMTVKKGYGYVPDDENKVDGAPIGTIAVDSIYTPVSKVNYQV 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E AR G YDKL++ I T+G+I +++++L+++IL D L +F++ E E + + Sbjct: 179 EPARVGGDSSYDKLTLEITTNGTIVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EE++ SVR+ N L+ I + D+++ +EADM+++ N G KS+ E+K Sbjct: 239 DEVKTERVLDKIIEEMDFSVRAYNGLKRAGINTVADIVEMSEADMIKVKNLGHKSVEEVK 298 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 299 VKLTELGLSL 308 >gi|218440647|ref|YP_002378976.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. PCC 7424] gi|218173375|gb|ACK72108.1| DNA-directed RNA polymerase, alpha subunit [Cyanothece sp. PCC 7424] Length = 314 Score = 324 bits (830), Expect = 2e-86, Method: Composition-based stats. Identities = 107/311 (34%), Positives = 170/311 (54%), Gaps = 9/311 (2%) Query: 14 NIEYIVL--GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + L + + I EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE Sbjct: 5 QIECVELKAQKNQGQYGKFILEPLDRGQGTTVGNALRRVLLSNLEGAAVTALRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ ++ILN+K I LK + + GP VTA ++IEV++P Sbjct: 65 FATISGVREDVMELILNMKEITLKSYTSQPQIGRLVATGPATVTAAQFDVPSEIEVVDPS 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + + ME V KG GY + + + + + ID+++ P+ KV+Y+VE R Sbjct: 125 QYVATLSDGSKLEMEFRVEKGKGYRAIERGKDDTTSLDFLQIDSVFMPVTKVNYSVEDVR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D+L++ I T+GSI +++++ A+ I+ D + E ++ + Sbjct: 185 VDGTGSKDRLTLEIWTNGSINPKEALSEAAAIIVDLFSPLKDLNE----LEATQSDYQDE 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 VNPESQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 --QKRLGITLP 308 >gi|148655310|ref|YP_001275515.1| DNA-directed RNA polymerase subunit alpha [Roseiflexus sp. RS-1] gi|172048077|sp|A5USG2|RPOA_ROSS1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|148567420|gb|ABQ89565.1| DNA-directed RNA polymerase, alpha subunit [Roseiflexus sp. RS-1] Length = 323 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 124/310 (40%), Positives = 184/310 (59%), Gaps = 8/310 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++ P I + EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++I+G Sbjct: 3 DIAMPK----IEVVTAAENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED+T+I+LNIKGI L+ + ++++ KRG GVV A DI +++E+ Sbjct: 59 VFHEFSTIPGVKEDVTEIVLNIKGIRLRSYAERPVKISLSKRGAGVVRAADIDAPSNVEI 118 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +NP+H IC +D DA + ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y Sbjct: 119 VNPNHYICTIDRDDAAIDMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYV 176 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R GQ D D L + I TDG+I D+++ A+++L +F E + Sbjct: 177 VEHIRVGQATDIDSLLIEIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTEAEPTTA 236 Query: 247 VKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +EEL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ E Sbjct: 237 PNGLAIPADIYDTPIEELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEE 296 Query: 306 IKGVLGTMGL 315 I+ L G Sbjct: 297 IRDKLIERGY 306 >gi|313888838|ref|ZP_07822499.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus harei ACS-146-V-Sch2b] gi|312845207|gb|EFR32607.1| DNA-directed RNA polymerase, alpha subunit [Peptoniphilus harei ACS-146-V-Sch2b] Length = 315 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 124/310 (40%), Positives = 191/310 (61%), Gaps = 2/310 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP I E + EPL GF T+GN+LRRVL+SSL GAA++ + I G Sbjct: 3 EIEKPRI--SIEELDESGLYGKFVVEPLEAGFGITIGNSLRRVLLSSLPGAAVSFINIRG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE +I GV ED+ +I+LNIK I LKM+ D ++ I K+G G + A DI+ V + + Sbjct: 61 VEHEFDTIPGVLEDVPEIVLNIKSIVLKMTEDEPVKLVIEKKGKGEIKASDIELVPHVSI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPD I L+ DA +E+ V KG GY P++ + E IG+I +D+ ++P++KV++ V Sbjct: 121 INPDQHIATLNDDADFYLEMMVEKGRGYEPSELKKDEISEIGIIPMDSNFTPVEKVNWKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+D+L + + TDGS+ +++ +LA++IL + L +FI +E E+ + Sbjct: 181 ENTRVGQRTDFDRLILEVTTDGSMKADEATSLAAKILTEHLELFIGLKEHVSEINLMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ I + +L +TE++M+++ N GRKSL+E+ Sbjct: 241 EEDQKEKVLEMTVEELDLSVRSFNCLKRAGINSVEELTNKTESEMMKVRNLGRKSLLEVT 300 Query: 308 GVLGTMGLFL 317 L +GL L Sbjct: 301 EKLDELGLSL 310 >gi|206901886|ref|YP_002250728.1| DNA-directed RNA polymerase, alpha subunit [Dictyoglomus thermophilum H-6-12] gi|206740989|gb|ACI20047.1| DNA-directed RNA polymerase, alpha subunit [Dictyoglomus thermophilum H-6-12] Length = 324 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 116/319 (36%), Positives = 191/319 (59%), Gaps = 11/319 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MI++N + +++ + E+ + EPL RG+ T+GNALRR+L+SS+ GAA+ Sbjct: 1 MIEENVR----------VIVEKRSEDYGRFVIEPLERGYGWTIGNALRRILLSSIEGAAV 50 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+IDGV HE+ + G+ E++ ++++N+K + +K+ ++ + I RGP VVTA D Sbjct: 51 VSVKIDGVRHELEVLPGLKEEILEVLMNLKKLVVKIEDNNSHILEIDTRGPKVVTAADFI 110 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++++++NPD VI L D ME+ V KG GYV A+ ++ +N PIG++ +D+++SP+ Sbjct: 111 VPSNVKIVNPDLVIATLVEDMPFHMEVEVKKGKGYVSAEENKDQNYPIGVLVLDSIFSPV 170 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSYTVE R G+ D D+L + I T+GSI+ E++ ASRIL + + E Sbjct: 171 KKVSYTVEKTRVGRRTDLDRLILEIWTNGSISPEEAFREASRILMEYFRLLNEKEFQLPY 230 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L L +E+L LS R+ N LR I + DL+ +T +++++ NFG+ Sbjct: 231 EEVKPENTYLEEEKKGLT-LEDLGLSTRAYNSLRHAGIHTIEDLLSKTREELMKIKNFGQ 289 Query: 301 KSLVEIKGVLGTMGLFLGM 319 KSL E++ L GL L Sbjct: 290 KSLQELEEKLREKGLSLKD 308 >gi|307718231|ref|YP_003873763.1| hypothetical protein STHERM_c05210 [Spirochaeta thermophila DSM 6192] gi|306531956|gb|ADN01490.1| hypothetical protein STHERM_c05210 [Spirochaeta thermophila DSM 6192] Length = 363 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 125/344 (36%), Positives = 192/344 (55%), Gaps = 13/344 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + + P +I L + A P RG+ T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFVLPTSITVEHLD-TNAHYGKFAAYPFERGYGVTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 I+AV+I G H E I GV ED ++ N+K + +++ + K V + + Sbjct: 60 ISAVRITWYDDQGTAHVLSSEYEQIPGVVEDTLELFANLKLLRVQLPDEMEQKTVMVEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VT D + +EV+N D + L DA ME+ V G GYVPA+ + + +G Sbjct: 120 GPKEVTGADFEVD-QLEVMNKDFRVMTLMEDAHFEMEMQVDLGRGYVPAEVQKNYIEVVG 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DALYSPI++V + VE+ R G DYDKL + + TDGSI+ ED++ A+++ ++ Sbjct: 179 TIPLDALYSPIQRVRFDVENTRVGHRSDYDKLILEVWTDGSISPEDALGEAAKLAKEHFT 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF+E ++ + L +EELELSVRS+NCL+ NI +GDL+ ++E Sbjct: 239 VFINFDEDAISHVRQLDHEEEQIRRLLETPIEELELSVRSSNCLKNANIRTIGDLVSKSE 298 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 ++ + NFG+KSL+EIK L L LGM P ++E + Sbjct: 299 EELSKTRNFGKKSLLEIKEKLKEWNLSLGMRDPSAYKAALERVR 342 >gi|68171735|ref|ZP_00545087.1| DNA-directed RNA polymerase [Ehrlichia chaffeensis str. Sapulpa] gi|67998846|gb|EAM85546.1| DNA-directed RNA polymerase [Ehrlichia chaffeensis str. Sapulpa] Length = 307 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 161/306 (52%), Positives = 219/306 (71%), Gaps = 4/306 (1%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 GFA TLGNALRRV+MSSLRG A+ V+I+ VLHE +SI GV ED+TDI+LNI + +K+S Sbjct: 2 GFALTLGNALRRVMMSSLRGFAVYGVEIENVLHEFTSISGVREDVTDILLNISMMRVKLS 61 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 G + K +++ +GP V +G I +D +LN D +IC LD +++ V+ G GYVP Sbjct: 62 GMNSKVLSLKVKGPCEVRSGMIPDTDDCIILNKDLLICTLDQGVDFNIKMYVNAGKGYVP 121 Query: 158 AKHHRTEND----PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 A ++ N PI I +ALYSPIKK S+ VES+R GQ DYD+L M+++TDGSI Sbjct: 122 AVKRKSVNKLGDIPINFIATNALYSPIKKASFKVESSRIGQFTDYDRLIMSVETDGSILP 181 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCL 273 +++VALA+RILQDQ FINF+E + K+ +LP++ LL+KV+ELELSVRS NCL Sbjct: 182 DEAVALAARILQDQFQPFINFDETDEPHKKVDAKDTLPYDSNLLRKVDELELSVRSYNCL 241 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 + +NI Y+GDL+Q+TE+DMLR NFGRKSL EI +L +M L LGM + +WPPESIE L+ Sbjct: 242 KNDNITYIGDLVQKTESDMLRTPNFGRKSLNEINELLASMNLHLGMKIANWPPESIESLS 301 Query: 334 KKYEDK 339 K+Y ++ Sbjct: 302 KQYSEE 307 >gi|282898333|ref|ZP_06306324.1| DNA-directed RNA polymerase, alpha subunit [Raphidiopsis brookii D9] gi|281196864|gb|EFA71769.1| DNA-directed RNA polymerase, alpha subunit [Raphidiopsis brookii D9] Length = 314 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 99/311 (31%), Positives = 167/311 (53%), Gaps = 11/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESSTEESRNHYGRFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVTHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +II+ +K + LK + + GP VTA ++EV++P Sbjct: 65 FATVPGVREDVMEIIMRMKEVILKSYSHQPQIGRLLVTGPTTVTAAHFDLPGEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + ME + +G GY + R E + + ID+++ P++KV+Y+VE +R Sbjct: 125 QYVATLAEGGKLEMEFRIERGKGYRTVEKGREEATSLDFLQIDSVFMPVRKVNYSVEESR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G D+L + + T+GSI+ +++++ ++ IL + ++ +P Sbjct: 185 -GDGSLKDRLLLEVWTNGSISPQEALSSSAAILVELFNPL-----KDISLEPTDMGLDMP 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 299 RR---LGITLP 306 >gi|58415826|emb|CAH57327.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 309 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 132/315 (41%), Positives = 204/315 (64%), Gaps = 11/315 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNAL R+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALHRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA +SP+ K+ Sbjct: 118 ANPEHVICHLTDSNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+V++AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLGTMGLFLG 318 EIK VL + GL LG Sbjct: 295 TEIKDVLASRGLSLG 309 >gi|256826600|ref|YP_003150559.1| DNA-directed RNA polymerase subunit alpha [Cryptobacterium curtum DSM 15641] gi|256582743|gb|ACU93877.1| DNA-directed RNA polymerase subunit alpha [Cryptobacterium curtum DSM 15641] Length = 316 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 120/317 (37%), Positives = 191/317 (60%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E ++P I + + + +PL RG+ +TLGN +RRVL++SL GAA TA+QID Sbjct: 2 TEFMRPT----ITTEEVSDTVARFVVDPLERGYGYTLGNTMRRVLLNSLDGAAATAIQID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVND 124 GV HE ++ +GV ED+TDI+LN+KG+ + + + GP VT D+Q + Sbjct: 58 GVQHEFATAEGVIEDITDIVLNVKGLVFSVFAEDAIEATAHVSAEGPCTVTGADLQVPTE 117 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 ++NPDHVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ + Sbjct: 118 FTLVNPDHVIATVADGGQLDMTIRIGVGRGYVVAERNKRNEDPIGIIHVDSLFSPVRRCA 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 +V R GQ DYDKL + ++TDGS+T D+V A+ I+ +G F++ E ++E + + Sbjct: 178 LSVTDTRVGQSTDYDKLILEVETDGSLTPTDAVCQAANIVTQYMGAFLSLNESEEEEEGE 237 Query: 245 INVKSLPF----NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + P N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 238 VPSIFAPEGEETNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEYSENDLLNIRNFGA 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+K L +MGL L Sbjct: 298 KSIEEVKDKLISMGLNL 314 >gi|125743179|gb|ABN54790.1| RpoA [Vibrio sp. RLUH-CZ] Length = 307 Score = 323 bits (829), Expect = 2e-86, Method: Composition-based stats. Identities = 136/313 (43%), Positives = 204/313 (65%), Gaps = 11/313 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T +I+GVLH Sbjct: 1 KPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEXEIEGVLH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ N Sbjct: 58 EYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIAN 117 Query: 130 PDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSY 185 P+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y Sbjct: 118 PEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAY 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ Sbjct: 178 SVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEE 237 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 KPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 294 Query: 306 IKGVLGTMGLFLG 318 IK VL + GL LG Sbjct: 295 IKDVLASRGLSLG 307 >gi|90194050|gb|ABD92586.1| RpoA [Haemophilus parasuis] Length = 302 Score = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 132/296 (44%), Positives = 199/296 (67%), Gaps = 7/296 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS +GV Sbjct: 3 ILTISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKEGVQ 62 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-D 138 ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICNL D Sbjct: 63 EDILEVLLNLKGLAVKVQNKDDIILTLTKSGIGPVTAADITHDGDVEIVNPDHVICNLTD 122 Query: 139 VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Q Sbjct: 123 KNASISMRIRVQRGRGYVPASARVHTQDDDRPIGRLLVDARFSPVDRIAYNVEAARVEQR 182 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 183 TDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEFDPI 239 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 240 LLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 295 >gi|319938481|ref|ZP_08012875.1| DNA-directed RNA polymerase [Coprobacillus sp. 29_1] gi|319806397|gb|EFW03064.1| DNA-directed RNA polymerase [Coprobacillus sp. 29_1] Length = 314 Score = 323 bits (828), Expect = 2e-86, Method: Composition-based stats. Identities = 115/296 (38%), Positives = 178/296 (60%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E +N + EPL RGF TLGN+LRRVL+SS+ G A+ AV++ G +HE S++ GV ED Sbjct: 15 DESDNYGKFVIEPLERGFGTTLGNSLRRVLLSSIPGCAVHAVKVQGAIHEFSAVDGVVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK + + GD + I +GP VVT DIQ +++ +++ D I ++ A Sbjct: 75 VTSIILNIKKLVFSIDGDDDVTMIIDVKGPAVVTGADIQCPSNVTMISNDLEIAHVAEGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ME+ + GY+ A ++ + IG+I D++YSP+ KV+Y E R GQ YD+L Sbjct: 135 HFYMEMYAHRDRGYMSADQNKKLINTIGVIATDSIYSPVVKVAYATEPTRVGQSAKYDQL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ I TDGS+ +++ALA++IL + L MF+ + ++ + N L +E Sbjct: 195 TLEITTDGSVQPHEALALAAKILVEHLNMFVELTDMAMNMEVMSETEEDTSNKVLDMTIE 254 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EL+LSVRS NCL+ I + +L ++E DM+++ N G+KSL E+K L +GL Sbjct: 255 ELDLSVRSYNCLKRAGIQTVQELAAKSEDDMIKVRNLGKKSLKEVKEKLVELGLGF 310 >gi|300775039|ref|ZP_07084902.1| DNA-directed RNA polymerase subunit alpha [Chryseobacterium gleum ATCC 35910] gi|300506854|gb|EFK37989.1| DNA-directed RNA polymerase subunit alpha [Chryseobacterium gleum ATCC 35910] Length = 331 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 206/323 (63%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 IKP+ + +L +E + PL GF T+GNALRRVL+SSL G AI++++I+GV Sbjct: 6 FIKPDKV---ILLNSDEFKGQFEFRPLEPGFGLTIGNALRRVLLSSLEGYAISSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + LK G ++++V G V+TAGD+ +++N Sbjct: 63 EHEFSTIPGVIEDVTEIILNLKQVRLKAAAEGQANEQVVAKVSGQTVITAGDLGKSINGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VICNL+ D + + KG GYVP++ +++ N P+G I ID++++PIKKV Y Sbjct: 123 EVLNPDLVICNLNTDVTFEITFNIEKGRGYVPSEQNKSNNAPVGTIAIDSIFTPIKKVQY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL + I+TDGSI+ ++++ AS+IL +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVLDIETDGSISPQNALTEASKILIYHFMLFSDERITLETEAVKA 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++L L K+ +++LSVR+ NCL+ + +G+L+ +++D+++ NFG+K Sbjct: 243 SIQYDEETLHTRQLLKSKLADMDLSVRALNCLKAAEVETLGELVSYSKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ + GL G ++ + Sbjct: 303 SLTELEELVHSKGLNFGFDVAKY 325 >gi|209527118|ref|ZP_03275632.1| DNA-directed RNA polymerase, alpha subunit [Arthrospira maxima CS-328] gi|209492458|gb|EDZ92799.1| DNA-directed RNA polymerase, alpha subunit [Arthrospira maxima CS-328] Length = 314 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 114/312 (36%), Positives = 174/312 (55%), Gaps = 10/312 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE I + + + PL RG T+GNALRRVL+S+L G AITAV+I GV HE Sbjct: 5 KIECIESNISTDRSQYGKFVLGPLDRGQGITVGNALRRVLLSNLEGTAITAVRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I+GV ED+ +I+LN+K LK + + +GP VT G +++EV+N + Sbjct: 65 FATIEGVREDVLEIMLNLKEAVLKSHTYQKQIGRLLVQGPATVTVGHFDLPSEVEVVNKN 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME + KG GY HR ++ + + IDA++ P++KV+YTVE AR Sbjct: 125 QYIATLSPGATLEMECQIEKGTGYRAVDRHRDDSAALDFLQIDAIFMPVRKVNYTVEDAR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +G L+ D+L++ I T GS+T +++++ A+ IL D G ++ + + Sbjct: 185 DGGSLEKDRLTLEIWTSGSLTPQEAISQAAAILVDLFGAL-----KDINLESITSDQRDD 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL TE D+L + NFG+KS E+ L Sbjct: 240 IDPTSQIPIEELQLSVRAYNCLKRAQINSVADLRDYTEEDLLEIKNFGQKSAEEVIEALQ 299 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 300 NR---LGITLPK 308 >gi|269217218|ref|ZP_06161072.1| DNA-directed RNA polymerase, alpha subunit [Slackia exigua ATCC 700122] gi|269129355|gb|EEZ60440.1| DNA-directed RNA polymerase, alpha subunit [Slackia exigua ATCC 700122] Length = 317 Score = 323 bits (828), Expect = 3e-86, Method: Composition-based stats. Identities = 123/317 (38%), Positives = 188/317 (59%), Gaps = 11/317 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E ++P + + + I EPL RGF +TLGN +RRVL+SSL GA TA+QI+G Sbjct: 3 EFMRPT----VTTEEVNDTIARFIVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDI 125 V HE ++ +GV ED+TDI LN+KG+ + + T+ GP VT DIQ + Sbjct: 59 VQHEFTTAEGVIEDVTDIALNVKGLVFQALSEDYTEATATVSVEGPCTVTGADIQVPTEF 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NP+HVIC + + M + + G GYVPA+ ++ DPIG+I +D+L+SP+++ + Sbjct: 119 TLVNPEHVICTVADGGTLNMTIRIGVGRGYVPAERNKRSEDPIGIIHVDSLFSPVQRCTA 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-----NFEEPKKE 240 V S R GQ D+DKL + + TDGSIT +++V A+ I+ +G F+ E+ E Sbjct: 179 DVSSTRVGQRTDFDKLVLEVATDGSITPDEAVCRAANIINQYMGSFMALADIAGEDEDGE 238 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 239 IPSIFAPEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGA 298 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+K L +MGL L Sbjct: 299 KSIEEVKDKLISMGLNL 315 >gi|331004149|ref|ZP_08327629.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae oral taxon 107 str. F0167] gi|330411559|gb|EGG90969.1| DNA-directed RNA polymerase subunit alpha [Lachnospiraceae oral taxon 107 str. F0167] Length = 317 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 128/312 (41%), Positives = 199/312 (63%), Gaps = 5/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + E++ I EPL RG+ TLGN+LRR+++SSL G+A++ V+IDG Sbjct: 3 DFEKPN-IEIAEI-SEDKKFGRFICEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+T+II+N+K + ++ + D K I G GV+TA DIQ I Sbjct: 61 VLHEFSSIPGVKEDVTEIIMNVKSLAIRNTSNDDEPKVAYIDFDGEGVITAEDIQCDPSI 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D VI + MELT++ G GYV + ++ E+ PIG+I ID++Y+P+++V+ Sbjct: 121 EIINKDQVIATVSEG-KFYMELTITNGRGYVSSDKNKGEDTPIGVIAIDSIYTPVERVNL 179 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + L +FI+ + K + I Sbjct: 180 LVENTRVGQMTDFDKLTLDVTTNGTLEPDEAVSLAAKVLSEHLNLFIDLSDNAKTIDVMI 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L ++ELELSVRS NCL+ I + +L RT DM+++ N GRKSL E Sbjct: 240 EKEEDDKEKVLEMNIDELELSVRSYNCLKRAGINTVEELCSRTSDDMMKVRNLGRKSLEE 299 Query: 306 IKGVLGTMGLFL 317 + L +GL L Sbjct: 300 VLQKLEELGLRL 311 >gi|303233188|ref|ZP_07319861.1| DNA-directed RNA polymerase, alpha subunit [Atopobium vaginae PB189-T1-4] gi|302480773|gb|EFL43860.1| DNA-directed RNA polymerase, alpha subunit [Atopobium vaginae PB189-T1-4] Length = 314 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 123/315 (39%), Positives = 190/315 (60%), Gaps = 8/315 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P +V+ EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ ID Sbjct: 2 SEFIRPQ----VVVEDISENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDI 125 GV HE S+I GV+ED+TDI+LN+KG+ + +G + +I GP V AGD + Sbjct: 58 GVQHEFSTIPGVYEDVTDIVLNVKGLVFRSNGTGSEAEASISVDGPCTVVAGDFLIPAEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +++N DH IC L A + M + + G YV + E+DPIG+I +D+L+SP+ + + Sbjct: 118 DLINKDHHICTLCEGAHLSMRMRIGMGRSYVSGDDNEREDDPIGVIHVDSLFSPVTRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ +YD+L + ++T+GSI+ D+V A+ I+ + F++ E ++E ED Sbjct: 178 VVEPCRVGQHTNYDRLILEVETNGSISPRDAVIQAADIINQHMCAFMDLAEDEQEPLEDA 237 Query: 246 NVK---SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS Sbjct: 238 SIFSTVEEEDNTELDKQIEDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVKS 297 Query: 303 LVEIKGVLGTMGLFL 317 + E++ L GL L Sbjct: 298 IEEVREKLEAAGLGL 312 >gi|282899976|ref|ZP_06307937.1| DNA-directed RNA polymerase, alpha subunit [Cylindrospermopsis raciborskii CS-505] gi|281195246|gb|EFA70182.1| DNA-directed RNA polymerase, alpha subunit [Cylindrospermopsis raciborskii CS-505] Length = 314 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 99/311 (31%), Positives = 167/311 (53%), Gaps = 11/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESSTEESRNHYGKFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVTHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +II+ +K + LK + + GP VTA ++EV++P Sbjct: 65 FATVPGVREDVMEIIMRMKEVILKSYSHQPQIGRLLVTGPTTVTAAHFDLPGEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + ME + +G GY + R E + + ID+++ P++KV+Y+VE +R Sbjct: 125 QYVATLAEGGKLEMEFRIERGKGYRTVEKGREEATSLDFLQIDSVFMPVRKVNYSVEESR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G D+L + + T+GSI+ +++++ ++ IL + ++ +P Sbjct: 185 -GDGSLKDRLLLEVWTNGSISPQEALSSSAAILVELFNPL-----KDISLEPTDMGLDMP 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 239 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 298 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 299 RR---LGITLP 306 >gi|284049230|ref|YP_003399569.1| DNA-directed RNA polymerase, alpha subunit [Acidaminococcus fermentans DSM 20731] gi|283953451|gb|ADB48254.1| DNA-directed RNA polymerase, alpha subunit [Acidaminococcus fermentans DSM 20731] Length = 323 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 126/318 (39%), Positives = 190/318 (59%), Gaps = 9/318 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +E+ KP+ + + + + EPL RG+ TLGN+LRRVL+SSL G A+T ++ID Sbjct: 2 KEIEKPSLV--VDEISPDGRYGKFVWEPLERGYGITLGNSLRRVLLSSLSGMAVTGIKID 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-----HKRVTIFKRGPGVVTAGDIQT 121 GVLHE S+I+GV ED+ DI+LNIK + K+ D K I K G G VT D+ T Sbjct: 60 GVLHEFSTIEGVREDVADIVLNIKALCFKVGLDDQASFEPKTFYIKKAGEGEVTGADVIT 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 D EVLNP+ I LD + + ME+ V G GYV A+ +++++ PIG I +D++YSPI Sbjct: 120 DQDTEVLNPELHIATLDKNGALNMEIYVDVGRGYVQAEKNKSKDQPIGFIPVDSIYSPIT 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V + V R G V +YD+L++ + TDGS+ +++V A+ IL L +F P+ + Sbjct: 180 RVKFGVTDTRVGNVTNYDRLTLEVWTDGSLGPDEAVTSAAEILIKYLALFKTTNVPRIQG 239 Query: 242 KEDINVKSLP--FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ED S + L +++L+L+VRS NCLR I + D+I +TE +++ + N G Sbjct: 240 DEDGTKTSDEGSKSSVLQMSIDDLDLTVRSNNCLRRAGINTVEDIINKTEDELICVRNLG 299 Query: 300 RKSLVEIKGVLGTMGLFL 317 KSL E+K + +GL L Sbjct: 300 SKSLEEVKNKIEELGLHL 317 >gi|75906938|ref|YP_321234.1| DNA-directed RNA polymerase subunit alpha [Anabaena variabilis ATCC 29413] gi|119366663|sp|Q3MF97|RPOA_ANAVT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|75700663|gb|ABA20339.1| DNA-directed RNA polymerase subunit alpha [Anabaena variabilis ATCC 29413] Length = 315 Score = 323 bits (827), Expect = 3e-86, Method: Composition-based stats. Identities = 99/311 (31%), Positives = 168/311 (54%), Gaps = 10/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + I EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESNTEESRNHYSKFILEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +II+ +K + LK + + GP +TA +++EV++P Sbjct: 65 FATVPGVREDVLEIIMRMKEVILKSYSSQAQIGRLLVNGPTTITASHFDLPSEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + + + ME + +G GY + R E + + ID+++ P++KV+Y+VE R Sbjct: 125 QYVATIAEGGKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEEVR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + + T+GSI+ +++++ A+ IL D ++ +P Sbjct: 185 ADGSIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPL-----KDISLEPTDTNSDIP 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 RR---LGITLP 307 >gi|254444876|ref|ZP_05058352.1| DNA-directed RNA polymerase, alpha subunit [Verrucomicrobiae bacterium DG1235] gi|198259184|gb|EDY83492.1| DNA-directed RNA polymerase, alpha subunit [Verrucomicrobiae bacterium DG1235] Length = 307 Score = 323 bits (827), Expect = 4e-86, Method: Composition-based stats. Identities = 129/306 (42%), Positives = 189/306 (61%), Gaps = 3/306 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 AEP G+ HT+GN+LRR+L+SS+ GAAI++V+I+GV HE S+ G+ ED+TDI+LN+ Sbjct: 2 FHAEPFEAGYGHTIGNSLRRILLSSIEGAAISSVKIEGVSHEFQSVDGIVEDITDIVLNL 61 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L ++ I G +TA DIQ +++EV+NPD +IC LD + EL + Sbjct: 62 KKVLLVCHKREGVKLMINTNRSGAITAADIQPDSNVEVINPDQIICTLDREMPFTAELEI 121 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY P ++ E DPIG+I ID+L+SP+ V Y VE+ GQ+ DYDKL + + TDG Sbjct: 122 KVGRGYCPGDDNKDEEDPIGVIAIDSLFSPVSLVKYAVEATLVGQITDYDKLLLEVWTDG 181 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL---LKKVEELELS 266 IT +D++ A+ IL+ L +F N + E +++ S N V E+ELS Sbjct: 182 RITPDDALKQAAAILKHHLDVFDNVSDENYEFEDEGGEVSEEQNKLRKLLNMSVNEIELS 241 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 VR+ NCL NI +G+L ++E +ML+ NFG+KSL EIK L ++GL LGM + Sbjct: 242 VRAANCLNNANITTVGELAMKSEQEMLKYRNFGKKSLNEIKDKLESLGLSLGMKFDERLL 301 Query: 327 ESIEEL 332 +S +EL Sbjct: 302 DSKKEL 307 >gi|186684486|ref|YP_001867682.1| DNA-directed RNA polymerase subunit alpha [Nostoc punctiforme PCC 73102] gi|186466938|gb|ACC82739.1| DNA-directed RNA polymerase, alpha subunit RpoA [Nostoc punctiforme PCC 73102] Length = 315 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 98/311 (31%), Positives = 170/311 (54%), Gaps = 10/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESNTEESRNHYSKFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +I++ +K + LK + + GP +TA +++EV++P Sbjct: 65 FATVPGVREDVLEILMRMKEVILKNYSSQPQIGRLLVSGPTTITAAHFDLPSEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + + + ME + KG GY + R E + + ID+++ P++KV+Y+VE +R Sbjct: 125 QYVATIAEGGKLEMEFRIEKGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEESR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++ D+L + + T+GSI+ +++++ A+ IL D ++ +P Sbjct: 185 GEGLIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPL-----KDISLEPTDTGSDIP 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 RR---LGITLP 307 >gi|90194058|gb|ABD92590.1| RpoA [Mannheimia granulomatis] Length = 303 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 132/297 (44%), Positives = 200/297 (67%), Gaps = 7/297 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE SS + Sbjct: 1 LVNIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSSKE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ +++LN+KG+ +K+ +T+ K G G VTA DI D+E++NPDHVICN Sbjct: 61 GVQEDILEVLLNLKGLAVKVQNKDDIILTLNKSGIGPVTAADITHDGDVEIVNPDHVICN 120 Query: 137 L-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L D +A + M + V +G GYVPA H + ++ PIG + +DA +SP+ +++Y VE+AR Sbjct: 121 LTDKNASINMRIRVQRGRGYVPASARLHTQNDDRPIGRLLVDARFSPVDRIAYNVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + ++ ++ + F Sbjct: 181 EQRTDLDKLVIEMETNGTLDPEEAIRRAATILAEQLAAFVDLRDVRQP---EVKEEKPEF 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 238 DPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 294 >gi|17231683|ref|NP_488231.1| DNA-directed RNA polymerase subunit alpha [Nostoc sp. PCC 7120] gi|20139485|sp|Q8YPK3|RPOA_ANASP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|17133326|dbj|BAB75890.1| RNA polymerase alpha subunit [Nostoc sp. PCC 7120] Length = 315 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 99/311 (31%), Positives = 168/311 (54%), Gaps = 10/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + I EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESNTEESRNHYSKFILEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +II+ +K + LK + + GP +TA +++EV++P Sbjct: 65 FATVPGVREDVLEIIMRMKEVILKSYSSQAQIGRLLVNGPTTITASHFDLPSEVEVIDPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + + + ME + +G GY + R E + + ID+++ P++KV+Y+VE R Sbjct: 125 QYVATIAEGGKLEMEFRIERGKGYRTVERGREEATSLDFLQIDSIFMPVRKVNYSVEEVR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + + T+GSI+ +++++ A+ IL D ++ +P Sbjct: 185 ADGSIPKDRLLLEVWTNGSISPQEALSSAAGILVDLFNPL-----KDISLEPTDTNSDIP 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDYTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 RR---LGITLP 307 >gi|254412021|ref|ZP_05025796.1| DNA-directed RNA polymerase, alpha subunit [Microcoleus chthonoplastes PCC 7420] gi|196180987|gb|EDX75976.1| DNA-directed RNA polymerase, alpha subunit [Microcoleus chthonoplastes PCC 7420] Length = 315 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 103/308 (33%), Positives = 168/308 (54%), Gaps = 9/308 (2%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 +E L + + + + EPL RG T+GNALRRVL+S+L G AITAV+I GV HE ++ Sbjct: 9 VESKTLKNQSQ-YSKFVLEPLDRGQGTTVGNALRRVLLSNLEGTAITAVRIAGVNHEFAT 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I G+ ED+ +I+LN+K + LK + GP V + +D+E ++P I Sbjct: 68 IAGIREDVLEILLNMKEVVLKSYTPGPHIGRVMITGPSTVRSAQFDLPSDVEFVDPGQYI 127 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A + ME + +G GY + R E + + +DA++ P+ KV+Y+VE R Sbjct: 128 ATLADGAKLEMEFRIERGKGYRSVERGRDETSSVDFLQLDAVFMPVTKVNYSVEDTRVDG 187 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 L+ D+L + + T+GS++ +++++ A+ IL D + E + V + +P Sbjct: 188 SLEKDRLILDVWTNGSVSPQEALSQAANILVDLFNPLKDIELKPEPVGRPEDE-----DP 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 243 TSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIDAL---Q 299 Query: 315 LFLGMNLP 322 LG+ LP Sbjct: 300 KRLGITLP 307 >gi|145219088|ref|YP_001129797.1| DNA-directed RNA polymerase subunit alpha [Prosthecochloris vibrioformis DSM 265] gi|189043842|sp|A4SCT6|RPOA_PROVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|145205252|gb|ABP36295.1| DNA-directed RNA polymerase subunit alpha [Chlorobium phaeovibrioides DSM 265] Length = 328 Score = 322 bits (826), Expect = 4e-86, Method: Composition-based stats. Identities = 125/321 (38%), Positives = 192/321 (59%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE + +A+PL RG+ TLGN +RRVL++SL G AIT +++DGV Sbjct: 5 MQMPAKIEVDET-THTDYFGRFVAQPLERGYGVTLGNMMRRVLLASLPGTAITGIKVDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I+GV ED+ +I+LN+K + + + + T+ GP TAGDI + +V Sbjct: 64 FHEFSAIEGVREDVPEIVLNLKKVRFRSTCKRSCKTTLTITGPKDFTAGDIVAMEGEFDV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ + + +++ V +G GY PA+ +R E+ PIG I IDA+Y+PI+ V V Sbjct: 124 LNKDLHIATVNEGSTLNIDVFVGRGRGYTPAEDNRPESMPIGYIAIDAIYTPIRNVKVAV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGSIT +DS++LA RI+ + + F +F E +E + Sbjct: 184 ENTRVGQRTDYEKMVLDVETDGSITPDDSISLAGRIINEHVAFFADFSPTEEEFTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFEAMRKLLNTKIEDLDLSVRSHNCLRLAEIDSIGDLVSRKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLEKFELKFGMDITKY 324 >gi|189308771|gb|ACD87087.1| RpoA [Vibrio sp. PP-200] Length = 302 Score = 322 bits (826), Expect = 5e-86, Method: Composition-based stats. Identities = 134/304 (44%), Positives = 201/304 (66%), Gaps = 8/304 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV Sbjct: 2 IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQ 61 Query: 80 EDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 62 EDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLT 121 Query: 139 V-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 +A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q Sbjct: 122 DGNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQ 181 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 182 RTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP--- 238 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 239 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 298 Query: 315 LFLG 318 L LG Sbjct: 299 LSLG 302 >gi|255536128|ref|YP_003096499.1| DNA-directed RNA polymerase alpha subunit [Flavobacteriaceae bacterium 3519-10] gi|255342324|gb|ACU08437.1| DNA-directed RNA polymerase alpha subunit [Flavobacteriaceae bacterium 3519-10] Length = 331 Score = 322 bits (826), Expect = 5e-86, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 202/323 (62%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 IKP+ + +L ++ + PL +GF T+GNALRRVL+SSL G AI++++I+GV Sbjct: 6 FIKPDKV---ILLNSDDFKGKFEFRPLEQGFGLTIGNALRRVLLSSLEGYAISSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + LK ++ + VT G VTAGD+ +++ Sbjct: 63 EHEFSTIPGVIEDVTEIILNLKQLRLKAKSEASAAETVTAKVTGQTTVTAGDLGKSIQGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNPD VICNL+ + + + KG GYVP+ ++T + PIG I ID++++PIKKV Y Sbjct: 123 EILNPDLVICNLNKEVKFELTFNIEKGRGYVPSDQNKTGSAPIGTIAIDSIFTPIKKVQY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE+ R Q DY+KL + I+TDGSI+ ++++ AS+IL +F I E + Sbjct: 183 SVENYRVEQKTDYEKLVLDIETDGSISPQNALTEASKILIYHFMLFSDERITLETEAVKA 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++L L K+ +++LSVR+ NCL+ + +G+L+ T++D+++ NFG+K Sbjct: 243 SIQYDEETLHTRQLLKSKLTDMDLSVRALNCLKAAEVETLGELVSYTKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL G ++ + Sbjct: 303 SLTELEELVHAKGLNFGFDVAKY 325 >gi|309389906|gb|ADO77786.1| DNA-directed RNA polymerase subunit alpha [Halanaerobium praevalens DSM 2228] Length = 315 Score = 322 bits (825), Expect = 5e-86, Method: Composition-based stats. Identities = 127/312 (40%), Positives = 201/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP + +EN PL RG+ TLGN+LRR+L+SSL GAA+T+V+++G Sbjct: 3 EIEKPR----VERLGSDENYGRYEISPLERGYGTTLGNSLRRILLSSLPGAALTSVKVEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I GV ED+TD+ILN+K + +K SG+ + + G G +TAGD + D+EV Sbjct: 59 VKHEFSAIPGVVEDMTDLILNLKEVVVKYSGEEQTTIRLEAEGEGEITAGDFISAGDVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 +N +H + L + +E TV KG GY A+ + EN+ IGLI ID+ YSPI++ ++ Sbjct: 119 VNKEHHVATLAEGGRLVLEATVDKGRGYHTAEENEKLFENNVIGLIPIDSAYSPIERANF 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +E+ R GQV D+D+L + ++T+GSI +D+++LA++I+ + L +FIN + ++V+ + Sbjct: 179 NIENTRVGQVTDFDRLVLEVNTNGSIHPDDAISLAAKIMVEHLELFINLTDEIEDVEIMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V+ + L +EELELSVRS+NCL+ I + +L+ RTE D++++ N G+KSL E Sbjct: 239 EVEEEEKDEILDTTIEELELSVRSSNCLKRAGINTVEELVSRTEDDLMKVRNLGKKSLKE 298 Query: 306 IKGVLGTMGLFL 317 I+ L + L L Sbjct: 299 IEKKLDELELDL 310 >gi|189347676|ref|YP_001944205.1| DNA-directed RNA polymerase subunit alpha [Chlorobium limicola DSM 245] gi|238692198|sp|B3EGW3|RPOA_CHLL2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|189341823|gb|ACD91226.1| DNA-directed RNA polymerase, alpha subunit [Chlorobium limicola DSM 245] Length = 328 Score = 322 bits (825), Expect = 5e-86, Method: Composition-based stats. Identities = 121/321 (37%), Positives = 192/321 (59%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE + +A+PL RG+ TLGN +RR L++SL G AIT ++IDGV Sbjct: 5 MQMPAKIEVDEA-THTDRFGRFVAQPLERGYGVTLGNVMRRALLASLPGTAITGLKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I GV ED+ +I+LN+K + + + + + ++ G TAGDI + EV Sbjct: 64 FHEFSTINGVREDVPEIVLNLKKVRFRSNCKRNCKTSLVLNGQKEFTAGDIIAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ A +++++ V +G GY+P++ +R + PIG I IDA+++PI+ V +TV Sbjct: 124 LNKDLHIATVNEGATLKIDIFVGRGRGYLPSEENRPDGMPIGFIAIDAIFTPIRNVKFTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGSIT +DS++LA +I+ + + F +F E +E + Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSITPDDSISLAGKIINEHVTFFADFSPTEEEFTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFENMRKLFNTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLEKFDLKFGMDITKY 324 >gi|260438188|ref|ZP_05792004.1| DNA-directed RNA polymerase, alpha subunit [Butyrivibrio crossotus DSM 2876] gi|292809378|gb|EFF68583.1| DNA-directed RNA polymerase, alpha subunit [Butyrivibrio crossotus DSM 2876] Length = 321 Score = 322 bits (825), Expect = 5e-86, Method: Composition-based stats. Identities = 131/316 (41%), Positives = 204/316 (64%), Gaps = 8/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E++ + EPL RG+ TLGN+LRR+++SSL G+A++ V+IDG Sbjct: 3 EFEKPTI--RIEEISEDKRYGRFVVEPLERGYGTTLGNSLRRIMLSSLPGSAVSQVKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG---PGVVTAGDIQTVND 124 VLHE S I GV ED++DII+NIK + +K S DS++ + GVVTAGDI T +D Sbjct: 61 VLHEFSPIPGVKEDVSDIIMNIKNLAIKNSSDSNEPKIAYIECDGREGVVTAGDIHTDSD 120 Query: 125 IEVLNPDHVICNLDV--DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NPD I L+ D + MELT++ G GYV A+ ++ E+ PIG+++ID++Y+P+++ Sbjct: 121 IEIMNPDLPIATLNGGNDCKLFMELTITNGRGYVSAEKNKHEDTPIGVLSIDSIYTPVER 180 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE-V 241 V+ TV++ R GQV D+DKL++ + T+G++ +D+V+LA+++L + L +F++ + K+ V Sbjct: 181 VNMTVQNTRVGQVTDFDKLTLEVYTNGTLAPDDAVSLAAKVLCEHLNLFVDLSDNTKDVV 240 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 I ++ELELSVRS NCL+ I + +L +T DM+++ N GRK Sbjct: 241 GTFIEKPEDEKVKTGAINIDELELSVRSYNCLKRAGINTVEELCSKTAEDMMKVRNLGRK 300 Query: 302 SLVEIKGVLGTMGLFL 317 SL E+ L +GL L Sbjct: 301 SLEEVLAKLKELGLEL 316 >gi|304438880|ref|ZP_07398803.1| DNA-directed RNA polymerase subunit alpha [Peptoniphilus duerdenii ATCC BAA-1640] gi|304372546|gb|EFM26129.1| DNA-directed RNA polymerase subunit alpha [Peptoniphilus duerdenii ATCC BAA-1640] Length = 315 Score = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 123/313 (39%), Positives = 198/313 (63%), Gaps = 2/313 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP+ IE L ++ + + + EPL G+ T+GN+LRRVL+SSL GA+++ V I G Sbjct: 3 EIEKPS-IEIQELSEDGKK-GIFVVEPLESGYGITIGNSLRRVLLSSLPGASVSFVNIRG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE ++I GV ED+ +IILNIK + ++M+ VTI K+GPG +TA DI + + Sbjct: 61 AEHEFATIPGVLEDVPEIILNIKSVVIQMTEIDEALVTIEKKGPGEITAEDINCPLGVTI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ I L+ DA V +E+ + +G GYVP++ + E IG+I ID+ ++P++ V++ V Sbjct: 121 VNPEEHIATLNEDADVYIEMKIERGRGYVPSELKKDEVSTIGVIPIDSNFTPVRHVNWKV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYD+L + + TDGS+ +++ +LA++IL + L +FI E +V + Sbjct: 181 ENTRVGQRTDYDRLVLDVTTDGSMKADEATSLAAKILTEHLKLFIGLTEHVSDVNIMVEK 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L VEEL+LSVRS NCL+ NI + +L+ ++EA+M+++ N G+KSL E++ Sbjct: 241 EEDRKEKVLEMTVEELDLSVRSFNCLKRANINTVEELVDKSEAEMMKVRNLGKKSLEEVQ 300 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 301 NKLAELGLGLKQE 313 >gi|56751897|ref|YP_172598.1| DNA-directed RNA polymerase subunit alpha [Synechococcus elongatus PCC 6301] gi|81301018|ref|YP_401226.1| DNA-directed RNA polymerase subunit alpha [Synechococcus elongatus PCC 7942] gi|6226041|sp|O24710|RPOA_SYNP6 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119366742|sp|Q31L30|RPOA_SYNE7 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2446913|dbj|BAA22472.1| DNA-dircted RNA polymerase alpha chain [Synechococcus elongatus PCC 6301] gi|56686856|dbj|BAD80078.1| RNA polymerase alpha subunit [Synechococcus elongatus PCC 6301] gi|81169899|gb|ABB58239.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus elongatus PCC 7942] Length = 309 Score = 321 bits (824), Expect = 7e-86, Method: Composition-based stats. Identities = 99/306 (32%), Positives = 161/306 (52%), Gaps = 10/306 (3%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + E EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 4 QVECVESRTEADQGQYGRFSIEPLARGQGTTVGNALRRVLLSNLEGTAVTAVRIGGVNHE 63 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ DI+LN++ + + + + GP VTA D+ ++EV+NP+ Sbjct: 64 FATIPGVREDVLDILLNVRELVVHAHSPQPQIGRLRVVGPATVTAADVDFGPEVEVINPN 123 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H I +L A + MEL V G GY E + + +DA++ P+++V+Y+VE AR Sbjct: 124 HYIASLSEGATLEMELKVEWGTGYRAIDRSHDETTALDFLQLDAVFMPVRRVNYSVEDAR 183 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ D+L + + T+GS++ +++++ A+ L N + Sbjct: 184 VGESTAIDRLVLEVWTNGSLSPQEALSQAASCLVALFEPLKNVSVGSTHTADPEPTPESQ 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +E+L+LSVR+ NCL+ + + DL+ T D+L + NFG+KS E+ L Sbjct: 244 ------TPIEDLQLSVRAYNCLKRAQVNSVADLLSYTYEDLLEIKNFGQKSAEEVVEALE 297 Query: 312 TMGLFL 317 +G+ L Sbjct: 298 RIGIKL 303 >gi|309777158|ref|ZP_07672121.1| DNA-directed RNA polymerase, alpha subunit [Erysipelotrichaceae bacterium 3_1_53] gi|308915028|gb|EFP60805.1| DNA-directed RNA polymerase, alpha subunit [Erysipelotrichaceae bacterium 3_1_53] Length = 319 Score = 321 bits (823), Expect = 8e-86, Method: Composition-based stats. Identities = 130/301 (43%), Positives = 187/301 (62%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E ++ + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED Sbjct: 15 DESQHYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK + + + D + I K+GPG VT DI +EV++ D IC L+ Sbjct: 75 VTAIILNIKTLVMSIQDDEIYTLRISKQGPGAVTGADIICPEGVEVISKDLHICTLEEGG 134 Query: 142 VVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 ++ MEL G GYV A ++ T N P+G+I D++Y+PI+KVSY VE R GQ Sbjct: 135 MLEMELQARIGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYNVEPTRVGQDAH 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPAL 256 YDK+++ I TD S++ +SVALASRIL D L + N E +++ + N L Sbjct: 195 YDKVTLEIWTDSSLSPAESVALASRILIDHLELLTNVHEAVNDMESVMKEAQGEVQNKGL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 255 VMMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGLS 314 Query: 317 L 317 Sbjct: 315 F 315 >gi|223983946|ref|ZP_03634106.1| hypothetical protein HOLDEFILI_01387 [Holdemania filiformis DSM 12042] gi|223964138|gb|EEF68490.1| hypothetical protein HOLDEFILI_01387 [Holdemania filiformis DSM 12042] Length = 321 Score = 321 bits (823), Expect = 9e-86, Method: Composition-based stats. Identities = 123/300 (41%), Positives = 180/300 (60%), Gaps = 5/300 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E ++ + EPL RGF TLGNALRRVL+SSL GAA+ +++++GV HE +SI GV ED+ Sbjct: 18 ESDHYGKFVVEPLERGFGTTLGNALRRVLLSSLPGAAVYSIKVEGVYHEFTSIPGVEEDV 77 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T +ILNIK + +K+ D + I +GP VTAGDI +EVLN D I +L+ A Sbjct: 78 TMMILNIKNLIMKIDDDESYTLRIAAKGPMTVTAGDIICPTGVEVLNKDLEIAHLEEGAT 137 Query: 143 VRMELTVSKGHGYVPAK----HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GY+ A ++ + IG + D++Y+PI ++SY VE R GQ Y Sbjct: 138 LEMELKARNGRGYISADGNKALYQGSSQGIGTVYTDSIYTPIDRISYNVEPTRVGQDAKY 197 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALL 257 D+L I T+GSIT + S+AL S+IL D L + + E +++ +V Sbjct: 198 DRLIFEIWTNGSITPQMSLALGSKILIDHLDLLTHVNESVADMESVMKDVNGESPKNMQS 257 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+LSVRS NCL+ I + +L QR+E +M+R+ N G+KSL E+K + +GL Sbjct: 258 MAIEDLDLSVRSYNCLKRAGIQTVEELTQRSEEEMMRVRNLGKKSLKEVKDKIYELGLSF 317 >gi|323436177|ref|ZP_01051163.2| DNA-directed RNA polymerase, alpha subunit [Dokdonia donghaensis MED134] gi|321496492|gb|EAQ37997.2| DNA-directed RNA polymerase, alpha subunit [Dokdonia donghaensis MED134] gi|332170585|gb|AEE19840.1| DNA-directed RNA polymerase, alpha subunit [Krokinobacter diaphorus 4H-3-7-5] Length = 330 Score = 321 bits (823), Expect = 9e-86, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S++ GV ED+T+IILN+K + K + ++ VTI G +TAGD Q ++ Sbjct: 63 DHEFSTLAGVVEDVTEIILNLKQVRFKRQIEEIDNETVTISLSGVDQLTAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VI N+D + ME+T+ KG GYVPA+ ++ N P+G I D++Y+PI+ V Y Sbjct: 123 QVLNPDMVIANMDKKVNLNMEITIEKGRGYVPAEENKKSNAPLGTIFTDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI ++++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIITDGSIHPKEALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVNVKGLSFGMDLAKY 325 >gi|172038952|ref|YP_001805453.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. ATCC 51142] gi|171700406|gb|ACB53387.1| RNA polymerase alpha subunit [Cyanothece sp. ATCC 51142] Length = 314 Score = 321 bits (823), Expect = 1e-85, Method: Composition-based stats. Identities = 109/311 (35%), Positives = 171/311 (54%), Gaps = 11/311 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 5 QIECIESKTQKNQSQYSKFVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +I+LN+K I LK D + + G VTAG +++EV+NP Sbjct: 65 FATIPGVREDVLEIMLNMKEIVLKSYTDQPQIGRLVATGAAHVTAGQFDLPSEVEVINPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VES R Sbjct: 125 QPIATLTEGAKLEMEFRIEKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + I T+GS +++++ A+ IL D + + + V E + Sbjct: 185 GEEGEAKDRLMLEIWTNGSFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPD----E 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 ENPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 --QKRLGITLP 308 >gi|179184786|gb|ACB78160.1| RNA polymerase alpha subunit [Vibrio gallaecicus] Length = 306 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 136/304 (44%), Positives = 200/304 (65%), Gaps = 8/304 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 L Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV Sbjct: 6 LEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQ 65 Query: 80 EDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 66 EDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLT 125 Query: 139 VD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q Sbjct: 126 DDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQ 185 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 186 RTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP--- 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 243 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 302 Query: 315 LFLG 318 L LG Sbjct: 303 LSLG 306 >gi|313897186|ref|ZP_07830730.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. HGF2] gi|312957907|gb|EFR39531.1| DNA-directed RNA polymerase, alpha subunit [Clostridium sp. HGF2] Length = 319 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 128/301 (42%), Positives = 187/301 (62%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E ++ + EPL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI G+ ED Sbjct: 15 DESQHYGKFVFEPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGIVED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK + + + D + I K+GPG VT DI +EV++ D IC L+ Sbjct: 75 VTAIILNIKTLVMSIQDDEIYTLRISKQGPGAVTGADIICPEGVEVISKDLHICTLEEGG 134 Query: 142 VVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 ++ MEL G GYV A ++ T N P+G+I D++Y+PI+KVSY VE R GQ Sbjct: 135 MLEMELQARIGRGYVSADTNKQLYQTPNQPLGIIYTDSIYTPIEKVSYNVEPTRVGQDAH 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPAL 256 YDK+++ I TD S++ ++VALAS+IL D L + N E +++ + N L Sbjct: 195 YDKVALEIWTDSSLSPAEAVALASKILIDHLELLTNVHEAVNDMESVMKEAQGEVQNKGL 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + +E+L+LSVRS NCL+ I + +L QRTE +M+R+ N G+KSL E+K + +GL Sbjct: 255 VMMIEDLDLSVRSYNCLKRAGIQTVEELTQRTEDEMMRVRNLGKKSLKEVKDKIYDLGLS 314 Query: 317 L 317 Sbjct: 315 F 315 >gi|167767776|ref|ZP_02439829.1| hypothetical protein CLOSS21_02311 [Clostridium sp. SS2/1] gi|317497067|ref|ZP_07955394.1| DNA-directed RNA polymerase [Lachnospiraceae bacterium 5_1_63FAA] gi|167710515|gb|EDS21094.1| hypothetical protein CLOSS21_02311 [Clostridium sp. SS2/1] gi|291558883|emb|CBL37683.1| DNA-directed RNA polymerase subunit alpha [butyrate-producing bacterium SSC/2] gi|316895612|gb|EFV17767.1| DNA-directed RNA polymerase [Lachnospiraceae bacterium 5_1_63FAA] Length = 318 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 129/305 (42%), Positives = 194/305 (63%), Gaps = 5/305 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN IE + E+ + EPL RG+ TLGN+LRR+++SSL GAA+++V+I G Sbjct: 3 EFEKPN-IEINEI-SEDNRFGRFVVEPLERGYGTTLGNSLRRIMLSSLPGAAVSSVKIKG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE SSI GV ED+ +II+NIK + +K + K+ I G GVVTAGDI+ +DI Sbjct: 61 VLHEFSSIPGVKEDVPEIIMNIKSLAIKNNSSSAETKQAYIEFSGKGVVTAGDIKADSDI 120 Query: 126 EVLNPDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E+LNP+ VI L D+ + MELT++ G GYV A E I I +DA+Y+P+++V+ Sbjct: 121 EILNPELVIATLSDDSSKLDMELTITNGRGYVGADKADKEGKAIDEIAVDAIYTPVERVN 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 VE+ R GQ+ DYDKL++ + T+G++T ++SV+LA+++L + L +F++ E K + Sbjct: 181 LKVENTRVGQITDYDKLTLDVFTNGTLTPDESVSLAAKVLCEHLNLFVDLSENAKTAEVM 240 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL Sbjct: 241 VEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTNKTSEDMMKVRNLGRKSLE 300 Query: 305 EIKGV 309 E+ Sbjct: 301 EVLAK 305 >gi|120437149|ref|YP_862835.1| DNA-directed RNA polymerase subunit alpha [Gramella forsetii KT0803] gi|158512451|sp|A0M573|RPOA_GRAFK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|117579299|emb|CAL67768.1| DNA-directed RNA polymerase alpha subunit [Gramella forsetii KT0803] Length = 330 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K D ++ VTI G +TAG Q ++ Sbjct: 63 DHEFSTIAGVVEDVTEIILNLKQVRFKRQIDEIDNESVTISVSGEEQLTAGHFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VIC++D + ME+T+ KG GYVPA+ ++ N P+G I +D++Y+PIK V Y Sbjct: 123 QVLNPDQVICHMDKKVSLNMEITIEKGRGYVPAEENKKANAPLGTIFVDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVSNKGLNFGMDLSKY 325 >gi|116490683|ref|YP_810227.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Oenococcus oeni PSU-1] gi|290890098|ref|ZP_06553181.1| hypothetical protein AWRIB429_0571 [Oenococcus oeni AWRIB429] gi|122277133|sp|Q04G60|RPOA_OENOB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116091408|gb|ABJ56562.1| DNA-directed RNA polymerase subunit alpha [Oenococcus oeni PSU-1] gi|290480289|gb|EFD88930.1| hypothetical protein AWRIB429_0571 [Oenococcus oeni AWRIB429] Length = 314 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 133/317 (41%), Positives = 192/317 (60%), Gaps = 6/317 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I +E EN +AEPL RG+ TLGN+LRRVL+SSL GAAI +VQIDG Sbjct: 3 EFQKPT----ISTVEESENYGKFVAEPLERGYGTTLGNSLRRVLLSSLPGAAINSVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++I GV ED+T IILN+K + +++ D K + + G G +TAGDI++ D+E+ Sbjct: 59 VLHEFTTIDGVTEDVTQIILNLKKVAMRIDSDEQKTLEVDFSGAGELTAGDIKSDGDVEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYT 186 LNPD I + + M LT +G GY A+ ++ + IG++ ID++Y+PI KV+YT Sbjct: 119 LNPDLHIATVSAGKSLHMALTAVRGRGYDSAEENKAKMELGIGVLAIDSIYTPISKVNYT 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R G DYDKL++ + TDGS++ +S++L S+IL + L +FI+ K+ + ++ Sbjct: 179 VEKTRVGHRDDYDKLTLEVWTDGSVSPSESLSLGSKILSEHLALFIDLSNAGKK-EMMLD 237 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ + +EELELSVRS NCL+ I + DL +T DM + N GRKSL EI Sbjct: 238 PDAVETVMENKEPIEELELSVRSFNCLKRAGINTIEDLTDKTLHDMGEVRNLGRKSLEEI 297 Query: 307 KGVLGTMGLFLGMNLPD 323 L G + Sbjct: 298 IQKLAERGQSFKQETEN 314 >gi|119358164|ref|YP_912808.1| DNA-directed RNA polymerase subunit alpha [Chlorobium phaeobacteroides DSM 266] gi|158512605|sp|A1BJ07|RPOA_CHLPD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|119355513|gb|ABL66384.1| DNA-directed RNA polymerase subunit alpha [Chlorobium phaeobacteroides DSM 266] Length = 327 Score = 321 bits (822), Expect = 1e-85, Method: Composition-based stats. Identities = 127/318 (39%), Positives = 191/318 (60%), Gaps = 6/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE E IA+PL RG+ T+GN +RRVL++SL G AIT V+I+GV Sbjct: 5 MQMPAKIEVDEA-THTEMFGRFIAQPLERGYGVTIGNVMRRVLLASLPGTAITGVKIEGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I+GV ED+ +I+LN+K + K + + ++ G TAGDI + EV Sbjct: 64 YHEFSAIEGVREDVPEIVLNLKRVRFKSNCKRSCKTSLSIAGTKDFTAGDIIAKEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ +V+ +E+ + +G GY+PA+ + E PIG I IDA+++PI+ V +TV Sbjct: 124 LNKDLHIATVNDGSVLNIEIYIGRGRGYLPAEENHPEGMPIGFIAIDAIFTPIRNVKFTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGSI +DS++LA +I+ D + F NF E +E + Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSIAPDDSISLAGKIINDHIMYFANFSPTEEEFTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFESMRKLLHTKIEDLDLSVRSHNCLRLAEIDTIGDLVSRKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNL 321 E+K L L GM++ Sbjct: 304 TELKEQLEKFDLKFGMDI 321 >gi|309789643|ref|ZP_07684224.1| DNA-directed RNA polymerase subunit alpha [Oscillochloris trichoides DG6] gi|308228379|gb|EFO82026.1| DNA-directed RNA polymerase subunit alpha [Oscillochloris trichoides DG6] Length = 330 Score = 320 bits (821), Expect = 1e-85, Method: Composition-based stats. Identities = 124/310 (40%), Positives = 191/310 (61%), Gaps = 8/310 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++ P I + Q EN EPL G+ HTLGNALRRVL+SS+ G+AIT ++IDG Sbjct: 3 DIAMPK----IEVVQAAENYGRFKIEPLDPGYGHTLGNALRRVLVSSIPGSAITKIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I+GV ED+T+I+LNIKG+ L+ + +V + KRGPG+VTA DI ++IE+ Sbjct: 59 VFHEFSTIEGVKEDVTEIVLNIKGVRLRSYAERPVKVLLTKRGPGIVTAKDIDVPSNIEL 118 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +NP+H IC LD + A + +E+TV +G GYV A + PIG I +DA+++P+ +V+Y Sbjct: 119 VNPNHYICTLDSEVARLEIEMTVERGRGYVSADQR--DILPIGEIPVDAIFTPVPRVNYV 176 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ D+D+L + I TDG++ D+++ A+++L +F E +E Sbjct: 177 VENTRIGQATDFDRLLLEIWTDGTVKPGDALSHAAQVLVQYSQTIADFNRLAVEEEESPT 236 Query: 247 VKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L + +E+L+LS R+ NCL+ +I +G ++Q E +L + N G+KS+ E Sbjct: 237 PSGLTIPSDIYDTPIEDLDLSTRTYNCLKRADITKVGQVLQMDEKALLSVRNLGQKSMEE 296 Query: 306 IKGVLGTMGL 315 I+ L G Sbjct: 297 IRDRLVERGY 306 >gi|179184639|gb|ACB78155.1| RNA polymerase alpha subunit [Vibrio comitans] Length = 304 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 137/307 (44%), Positives = 201/307 (65%), Gaps = 9/307 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 2 LVDIEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 61 Query: 77 GVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC Sbjct: 62 GVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVIC 121 Query: 136 NLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Sbjct: 122 HLTDDNADIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAAR 181 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + KE Sbjct: 182 VEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKEREPR---- 237 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 238 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 297 Query: 312 TMGLFLG 318 + G LG Sbjct: 298 SRGWSLG 304 >gi|217967396|ref|YP_002352902.1| DNA-directed RNA polymerase, alpha subunit [Dictyoglomus turgidum DSM 6724] gi|217336495|gb|ACK42288.1| DNA-directed RNA polymerase, alpha subunit [Dictyoglomus turgidum DSM 6724] Length = 321 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 113/317 (35%), Positives = 191/317 (60%), Gaps = 11/317 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+++N + +++ + + + EPL RG+ T+GN+LRR+L+SS+ GAA+ Sbjct: 1 MLEENVR----------VIIEKRSDEYGRFVIEPLERGYGWTIGNSLRRILLSSIEGAAV 50 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 +V+I+GV HE+ + G+ E++ +I++N+K + +K+ ++ + + RGP VVTAGD Sbjct: 51 VSVKIEGVRHELEVLPGLKEEILEILMNLKKLVVKIEDNNSHILELDVRGPKVVTAGDFI 110 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++++LNPD VI L D ME+ V KG GYV A+ ++ ++ PIG++ +D+++SP+ Sbjct: 111 VPANVKILNPDLVIATLVDDIPFHMEVEVRKGKGYVSAEENKDQSYPIGVLVLDSIFSPV 170 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKVSYTVE R G+ D D+L + I T+ S+T E++ ASRIL + + E Sbjct: 171 KKVSYTVEKTRVGRRTDLDRLIIEIWTNKSVTPEEAFREASRILMEYFKLLSEREFQLPH 230 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + SL L +E+L LS R+ N LR I + DL+ ++ D++++ NFG+ Sbjct: 231 EEVGQEITSLEEEKKGLT-LEDLGLSTRAYNSLRHAGIHTIEDLLSKSREDLMKIKNFGQ 289 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL E++ L GL L Sbjct: 290 KSLQELEEKLREKGLSL 306 >gi|302379835|ref|ZP_07268319.1| DNA-directed RNA polymerase, alpha subunit [Finegoldia magna ACS-171-V-Col3] gi|302312423|gb|EFK94420.1| DNA-directed RNA polymerase, alpha subunit [Finegoldia magna ACS-171-V-Col3] Length = 317 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 132/311 (42%), Positives = 199/311 (63%), Gaps = 1/311 (0%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I+ + L ++ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+ Sbjct: 7 TKIKIVELDEQN-NYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEM 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+IKGV ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH Sbjct: 66 STIKGVKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L+ DA + M++TV G GY ++ ++TE D IG I ID+L+SP+KKV++TV++AR Sbjct: 126 YIATLNEDASLEMQITVINGKGYKISEFNKTEEDIIGDIAIDSLFSPVKKVNFTVDNARV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQV+DYDKL++ + T+G+I +D+++ S IL + L +F + D Sbjct: 186 GQVIDYDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDK 245 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 ++ +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L Sbjct: 246 ETQMVINIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQE 305 Query: 313 MGLFLGMNLPD 323 MGL + D Sbjct: 306 MGLAFKQEIKD 316 >gi|169823878|ref|YP_001691489.1| DNA-directed RNA polymerase subunit alpha [Finegoldia magna ATCC 29328] gi|303234800|ref|ZP_07321426.1| DNA-directed RNA polymerase, alpha subunit [Finegoldia magna BVS033A4] gi|167830683|dbj|BAG07599.1| DNA-directed RNA polymerase alpha subunit [Finegoldia magna ATCC 29328] gi|302494141|gb|EFL53921.1| DNA-directed RNA polymerase, alpha subunit [Finegoldia magna BVS033A4] Length = 317 Score = 320 bits (821), Expect = 2e-85, Method: Composition-based stats. Identities = 131/311 (42%), Positives = 199/311 (63%), Gaps = 1/311 (0%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I+ + L ++ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+ Sbjct: 7 TKIKIVELDEQN-NYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEM 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+IKGV ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH Sbjct: 66 STIKGVKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L+ DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR Sbjct: 126 YIATLNEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQV+DYDKL++ + T+G+I +D+++ S IL + L +F + D Sbjct: 186 GQVIDYDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDK 245 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 ++ +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L Sbjct: 246 ETQMVINIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQE 305 Query: 313 MGLFLGMNLPD 323 MGL + D Sbjct: 306 MGLAFKQEIKD 316 >gi|295135676|ref|YP_003586352.1| DNA-directed RNA polymerase subunit alpha [Zunongwangia profunda SM-A87] gi|294983691|gb|ADF54156.1| DNA-directed RNA polymerase subunit alpha [Zunongwangia profunda SM-A87] Length = 330 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K D ++ VTI G +TAG Q ++ Sbjct: 63 DHEFSTIPGVVEDVTEIILNLKQVRFKRQIDEIDNEAVTISVSGEEELTAGHFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNP+ VIC+LD + ME+T+ KG GYVPA+ ++ N P+G I D++Y+PIK V Y Sbjct: 123 QVLNPELVICHLDSKVNINMEITIEKGRGYVPAEENKKANAPLGTIFTDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVSNKGLNFGMDLSKY 325 >gi|179184509|gb|ACB78150.1| RNA polymerase alpha subunit [Vibrio sp. RD 9.17] Length = 303 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 135/304 (44%), Positives = 200/304 (65%), Gaps = 8/304 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV Sbjct: 3 IEQINTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQ 62 Query: 80 EDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 63 EDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLT 122 Query: 139 VD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q Sbjct: 123 DDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQ 182 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 183 RTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP--- 239 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 240 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 299 Query: 315 LFLG 318 L LG Sbjct: 300 LSLG 303 >gi|291166852|gb|EFE28898.1| DNA-directed RNA polymerase, alpha subunit [Filifactor alocis ATCC 35896] Length = 315 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 127/312 (40%), Positives = 202/312 (64%), Gaps = 6/312 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KPN + + + + EPL RGF T+GN+LRRVL+SSL G A+ +++I+G Sbjct: 3 EIEKPN----VTVLEYRNDYGKFALEPLERGFGITVGNSLRRVLLSSLPGVAVNSIKIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+I GV ED+T+I+L +K + + M+ + ++ + I + G G++TAGDI D+ Sbjct: 59 VLHEFSTIPGVKEDVTEIMLTLKELAMVMNSEESRQRTLIIEQEGEGIITAGDIICPPDV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD I D + ME+ VSKG GYV ++ ++TE+ PIG+I +D++Y+P+KKV+Y Sbjct: 119 EVLNPDLHIMTCSKDTKLYMEINVSKGRGYVSSEDNKTEDMPIGVIPMDSIYTPVKKVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 T+E R G + +KL+ I T+GS +++V+L S+IL + L +F+N + E++ + Sbjct: 179 TIEPTRVGARSNLEKLTFEIWTNGSFEVQEAVSLGSKILIEHLNLFLNLSDKLSEIELMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + AL +EEL+LSVRS NCL+ +I + +L ++TE DM+++ N G+KSL E Sbjct: 239 EKEEGKKEKALEMTIEELDLSVRSYNCLKRASINTVEELTKKTEDDMMKVRNLGKKSLEE 298 Query: 306 IKGVLGTMGLFL 317 + G L +G L Sbjct: 299 VVGKLHDLGFTL 310 >gi|126658013|ref|ZP_01729165.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. CCY0110] gi|126620651|gb|EAZ91368.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. CCY0110] Length = 314 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 108/311 (34%), Positives = 171/311 (54%), Gaps = 11/311 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 5 QIECIESKTQKNQSQYSKFVLEPLERGQGTTVGNALRRVLLANLEGTAVTAIRIGGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +I+LN+K I LK + + + G VTAG +++EV+NP Sbjct: 65 FATIPGVREDVLEIMLNMKEIVLKSYTEQPQIGRLVATGAAHVTAGQFDLPSEVEVINPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VES R Sbjct: 125 QPIATLTEGAKLEMEFRIEKGVGYVPVERSSDEPTALDFLQIDAVFMPVTKVNYSVESIR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + I T+GS +++++ A+ IL D + + + V E + Sbjct: 185 GEEGEAKDRLMLEIWTNGSFNPKEALSRAADILVDLFNPLKDLNQLETAVPEYPD----E 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 ENPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 --QKRLGITLP 308 >gi|308233885|ref|ZP_07664622.1| DNA-directed RNA polymerase, alpha subunit [Atopobium vaginae DSM 15829] gi|328943592|ref|ZP_08241057.1| DNA-directed RNA polymerase subunit alpha [Atopobium vaginae DSM 15829] gi|327491561|gb|EGF23335.1| DNA-directed RNA polymerase subunit alpha [Atopobium vaginae DSM 15829] Length = 314 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 124/315 (39%), Positives = 191/315 (60%), Gaps = 8/315 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E I+P + + EN + EPL RG+ TLGN++RRVL+SSL GAA+ A+ ID Sbjct: 2 SEFIRPQ----VSVVDISENLARVNVEPLERGYGDTLGNSMRRVLLSSLEGAAVEAISID 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDI 125 GV HE S++ GV+ED+TDI+LN+KG+ +G +I GP VT GD + + Sbjct: 58 GVQHEFSTVDGVYEDVTDIVLNVKGLVFHANGSGETAEASISIDGPCTVTGGDFKIPAEF 117 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N DHVIC L + M + + G GYV + + DPIG+I +D+LYSP+++ + Sbjct: 118 ELINKDHVICTLGEGGHLAMRMRIGVGRGYVSGDDNERDEDPIGVIHVDSLYSPVRRCAK 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 TVE R GQ +YD+L + I+T+GSI+ D+V A+ I+ + F++ E ++E +ED+ Sbjct: 178 TVEPCRVGQHTNYDRLILEIETNGSISPRDAVIEAADIINQHMAAFMDLAEDEEEPQEDV 237 Query: 246 NVKSLPFNPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ S K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG KS Sbjct: 238 SIFSNEEEEENTELDKQIEDLDLSVRSYNCLKRAGIHNVRQLVEFSENDLLNIRNFGVKS 297 Query: 303 LVEIKGVLGTMGLFL 317 + E++ L GL L Sbjct: 298 IEEVRDKLEDAGLGL 312 >gi|67923562|ref|ZP_00517035.1| DNA-directed RNA polymerase [Crocosphaera watsonii WH 8501] gi|67854588|gb|EAM49874.1| DNA-directed RNA polymerase [Crocosphaera watsonii WH 8501] Length = 314 Score = 320 bits (820), Expect = 2e-85, Method: Composition-based stats. Identities = 108/314 (34%), Positives = 174/314 (55%), Gaps = 11/314 (3%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + + + + + + EPL RG T+GN+LRRVL+++L GAA+TA++I GV Sbjct: 2 TQFQIECIESKTQKNQSQYSKFVLEPLERGQGTTVGNSLRRVLLANLEGAAVTAIRIGGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE ++I GV ED+ +I+LN+K I LK + + + G VTAG + +++EV+ Sbjct: 62 NHEFATIPGVREDVLEIMLNMKEIVLKSYTEQPQIGRLVATGAAHVTAGQFELPSEVEVV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP I L A + ME + KG GYVP + E + + IDA++ P+ KV+Y+VE Sbjct: 122 NPTQPIATLTEGAKLEMEFRIEKGVGYVPVERSSEEPAALDFLQIDAVFMPVTKVNYSVE 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R + D+L + I T+GS +++++ A+ IL D + + + V+E + Sbjct: 182 SIRGEEGEAKDRLMLEIWTNGSFNPKEALSKAADILVDLFNPLKDLNQLETAVQEYPD-- 239 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ Sbjct: 240 --EENPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIE 297 Query: 309 VLGTMGLFLGMNLP 322 L LG+ LP Sbjct: 298 AL---QKRLGITLP 308 >gi|168334324|ref|ZP_02692511.1| DNA-directed RNA polymerase, alpha subunit [Epulopiscium sp. 'N.t. morphotype B'] Length = 319 Score = 320 bits (819), Expect = 2e-85, Method: Composition-based stats. Identities = 122/314 (38%), Positives = 190/314 (60%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP+ IE L ++ + + EPL RG+ TLGN LRR+L+S+L G+A++ V+ +G Sbjct: 3 EFEKPS-IEIKALSEDGK-YGCFVIEPLERGYGMTLGNGLRRILLSTLPGSAVSNVKFEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S+I GV ED+ +IILN+KG+ ++ S K I G GVVTA DI+ + Sbjct: 61 VLHEFSTIPGVKEDVLEIILNLKGLCIRDSSATQEPKIAYIEVTGEGVVTAEDIKCPLGV 120 Query: 126 EVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 E+LNP+ I LD + + ELT++ G GY + IG+I +DA Y+P+++V Sbjct: 121 EILNPEMYIATLDGDKNTKLYAELTITNGRGYEGISKLKKSELLIGVIPVDASYTPVERV 180 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++ VE R GQ D+D+L++ + T G+I +++++LA+++L + L +FI+ E K + Sbjct: 181 NFKVEDTRVGQQTDFDRLTLEVFTKGTIRPDEAISLAAKVLSEHLSIFIDLSEHAKRAEI 240 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 I + L +EEL+LSVRS NCL+ I + DL +TE +M+++ N GRKSL Sbjct: 241 MITKEDDTKEKTLEMTIEELDLSVRSFNCLKRAGINNVQDLTNKTEEEMMKVRNLGRKSL 300 Query: 304 VEIKGVLGTMGLFL 317 E+ L +GL L Sbjct: 301 EEVFKKLEDLGLSL 314 >gi|58415736|emb|CAH57282.1| RNA polymerase alpha-subunit [Vibrio aerogenes] Length = 293 Score = 320 bits (819), Expect = 2e-85, Method: Composition-based stats. Identities = 134/296 (45%), Positives = 199/296 (67%), Gaps = 8/296 (2%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+L Sbjct: 1 AKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILL 60 Query: 88 NIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRM 145 N+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L D A + M Sbjct: 61 NLKGLAVRVAEGKDEVFITLHKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAM 120 Query: 146 ELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL Sbjct: 121 RIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLV 180 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + ++T+G+I E+++ A+ +L +QL F++ + + +++ + P LL+ V++ Sbjct: 181 IDMETNGTIEPEEAIRRAATVLAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDD 237 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 LELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 293 >gi|293393287|ref|ZP_06637601.1| DNA-directed RNA polymerase subunit alpha [Serratia odorifera DSM 4582] gi|291424197|gb|EFE97412.1| DNA-directed RNA polymerase subunit alpha [Serratia odorifera DSM 4582] Length = 334 Score = 320 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 127/303 (41%), Positives = 198/303 (65%), Gaps = 10/303 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENAAISMRIKVQRGRGYVPASARIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 294 Query: 298 FGR 300 G+ Sbjct: 295 LGK 297 >gi|238916292|ref|YP_002929809.1| DNA-directed RNA polymerase subunit alpha [Eubacterium eligens ATCC 27750] gi|238871652|gb|ACR71362.1| DNA-directed RNA polymerase subunit alpha [Eubacterium eligens ATCC 27750] Length = 322 Score = 320 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 127/312 (40%), Positives = 203/312 (65%), Gaps = 5/312 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P IE E+ + EPL RG+ TLGN+LRR+++SSL G A+++++I+GV Sbjct: 8 FKMP-KIEMTE-KSEDGKYGKFVVEPLERGYGLTLGNSLRRIMLSSLVGTAVSSIKIEGV 65 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIE 126 LHE SSI GV ED+T+I++NIK +++K +G+ K I G GVV A DIQ DIE Sbjct: 66 LHEFSSIPGVKEDVTEIVMNIKQLSIKNNGNSVEPKEAHIDFVGEGVVRASDIQVDPDIE 125 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NPD VI +L+ D+ + MELT++ G GYV ++ ++ ++ P G+I ID++Y+P+++V+ Sbjct: 126 IINPDLVIAHLNGADSKLTMELTITNGRGYVSSEKNKRDDQPAGVIAIDSIYTPVERVNM 185 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V++ R GQ D+DKL++ I T+G+I +++++LA+++L + L FIN E ++V+ + Sbjct: 186 AVQNTRVGQDTDFDKLTLDIFTNGTIEPDEALSLAAKVLSEHLKGFINLSENAQKVEIMV 245 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + L +E+LELSVRS+NCLR I + +L +T DM+++ N G+KSL E Sbjct: 246 EQEEDETTKVLSMSIEDLELSVRSSNCLRRAGINTVEELCNKTSDDMMKVRNLGKKSLDE 305 Query: 306 IKGVLGTMGLFL 317 + L MGL L Sbjct: 306 VLLKLKEMGLHL 317 >gi|58415896|emb|CAH57362.1| RNA polymerase alpha-subunit [Vibrio ichthyoenteri ATCC 700023] Length = 297 Score = 320 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 133/300 (44%), Positives = 199/300 (66%), Gaps = 8/300 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 1 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 60 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-A 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A Sbjct: 61 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLTDDNA 120 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+V++AR Q D Sbjct: 121 EIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVDAARVEQRTDL 180 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 181 DKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 237 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 297 >gi|284053326|ref|ZP_06383536.1| DNA-directed RNA polymerase subunit alpha [Arthrospira platensis str. Paraca] gi|291567808|dbj|BAI90080.1| RNA polymerase alpha subunit [Arthrospira platensis NIES-39] Length = 314 Score = 320 bits (819), Expect = 3e-85, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 172/312 (55%), Gaps = 10/312 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE I + + + PL RG T+GNALRRVL+S+L G AITAV+I GV HE Sbjct: 5 KIECIESNISTDRSQYGKFVLGPLDRGQGITVGNALRRVLLSNLEGTAITAVRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I G ED+ +I+LN+K LK + + +GP VT G +++EV++ + Sbjct: 65 FATIDGAREDVLEIMLNLKEAVLKSHTHQKQIGRLLVQGPATVTVGHFDLPSEVEVVDKN 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME + KG GY HR ++ + + IDA++ P++KV+YTVE AR Sbjct: 125 QYIATLSPGATLEMECQIEKGTGYRAVDRHRDDSAALDFLQIDAIFMPVRKVNYTVEDAR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +G L+ D+L++ I T GS+T +++++ A+ IL D G ++ + + Sbjct: 185 DGGSLEKDRLTLEIWTSGSLTPQEAISQAAAILVDLFGAL-----KDINLESITSDQRDD 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ I + DL TE D+L + NFG+KS E+ L Sbjct: 240 IDPTSQIPIEELQLSVRAYNCLKRAQINSVADLRDYTEEDLLEIKNFGQKSAEEVIEALQ 299 Query: 312 TMGLFLGMNLPD 323 LG+ LP Sbjct: 300 NR---LGITLPK 308 >gi|302337502|ref|YP_003802708.1| DNA-directed RNA polymerase, subunit alpha [Spirochaeta smaragdinae DSM 11293] gi|301634687|gb|ADK80114.1| DNA-directed RNA polymerase, alpha subunit [Spirochaeta smaragdinae DSM 11293] Length = 351 Score = 319 bits (818), Expect = 3e-85, Method: Composition-based stats. Identities = 132/330 (40%), Positives = 196/330 (59%), Gaps = 12/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + + + N +A P RGF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPRGITFEH-SELQSNYGKFVAYPFERGFGTTVGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 ++AV+I +G H E + V ED +II N+K + +K+ + K + I + Sbjct: 60 VSAVKITCYNEEGTPHMVSSEFEMVPEVVEDTPEIIANLKQLQIKLPEEVEQKTLLIECK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GPG +T D + ND+E++N D I + A +E+ + G GYVP++ + + IG Sbjct: 120 GPGEITGADFEKDNDVEIINKDWKILTMMEKANFDLEVQIDLGRGYVPSEVNEKYIEEIG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I IDA++SPIK+V+Y +E+ R GQ DYDKL+M I TDG+I ED++A A++I +D Sbjct: 180 TIPIDAVFSPIKRVTYGIENTRVGQRSDYDKLTMEIYTDGTIAPEDALAEAAKIAKDHFT 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF+E + +D++ + L VEELELSVRS NCL+ NI +GDL ++TE Sbjct: 240 IFINFDEDAIDGDDDVDEEEERVRAVLDTPVEELELSVRSFNCLKSANIRTIGDLTRKTE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ + NFG+KSL EIK L L LGM Sbjct: 300 EEIAKTRNFGKKSLQEIKEKLKEWNLSLGM 329 >gi|312880343|ref|ZP_07740143.1| DNA-directed RNA polymerase subunit alpha [Aminomonas paucivorans DSM 12260] gi|310783634|gb|EFQ24032.1| DNA-directed RNA polymerase subunit alpha [Aminomonas paucivorans DSM 12260] Length = 362 Score = 319 bits (818), Expect = 3e-85, Method: Composition-based stats. Identities = 122/342 (35%), Positives = 186/342 (54%), Gaps = 20/342 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I++ + + ++ EPL RG+ TLGNALRRVL+SS+ GA+I+AV+I+GVLHE S++ G Sbjct: 19 IIVEEITPSYGRIVLEPLERGYGITLGNALRRVLLSSIPGASISAVRIEGVLHEFSTVPG 78 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ ++++N+K + L+ K + + GP VTA DIQ D+E ++P+ VIC L Sbjct: 79 VREDVIELLVNLKHVPLRCYNAELKTLHLEVEGPKTVTAADIQPDADVEYVDPEAVICTL 138 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + M+L V +G GY R P+ + IDA++SP K+V Y V+ R GQ D Sbjct: 139 EAGHRISMDLYVEQGIGYAAIDRPRPAYLPVDALLIDAVFSPAKRVKYEVQDVRMGQRTD 198 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF--------------------EEP 237 YD+L + + T+G +T +++VA AS IL+ N E Sbjct: 199 YDRLVLEVWTNGVVTPKEAVAKASAILEGYFRSLTNVLSSRPSQGGALPEDAISSEGEGV 258 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 E N L + V +LELSVRS NCL + +GDL+ R D+L++ N Sbjct: 259 PAEGDPAEEPVRFFENALLARPVRDLELSVRSENCLLRGGVHVIGDLVGRAREDLLKIRN 318 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 G+ SL EI+ L GL LG E+ ++L + E++ Sbjct: 319 LGKISLKEIEEKLEKFGLSLGGEPLSDLGETEDDLPETKEEE 360 >gi|269792765|ref|YP_003317669.1| DNA-directed RNA polymerase, alpha subunit [Thermanaerovibrio acidaminovorans DSM 6589] gi|269100400|gb|ACZ19387.1| DNA-directed RNA polymerase, alpha subunit [Thermanaerovibrio acidaminovorans DSM 6589] Length = 342 Score = 319 bits (818), Expect = 4e-85, Method: Composition-based stats. Identities = 123/333 (36%), Positives = 188/333 (56%), Gaps = 18/333 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I++ + + ++ EPL RG+ TLGNALRRVL+SS+ GA I AV++DGVLHE S+I G Sbjct: 8 IIVEEVTPSHGRVVLEPLERGYGTTLGNALRRVLLSSIPGAGIVAVRVDGVLHEFSTIPG 67 Query: 78 VHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V ED+ +++LN+K + +++SG K + + GP VV A DIQ D+E ++P+ VIC Sbjct: 68 VREDVIELLLNLKHVPVRVSGPGTDVKVLRLEAEGPKVVRAADIQGDADVEFVDPEAVIC 127 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LD V M+L + +G GY P R P+ + IDA++SP+K+V Y V+ R GQ Sbjct: 128 TLDEGHRVSMDLYIERGVGYAPIDRPRPSYLPVDALLIDAIFSPVKRVRYEVQDVRSGQR 187 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLG-MFINFEEPKKEVK------------ 242 DYD+L + + T+G ++ D+VA AS IL + + V Sbjct: 188 TDYDRLVLEVWTNGVVSFRDAVAEASSILSGYFRGLSTSLWGQSSAVTAGDEDFFEEKDE 247 Query: 243 ---EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +++ + L + +++LELSVRS NCL I +GDL+ R + ++L++ N G Sbjct: 248 EDLQEVPAVCGEDDSVLSRPIKDLELSVRSENCLLRGGIHRIGDLVSRPKEELLKIRNLG 307 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 + SL EI+ LG GL L P + E+L Sbjct: 308 KISLREIEEKLGKFGLSLKGEEPSGEADQAEDL 340 >gi|156743921|ref|YP_001434050.1| DNA-directed RNA polymerase subunit alpha [Roseiflexus castenholzii DSM 13941] gi|189043845|sp|A7NR36|RPOA_ROSCS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|156235249|gb|ABU60032.1| DNA-directed RNA polymerase, alpha subunit [Roseiflexus castenholzii DSM 13941] Length = 323 Score = 319 bits (817), Expect = 4e-85, Method: Composition-based stats. Identities = 122/310 (39%), Positives = 186/310 (60%), Gaps = 8/310 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 ++ P I + EN EPL G+ HTLGNALRRVL+SS+ GAAIT ++IDG Sbjct: 3 DIAMPK----IEVVTAAENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAITKIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V HE S+I G+ ED+T+I+LNIKG+ L+ + ++++ KRG G+V A DI +++E+ Sbjct: 59 VFHEFSTISGIKEDVTEIVLNIKGVRLRSYAERPVKISLSKRGSGIVRAADIDAPSNVEI 118 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +NP H IC +D DA++ ME+TV +G GY+PA + PIG I IDA+++P+ KV+Y Sbjct: 119 VNPFHYICTIDRDDAMLEMEMTVERGRGYLPADQR--DALPIGEIPIDAIFTPVPKVNYV 176 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ D+D L + I TDG+I D+++ A+++L +F E + Sbjct: 177 VENIRVGQATDFDSLLIEIWTDGTIKPGDALSHAAQVLVQYSQTIADFNRLSTETESTAA 236 Query: 247 VKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +EEL+LS R+ NCL+ +I +G +++ E +L + N G+KS+ E Sbjct: 237 PNGLAIPADIYDTPIEELDLSTRTYNCLKRADITKVGQVLEMDEKALLSVRNLGQKSMEE 296 Query: 306 IKGVLGTMGL 315 I+ L G Sbjct: 297 IRDKLIERGY 306 >gi|163752891|ref|ZP_02160015.1| DNA-directed RNA polymerase subunit alpha [Kordia algicida OT-1] gi|161326623|gb|EDP97948.1| DNA-directed RNA polymerase subunit alpha [Kordia algicida OT-1] Length = 330 Score = 319 bits (817), Expect = 5e-85, Method: Composition-based stats. Identities = 126/323 (39%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ E PL G+ T+GNALRRVL+SSL G AIT+V+ID V Sbjct: 6 FQKPDKV---IMIDSSEFDGKFEFRPLEPGYGLTIGNALRRVLLSSLEGFAITSVRIDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K D ++ V+I G +TAGD Q ++ Sbjct: 63 DHEFSTISGVVEDVTEIILNLKQVRFKRQIDDIDNESVSISVSGKEQLTAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + ME+T+ KG GYVPA+ ++ N P+G I D++Y+P+K V Y Sbjct: 123 QVLNPDLVICNMDASVNINMEITIEKGRGYVPAEENKKSNAPLGTIFTDSIYTPVKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI ++++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIITDGSIHPKEALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVNVKGLSFGMDLSKY 325 >gi|320526894|ref|ZP_08028084.1| DNA-directed RNA polymerase, alpha subunit [Solobacterium moorei F0204] gi|320132862|gb|EFW25402.1| DNA-directed RNA polymerase, alpha subunit [Solobacterium moorei F0204] Length = 319 Score = 318 bits (816), Expect = 5e-85, Method: Composition-based stats. Identities = 114/300 (38%), Positives = 178/300 (59%), Gaps = 5/300 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN + PL RGF T+GNALRRVL+SSL GAA+ ++++DGV HE +SI GV ED+ Sbjct: 16 ESENYGKFVLSPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDGVYHEFTSIPGVREDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 + IIL +K + +K+ D + I +GP +TAGDI +EV+N D I +L+ D Sbjct: 76 SMIILQLKQLVMKIEDDEVYTLQISAKGPCTITAGDIICPAQVEVINKDLEIAHLEKDVT 135 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGL----ITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL G GY+ A ++ N + D++Y+P++KV+Y VE R G+ + Y Sbjct: 136 LEMELKAKNGRGYISADLNKQLNQGSSQGIGTVFTDSIYTPVEKVAYNVEPTRVGEDVKY 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-INVKSLPFNPALL 257 D +++ + TDGSI + ++A+A++IL D L + + ++ E + + Sbjct: 196 DAVTLEVWTDGSINPQKAIAMAAKILMDHLDIVAGINDEVLQMDEVLKEGNTEQPSKGQQ 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+LSVRS NCL+ I + +L Q+TE +M+R+ N G+KSL E+K L +GL Sbjct: 256 MMIEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMRVRNLGKKSLKEVKDKLIELGLGF 315 >gi|297588218|ref|ZP_06946862.1| DNA-directed RNA polymerase subunit alpha [Finegoldia magna ATCC 53516] gi|297574907|gb|EFH93627.1| DNA-directed RNA polymerase subunit alpha [Finegoldia magna ATCC 53516] Length = 317 Score = 318 bits (816), Expect = 5e-85, Method: Composition-based stats. Identities = 131/311 (42%), Positives = 198/311 (63%), Gaps = 1/311 (0%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I+ + L ++ N + PL RG+ TLGN+LRRVL+SSL GAAI+ + I GV HE+ Sbjct: 7 TKIKIVELDEQN-NYGKFVIMPLERGYGTTLGNSLRRVLLSSLPGAAISKINIQGVAHEM 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+IKGV ED+ +IILN+KGI +K + + + +GP V+TA DI D+EV NPDH Sbjct: 66 STIKGVKEDVPEIILNLKGIAVKKYNEEPISLNVDIKGPCVLTAKDILVDTDLEVKNPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L+ DA + M++TV G GY ++ ++T+ D IG I ID+L+SP+KKV++TV++AR Sbjct: 126 YIATLNEDASLEMQITVINGKGYKISEFNKTDEDIIGDIAIDSLFSPVKKVNFTVDNARV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQV+DYDKL++ + T+G+I +D+++ S IL + L +F + D Sbjct: 186 GQVIDYDKLTIEVWTNGTIRPQDALSEGSNILINCLELFSELPNYECNTNSDDEDNQKDK 245 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EEL+ S+RS NCL+ NI +GD++ T+ADM+++ NFG+KSL E++ L Sbjct: 246 ETQMGINIEELDFSLRSFNCLKRANINTVGDIVSHTKADMMKIKNFGKKSLDEVEEKLQE 305 Query: 313 MGLFLGMNLPD 323 MGL + D Sbjct: 306 MGLAFKEEIKD 316 >gi|124003688|ref|ZP_01688536.1| DNA-directed RNA polymerase, alpha subunit [Microscilla marina ATCC 23134] gi|123990743|gb|EAY30210.1| DNA-directed RNA polymerase, alpha subunit [Microscilla marina ATCC 23134] Length = 329 Score = 318 bits (816), Expect = 5e-85, Method: Composition-based stats. Identities = 124/324 (38%), Positives = 193/324 (59%), Gaps = 6/324 (1%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 L+ E +V+ + + + +PL GF T+GNA+RRVL+SSL G AIT ++I Sbjct: 1 MSLLTFQIPEKVVMDKTTDFHGMFEFKPLEPGFGVTVGNAIRRVLLSSLEGYAITCIRIP 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVND 124 GV HE SSIKGV +D+ +IILN+K + K ++ ++ + +TAGDI + + Sbjct: 61 GVQHEFSSIKGVMQDVAEIILNLKKVRFKKISENVDSKIVVEVSNQETLTAGDIGKFTSS 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 E+LNPD VICNLD + +EL + KG GYV ++ + + IG I ID++++PIK V Sbjct: 121 FEILNPDLVICNLDESVDLEVELYIEKGRGYVSSEDQKLPDAAIGHIPIDSIFTPIKNVR 180 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKE 240 Y VE+ R Q DY+KL + I TDGSI E+++ A+ IL +F + E KKE Sbjct: 181 YAVENTRVEQRTDYEKLLLDIQTDGSIHPEEALKGAANILIQHFMLFSDQNIILETAKKE 240 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++++ L L + +L+LSVR+ NCL+ +I +GDL++ ADM++ NFG+ Sbjct: 241 EVQEVDEHFLHMRKLLKTPISDLDLSVRAYNCLKSADIRTLGDLVKLDIADMMKFRNFGK 300 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL E++ ++ GL GM++ + Sbjct: 301 KSLTELEQLVAEKGLSFGMDVSKY 324 >gi|16329917|ref|NP_440645.1| DNA-directed RNA polymerase subunit alpha [Synechocystis sp. PCC 6803] gi|2500603|sp|P73297|RPOA_SYNY3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|1652403|dbj|BAA17325.1| RNA polymerase alpha subunit [Synechocystis sp. PCC 6803] Length = 314 Score = 318 bits (816), Expect = 6e-85, Method: Composition-based stats. Identities = 107/311 (34%), Positives = 170/311 (54%), Gaps = 11/311 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + EPL RG T+GNALRRVL+S+L GAA+TA++I GV HE Sbjct: 5 QIECVESSTRKNQQQYSKFSLEPLDRGQGTTVGNALRRVLLSNLPGAAVTAIRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +I+LN+K + LK D + + GPG VTA + +++EV++P+ Sbjct: 65 FATILGVREDVLEIMLNMKELVLKSYTDQPQIGRLTAIGPGTVTAAQFEVPSEVEVIDPN 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME V +G GY + + EN + + ID+++ P+ KV+YTVE R Sbjct: 125 QYIATLAEGAKLEMEFRVERGVGYRVIERGKDENSSLDFLQIDSVFMPVTKVNYTVEDIR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + I T+GSI ++++ AS I+ + + E ++ + Sbjct: 185 ADGMSPKDRLILDIWTNGSIQPREALSEASDIIANLFIPLKDLNE----LEAAHSDYQDE 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL++ ++ D+L + NFG KS E+ L Sbjct: 241 VNPESQIPIEELQLSVRAYNCLKRAQINSVADLLEYSQEDLLEIKNFGLKSAEEVIEAL- 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 --QKRLGITLP 308 >gi|218245116|ref|YP_002370487.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. PCC 8801] gi|257058141|ref|YP_003136029.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. PCC 8802] gi|218165594|gb|ACK64331.1| DNA-directed RNA polymerase, alpha subunit [Cyanothece sp. PCC 8801] gi|256588307|gb|ACU99193.1| DNA-directed RNA polymerase, alpha subunit [Cyanothece sp. PCC 8802] Length = 316 Score = 318 bits (816), Expect = 6e-85, Method: Composition-based stats. Identities = 98/311 (31%), Positives = 167/311 (53%), Gaps = 11/311 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + + + EPL RG T+GNALRRVL+++L+GAA+TA++I GV HE Sbjct: 7 QIECIESKTQKNQSQYSKFVLEPLARGQGTTVGNALRRVLLANLQGAAVTAIRIAGVNHE 66 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +I+LN+K I LK D + + G VTA + + +++EV++P Sbjct: 67 FATIPGVREDVLEIMLNMKEIVLKSYSDQAQIGRLVATSAGTVTAANFELPSEVEVVDPT 126 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + + ME + G GY + + + + + IDA++ P+ KV+Y VE R Sbjct: 127 QYVATLTEGSKLEMEFRIETGTGYKGVERGKDDGTSLDFLEIDAVFMPVTKVNYIVEDIR 186 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D+L + I T+GS +++++ A+ I+ D + +++ Sbjct: 187 GEHGEAQDRLILEIWTNGSFNPKEALSEAAEIVVDLFSPLKDLN----QLETTTPDYQDD 242 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 243 ENPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 301 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 302 --QKRLGITLP 310 >gi|257064662|ref|YP_003144334.1| DNA-directed RNA polymerase subunit alpha [Slackia heliotrinireducens DSM 20476] gi|256792315|gb|ACV22985.1| DNA-directed RNA polymerase subunit alpha [Slackia heliotrinireducens DSM 20476] Length = 316 Score = 318 bits (815), Expect = 7e-85, Method: Composition-based stats. Identities = 116/316 (36%), Positives = 184/316 (58%), Gaps = 10/316 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E ++P + + + + EPL RGF +TLGN +RRVL+SSL GA TA+QI+G Sbjct: 3 EFMRPT----VTTEEVSDTDARFVVEPLERGFGYTLGNCMRRVLLSSLDGARATAIQIEG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 V HE ++ +GV ED+TDI+LN+KG+ + TI GP VT DIQ + Sbjct: 59 VQHEFTTAEGVIEDVTDIVLNVKGLVFAALTEDYTEATATISVEGPCTVTGADIQVPTEF 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NP+HVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ + Sbjct: 119 TLINPEHVIATVADGGTLNMSIRIGVGRGYVSAERNKRTEDPIGIIPVDSLFSPVRRCTL 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEV 241 V R GQ D+D+L + ++TDGSI ++V A+ I+ +G F+ +E + ++ Sbjct: 179 AVNDTRVGQRTDFDQLLLEVETDGSIAPNEAVCRAANIINQYMGAFLTLADITDEDEGDI 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG K Sbjct: 239 PSIFATEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGAK 298 Query: 302 SLVEIKGVLGTMGLFL 317 S+ E+K L +M L L Sbjct: 299 SIEEVKDKLISMDLNL 314 >gi|119511155|ref|ZP_01630272.1| DNA-directed RNA polymerase alpha subunit [Nodularia spumigena CCY9414] gi|119464143|gb|EAW45063.1| DNA-directed RNA polymerase alpha subunit [Nodularia spumigena CCY9414] Length = 315 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 98/311 (31%), Positives = 168/311 (54%), Gaps = 10/311 (3%) Query: 14 NIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + + + + + EPL RG T+GNALRRVL+S+L G A+TAV+I GV HE Sbjct: 5 QIECVESNTEESRSHYSKFVLEPLERGQGTTVGNALRRVLLSNLEGTAVTAVRIAGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +++ GV ED+ +I++ +K + L+ + + GP VT +++EV++ Sbjct: 65 FATVPGVREDVLEILMKMKEVILRSYSSQPQIGRLLVNGPATVTVAHFDLPSEVEVIDQT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + L + ME + KG GY + R E + + ID+++ P++KV+Y+VE AR Sbjct: 125 QYVATLAEGGKLEMEFRIEKGKGYRTVERGREEATSLDFLQIDSVFMPVRKVNYSVEEAR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D+L + + T+GSI+ +++++ A+ IL + + E ++ P Sbjct: 185 GESSIPKDRLLLEVWTNGSISPQEALSSAAGILVELFNPLKDISLEPTETGAEV-----P 239 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P +EEL+LSVR+ NCL+ + + DL+ T+ D+L + NFG+KS E+ L Sbjct: 240 DDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDFTQEDLLEIKNFGQKSAEEVVEALQ 299 Query: 312 TMGLFLGMNLP 322 LG+ LP Sbjct: 300 RR---LGITLP 307 >gi|323342814|ref|ZP_08083046.1| DNA-directed RNA polymerase subunit alpha [Erysipelothrix rhusiopathiae ATCC 19414] gi|322463926|gb|EFY09120.1| DNA-directed RNA polymerase subunit alpha [Erysipelothrix rhusiopathiae ATCC 19414] Length = 319 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 121/301 (40%), Positives = 182/301 (60%), Gaps = 5/301 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + + EPL RGF +T+GNALRRVL+SSL GAA+ +++I+GV HE +SI GV ED Sbjct: 15 DETAHYGKFVIEPLERGFGNTIGNALRRVLLSSLPGAAVYSIKIEGVYHEFTSIAGVGED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T I+LN+K + L + + + I ++GP VVTA DI+ ++E+LN DH+I L A Sbjct: 75 VTGIVLNVKDLVLNVQDEEVYTLRISQKGPKVVTAADIECPANVEILNKDHIIATLAEGA 134 Query: 142 VVRMELTVSKGHGYVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 V+ MEL G GYV + ++ + IG I D++Y+PI++V Y +E R GQ Sbjct: 135 VLEMELKARNGRGYVSSDENKLIYQNASQGIGTIFTDSIYTPIERVKYHIEPTRVGQDSK 194 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFNPAL 256 YD+L M + T+GSI + +++L S+IL D L + ++ E + I NP Sbjct: 195 YDRLIMEVWTNGSIQPQVALSLGSKILMDHLEQIVAIKDSVYETESVIKPDVSGVENPMA 254 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +E+L+LSVRS NCL+ I + +L +TE +M+R+ N G+KSL E+K L +GL Sbjct: 255 TMMIEDLDLSVRSYNCLKRAGIQTVEELTLKTEDEMMRIRNLGKKSLKEVKDKLHDLGLG 314 Query: 317 L 317 Sbjct: 315 F 315 >gi|163786164|ref|ZP_02180612.1| DNA-directed RNA polymerase alpha subunit [Flavobacteriales bacterium ALC-1] gi|159878024|gb|EDP72080.1| DNA-directed RNA polymerase alpha subunit [Flavobacteriales bacterium ALC-1] Length = 330 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 130/323 (40%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T++ILN+K +N K D ++ VTI G +TAGD Q ++ Sbjct: 63 DHEFSTISGVVEDVTEMILNLKQVNFKRQIDEVDNETVTISISGQEQITAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLN D VICNLD + MELT+ KG GYVPA+ ++ + PIG I D++Y+PIK V Y Sbjct: 123 QVLNTDLVICNLDPKVNINMELTIEKGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI +D++ A++IL +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIQTDGSINPKDALTEAAKILIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVNVKGLNFGMDLSKY 325 >gi|194334834|ref|YP_002016694.1| DNA-directed RNA polymerase subunit alpha [Prosthecochloris aestuarii DSM 271] gi|238693316|sp|B4S5A1|RPOA_PROA2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|194312652|gb|ACF47047.1| DNA-directed RNA polymerase, alpha subunit [Prosthecochloris aestuarii DSM 271] Length = 328 Score = 318 bits (815), Expect = 8e-85, Method: Composition-based stats. Identities = 126/321 (39%), Positives = 196/321 (61%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE E+ +A+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPERIEVDEA-THSESIGQFVAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I GV ED+ +I+LN+K + K + + ++ GP AGDI + EV Sbjct: 64 FHEFSTIDGVREDVPEIVLNLKKVRFKSTTKRSCKTSLSIEGPADFKAGDIVAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I L+ DA + +++ + +G GYVPA+ +R E PIG I ID++++PIK V ++V Sbjct: 124 LNKDMHIATLNGDAKLNIDIYIGRGRGYVPAEENRGEGMPIGFIAIDSIFTPIKNVKFSV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----E 243 E+ R GQ DY+K+ + ++TDGSI+ +DS++LA +++ + + +F NF ++E + Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSISPDDSISLAGKVINEHVSLFANFSPTEEEFAEEEYK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L ++E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QQDDEFENMRKLLQTRIEDLDLSVRSHNCLRLAEIDTLGDLVSRKEDELLTYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLDKCELKFGMDITKY 324 >gi|306821592|ref|ZP_07455190.1| DNA-directed RNA polymerase subunit alpha [Eubacterium yurii subsp. margaretiae ATCC 43715] gi|304550337|gb|EFM38330.1| DNA-directed RNA polymerase subunit alpha [Eubacterium yurii subsp. margaretiae ATCC 43715] Length = 313 Score = 318 bits (815), Expect = 9e-85, Method: Composition-based stats. Identities = 110/310 (35%), Positives = 193/310 (62%), Gaps = 4/310 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L ++ EPL RGFA T+GN+LRRVL+SSL G A+TA++ID Sbjct: 3 EIEKP-QVQVLALEED---YGKFALEPLERGFATTVGNSLRRVLLSSLPGVAVTAIKIDK 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++KGV ED+T+++L +K +++ M + + I +G +TAGDI +E+ Sbjct: 59 VMHEFSTVKGVKEDVTELMLTLKELSMNMDSNGEAILRIDAQGECEITAGDIICPAGVEM 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +N D I L DA ++ME+ ++KG GYV + ++ + PIG+I +D++Y+P+KKV++T+ Sbjct: 119 VNKDLHIATLSEDADLKMEIYINKGRGYVSSDTNKQKGLPIGVIPMDSIYTPVKKVNFTI 178 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E + Y++L + I T ++ +D++++A++I + L +FI+ + ++ + Sbjct: 179 EEVNVSEDEQYERLVLDIWTKKTVNPKDALSIAAKIFTEHLSLFIDLTDSVNAMEIMVEK 238 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L +EEL+LSVRS NCL+ +I + +L +TE +M+++ N G+KSL E+ Sbjct: 239 EQDEKEKVLEMTIEELDLSVRSYNCLKRASINTVQELTSKTEDEMMKVRNLGKKSLEEVI 298 Query: 308 GVLGTMGLFL 317 L +G L Sbjct: 299 HKLHELGFTL 308 >gi|170077662|ref|YP_001734300.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. PCC 7002] gi|169885331|gb|ACA99044.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. PCC 7002] Length = 313 Score = 318 bits (814), Expect = 1e-84, Method: Composition-based stats. Identities = 103/315 (32%), Positives = 166/315 (52%), Gaps = 12/315 (3%) Query: 13 NNIEYIVLGQEE----ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + + + + + EPL RG TLGN+LRR+L+S+L G A+TA++I GV Sbjct: 2 TQFQIECVESKTHKNQSQYSKFVFEPLERGQGTTLGNSLRRILLSNLEGTAVTALRIGGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE ++I GV ED +IILN+K I LK + + GPG VTA +++EV+ Sbjct: 62 NHEFATIPGVREDALEIILNMKEIILKSYTHQPQIGRLTATGPGQVTAAQFDLPSEVEVV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 +P I L A + ME + KG Y + +R E + + IDA++ P+ KV+Y+V+ Sbjct: 122 DPTQYIATLADGAKLEMEFRIEKGKSYRAVQRNRDEATALDFLQIDAVFMPVTKVNYSVD 181 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S D+L++ I T+GSI E++++ A+ I + ++ + Sbjct: 182 SIHSEGDAVRDRLTLEIWTNGSIKPEEALSQAAAIAVELFNPL-----KDLTLEAIQDEL 236 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +P +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ Sbjct: 237 QEDEDPTSQIPIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVID 296 Query: 309 VLGTMGLFLGMNLPD 323 L T LG+ LP+ Sbjct: 297 ALKTR---LGITLPE 308 >gi|194335472|ref|YP_002017266.1| DNA-directed RNA polymerase, alpha subunit [Pelodictyon phaeoclathratiforme BU-1] gi|238693374|sp|B4SBX4|RPOA_PELPB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|194307949|gb|ACF42649.1| DNA-directed RNA polymerase, alpha subunit [Pelodictyon phaeoclathratiforme BU-1] Length = 327 Score = 318 bits (814), Expect = 1e-84, Method: Composition-based stats. Identities = 124/321 (38%), Positives = 193/321 (60%), Gaps = 6/321 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE + IA+PL RG+ TLGN +RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPAKIEVDE-SSHTDCFGRFIAQPLERGYGVTLGNVMRRVLLASLPGTAITGIKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE ++I GV ED+ +I+LN+K + K + + + ++ GP TAGDI + EV Sbjct: 64 FHEFAAIDGVREDVPEIVLNLKKVRFKSTCKRNCKTSLTLVGPMDFTAGDIIAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D + ++ A V+++L + +G GY+PA+ +R E PIG I +DA+Y+PI+ V +TV Sbjct: 124 LNKDMHVATINAGATVKIDLYIGRGRGYMPAEENRPEGMPIGYIAVDAIYTPIRNVKFTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGS++ +DS++LA +I+ D + F NF E +E + Sbjct: 184 ENTRVGQRTDYEKMILDVETDGSVSPDDSISLAGKIITDHVTFFANFSPTEEEFTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + K+E+L+LSVRS NCLR I +G+L+ E ++L NFG+KSL Sbjct: 244 QQDDEFETMRRLFHTKIEDLDLSVRSHNCLRLAEIDTIGELVSHKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNLPDW 324 E+K L L GM++ + Sbjct: 304 TELKEQLEKFDLKFGMDITKY 324 >gi|315186306|gb|EFU20067.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta thermophila DSM 6578] Length = 363 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 124/344 (36%), Positives = 193/344 (56%), Gaps = 13/344 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + + P +I L + A P RG+ T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFVLPTSITVEHLDTNT-HYGKFAAYPFERGYGVTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 I+AV+I G H E I GV ED +++ N+K + +++ + K V + + Sbjct: 60 ISAVRITWYDDQGAAHVLSSEYEQIPGVVEDTLELLANLKLLRVQLPDEMEQKTVMVEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VT D + +EV+N D + L DA ME+ V G GYVPA+ + + +G Sbjct: 120 GPKEVTGADFEVD-QLEVMNKDFRVMTLMEDAHFEMEMQVDLGRGYVPAEVQKNYIEVVG 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DALYSP+++V + VE+ R G DYDKL + + TDGSI+ ED++ A+++ ++ Sbjct: 179 TIPLDALYSPVQRVRFNVENTRVGHRSDYDKLILEVWTDGSISPEDALGEAAKLAKEHFT 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF+E ++ + L +EELELSVRS+NCL+ NI +GDL+ ++E Sbjct: 239 VFINFDEDAISHVRQLDHEEEQIRRLLETPIEELELSVRSSNCLKNANIRTIGDLVSKSE 298 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 ++ + NFG+KSL+EIK L L LGM P ++E + Sbjct: 299 EELSKTRNFGKKSLLEIKEKLKEWNLSLGMRDPSAYKAALERVR 342 >gi|255038116|ref|YP_003088737.1| DNA-directed RNA polymerase subunit alpha [Dyadobacter fermentans DSM 18053] gi|254950872|gb|ACT95572.1| DNA-directed RNA polymerase, alpha subunit [Dyadobacter fermentans DSM 18053] Length = 322 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 127/315 (40%), Positives = 195/315 (61%), Gaps = 6/315 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT+V+ GVLHE SSI Sbjct: 3 DKVVMEKADDFHGLFEFKPLEKGYGVTIGNALRRILLSSLEGYAITSVKFPGVLHEFSSI 62 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHV 133 +G+ ED+T+IILN+K + K D + R+ + + V+TAGDI + + EVLNPD V Sbjct: 63 EGIVEDVTEIILNLKMVRFKKVSDLSESRIVVNLKNVSVITAGDIGKFTSAFEVLNPDQV 122 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 IC++D MEL + KG GYVPA R P G I +D++Y+PIK V Y+VE+ R Sbjct: 123 ICHIDDQKEFEMELLLDKGRGYVPADEPRANELPFGYIAVDSIYTPIKNVKYSVENTRVE 182 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKS 249 Q DY++L + I TDGSI ED++ A+ IL +F + FE+ K E ++ + Sbjct: 183 QRTDYERLLIDIQTDGSIHPEDALKGAANILIQHFMLFSDQTMTFEKQKAEEDNQVDEEM 242 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L L + EL+LSVR+ NCL+ ++ +GDL++ +DM++ NFG+KSL E++ + Sbjct: 243 LRMRKLLKTSLSELDLSVRAYNCLKSADVKTLGDLVRLEISDMMKFRNFGKKSLTELEQL 302 Query: 310 LGTMGLFLGMNLPDW 324 + L GM++ + Sbjct: 303 VADKQLTFGMDVSKY 317 >gi|262383847|ref|ZP_06076983.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_33B] gi|301312005|ref|ZP_07217927.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 20_3] gi|262294745|gb|EEY82677.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_33B] gi|300830107|gb|EFK60755.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 20_3] Length = 330 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + PL G+ T+GNALRR+L+SSL G AIT+++IDGV Sbjct: 6 FQKPDKVLMLEADN---FFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K D +++V+I G V AGDI + + Sbjct: 63 DHEFGTIPGVIEDVTNIILNLKQVRFKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNPD VIC LD A ++ELT++KG GYVPA +R N + +I ID++++PI+ V Y Sbjct: 123 EILNPDLVICRLDPTASFQIELTINKGRGYVPADENRDPNADMHVIAIDSIFTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F I E E Sbjct: 183 SIENFRVEQKTDYEKLVLEIATDGSIHPKEALKEAAKILIHHFMLFSDEKIAIETADTEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +G+L++ + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKSKLADMDLSVRALNCLKAADVETLGELVKFNKNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKY 325 >gi|126662238|ref|ZP_01733237.1| DNA-directed RNA polymerase subunit alpha [Flavobacteria bacterium BAL38] gi|126625617|gb|EAZ96306.1| DNA-directed RNA polymerase subunit alpha [Flavobacteria bacterium BAL38] Length = 330 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 127/323 (39%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGYAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K + ++ V+I G +TAGD Q ++ Sbjct: 63 EHEFSTISGVVEDVTEIILNLKQVRFKRQIEDIDNESVSISLSGKDKITAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICNLD + MEL++ KG GYVPA+ ++ N PIG I D++Y+P+K V Y Sbjct: 123 QVLNPDLVICNLDSKTTLNMELSIEKGRGYVPAEENKKSNAPIGTIYTDSIYTPVKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 183 TIENFRVEQKTDYEKLVFEIITDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ ++ L GM+L + Sbjct: 303 SLTELDELVANKNLTFGMDLAKY 325 >gi|126643071|ref|YP_001086055.1| DNA-directed RNA polymerase subunit alpha [Acinetobacter baumannii ATCC 17978] Length = 310 Score = 317 bits (813), Expect = 1e-84, Method: Composition-based stats. Identities = 137/301 (45%), Positives = 212/301 (70%), Gaps = 5/301 (1%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 I EPL RGF HTLGNALRR+L+SSL GAA+ V+I+GV HE S+++G+ +D+ +++LN+K Sbjct: 2 ILEPLERGFGHTLGNALRRILLSSLPGAAVVEVEIEGVEHEYSTLEGLQQDIVELLLNLK 61 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+++K+ + +T+ K+GPG +TA D++ +++EV+NP+H+I L ++M L VS Sbjct: 62 GLSIKLFDQNEAYLTLEKQGPGDITAADLRLPHNVEVVNPEHLIGTLSATGSLKMRLKVS 121 Query: 151 KGHGYVPAKH--HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GY + E P+G + +DA YSPIK+VSYTVE+AR Q D DKL + ++T+ Sbjct: 122 QGRGYETSDSRFPEGETRPVGRLQLDASYSPIKRVSYTVENARVEQRTDLDKLVIDLETN 181 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ ILQ Q+ +F++ ++ + V ++ +P LL+ V++LEL+VR Sbjct: 182 GTVDPEEAIRKAATILQQQIAIFVDLQKDQTPVAQEP---REEVDPILLRPVDDLELTVR 238 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 S NCL+ ENI Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP S Sbjct: 239 SANCLKAENIYYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASKGLQLGMRLENWPPAS 298 Query: 329 I 329 + Sbjct: 299 L 299 >gi|284040594|ref|YP_003390524.1| DNA-directed RNA polymerase, subunit alpha [Spirosoma linguale DSM 74] gi|283819887|gb|ADB41725.1| DNA-directed RNA polymerase, alpha subunit [Spirosoma linguale DSM 74] Length = 329 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 124/322 (38%), Positives = 195/322 (60%), Gaps = 9/322 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ + V+ + ++ + +PL +G+ T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQMPDKV---VVEKADDFHGVFEFKPLEKGYGVTIGNALRRILLSSLEGYAITSVKFPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE SSI+GV ED+T+IILN+K + K D ++T+ + V+ AGDI + E Sbjct: 63 LHEFSSIEGVVEDVTEIILNLKMVRFKKINDMVDNKITVNIKKQSVLKAGDISKFSPSFE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 VLNP+ IC++D + ME+ V KG GYVP+ R P G I IDA+Y+PIK V Y+ Sbjct: 123 VLNPELEICHIDDTRDLEMEIFVEKGRGYVPSDEPRVNELPFGHIPIDAIYTPIKNVKYS 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVK 242 VE+ R Q DY++L + I+TDGSI E+++ A+ IL +F + FE K E + Sbjct: 183 VENTRVEQKTDYERLLLDIETDGSIHPEEALKGAAYILIQHFMLFSDQTMTFETAKPEEE 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ + L L + +L+LSVR+ NCL+ ++ +GDL++ +DM++ NFG+KS Sbjct: 243 NVVDEEVLHMRKLLKTSLADLDLSVRAYNCLKSADVRTLGDLVRLEISDMMKFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L E++ ++ L GM++ + Sbjct: 303 LTELEQLVAEKNLTFGMDVAKY 324 >gi|183221322|ref|YP_001839318.1| DNA-directed RNA polymerase subunit alpha [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189911413|ref|YP_001962968.1| DNA-directed RNA polymerase subunit alpha [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|238687771|sp|B0SA20|RPOA_LEPBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238687824|sp|B0SSF2|RPOA_LEPBP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|167776089|gb|ABZ94390.1| DNA-directed RNA polymerase, alpha subunit [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167779744|gb|ABZ98042.1| DNA-directed RNA polymerase alpha chain [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 325 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 139/324 (42%), Positives = 206/324 (63%), Gaps = 5/324 (1%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M KN + +P IE+ N +AEP RG T+GN+LRR LMSS+ GAA Sbjct: 1 MSPKNLLKGFKRPKKIEF-TTDVNTPNYGKFVAEPFERGIGTTIGNSLRRTLMSSIEGAA 59 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS---HKRVTIFKRGPGVVTA 116 I+A++I+GV HE S I+GV ED+T IILN+K + +K + K + + +G G A Sbjct: 60 ISAIRIEGVSHEFSYIEGVAEDVTRIILNLKQVRIKYEPEDKEASKVIHLELKGAGYFRA 119 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 D+ + IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I ID++ Sbjct: 120 ADLAVDSSIEIMNPDLHIATLNEDANLIMDLEIQRGRGYVPAEDKKKDIEVLGTIPIDSI 179 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SPI+KV + V R Q DY+KL+M + TDGS++ ED+VA A++IL+D L +FINFEE Sbjct: 180 FSPIQKVLFEVSETRVAQRSDYEKLTMEVWTDGSVSPEDAVAQAAKILKDHLTVFINFEE 239 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +E +E+++ AL K VEELELSVRSTN LR I ++G+L++R+E +M + Sbjct: 240 EIEEEEEELDEADEKLKAALSKHVEELELSVRSTNVLRSLEIDFIGELVKRSEDEMTKSK 299 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMN 320 +F +SL+E+K L +MGL GM Sbjct: 300 HFSEQSLLELKAKLSSMGLSFGMR 323 >gi|150008958|ref|YP_001303701.1| DNA-directed RNA polymerase subunit alpha [Parabacteroides distasonis ATCC 8503] gi|255014788|ref|ZP_05286914.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 2_1_7] gi|256841041|ref|ZP_05546548.1| DNA-directed RNA polymerase, alpha subunit [Parabacteroides sp. D13] gi|298375809|ref|ZP_06985765.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_19] gi|172048837|sp|A6LEG5|RPOA_PARD8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149937382|gb|ABR44079.1| DNA-directed RNA polymerase alpha chain [Parabacteroides distasonis ATCC 8503] gi|256736884|gb|EEU50211.1| DNA-directed RNA polymerase, alpha subunit [Parabacteroides sp. D13] gi|298266846|gb|EFI08503.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_19] Length = 330 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + PL G+ T+GNALRR+L+SSL G AIT+++IDGV Sbjct: 6 FQKPDKVLMLEADN---FFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K D +++V+I G V AGDI + + Sbjct: 63 DHEFGTIPGVIEDVTNIILNLKQVRFKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+LNPD VIC LD A ++ELT++KG GYVPA +R N I +I ID++++PI+ V Y Sbjct: 123 EILNPDLVICRLDPTASFQIELTINKGRGYVPADENRDPNADIHVIAIDSIFTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F I E E Sbjct: 183 SIENFRVEQKTDYEKLVLEIATDGSIHPKEALKEAAKILIHHFMLFSDEKIAIETADTEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +G+L++ + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKSKLADMDLSVRALNCLKAADVETLGELVKFNKNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKY 325 >gi|313206369|ref|YP_004045546.1| DNA-directed RNA polymerase subunit alpha [Riemerella anatipestifer DSM 15868] gi|312445685|gb|ADQ82040.1| DNA-directed RNA polymerase subunit alpha [Riemerella anatipestifer DSM 15868] gi|315023690|gb|EFT36694.1| DNA-directed RNA polymerase alpha subunit [Riemerella anatipestifer RA-YM] gi|325336185|gb|ADZ12459.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Riemerella anatipestifer RA-GD] Length = 331 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 203/323 (62%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 IKP+ + +L E + PL G+ T+G+ALRRVL+SSL G AIT+++I+GV Sbjct: 6 FIKPDKV---ILLNSTEFQGQFEFRPLEPGYGLTVGHALRRVLLSSLEGYAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + LK + ++VT +TAGD+ + ++ Sbjct: 63 EHEFSTIPGVIEDVTEIILNLKQLRLKAKSENAPSEQVTAKIANLEQLTAGDLGKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VICNL D + M +++KG GYVP++ +++ N PIG I ID++Y+PIKKV Y Sbjct: 123 EVLNPELVICNLTKDVNLEMNFSINKGRGYVPSEQNKSNNAPIGTIAIDSIYTPIKKVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE+ R Q DY+KL + I+TDGSI+ ++++ AS+IL +F I E + Sbjct: 183 SVENYRVEQKTDYEKLILDIETDGSISPQNALIEASKILIYHFMLFSDERITLETEAVKA 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++L L K+ E++LSVR+ NCL+ + +G+L+ +++D+++ NFG+K Sbjct: 243 SIQYDEETLHTRQLLKSKLAEMDLSVRALNCLKAAEVETLGELVSYSKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ + GL G ++ + Sbjct: 303 SLTELEELVHSKGLNFGFDVSKY 325 >gi|116327251|ref|YP_796971.1| DNA-directed RNA polymerase subunit alpha [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116327291|ref|YP_797011.1| DNA-directed RNA polymerase subunit alpha [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116332095|ref|YP_801813.1| DNA-directed RNA polymerase subunit alpha [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|122280175|sp|Q04PW5|RPOA_LEPBJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|122284902|sp|Q055B7|RPOA_LEPBL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116119995|gb|ABJ78038.1| DNA-directed RNA polymerase, alpha subunit [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116120035|gb|ABJ78078.1| DNA-directed RNA polymerase, alpha subunit [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116125784|gb|ABJ77055.1| DNA-directed RNA polymerase, alpha subunit [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 325 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 132/318 (41%), Positives = 203/318 (63%), Gaps = 4/318 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I Sbjct: 7 LKGFKRPKKIEFNT-EASTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRI 65 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTV 122 +GV HE S I+GV ED+T IILN+K + +K D K + + +G G AGD+ Sbjct: 66 EGVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVD 125 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++K Sbjct: 126 SSIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E Sbjct: 186 VVFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEED 245 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++++ +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + Sbjct: 246 DELDEADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQC 305 Query: 303 LVEIKGVLGTMGLFLGMN 320 L E+KG L T+GL GM Sbjct: 306 LQELKGKLSTLGLSFGMR 323 >gi|220906743|ref|YP_002482054.1| DNA-directed RNA polymerase subunit alpha [Cyanothece sp. PCC 7425] gi|219863354|gb|ACL43693.1| DNA-directed RNA polymerase, alpha subunit [Cyanothece sp. PCC 7425] Length = 314 Score = 317 bits (812), Expect = 2e-84, Method: Composition-based stats. Identities = 107/304 (35%), Positives = 169/304 (55%), Gaps = 8/304 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + EPL RG T+GNALRRVL+S+L+G A+TAV+I GV HE ++I GV Sbjct: 11 RVEADYSQYSQFVLEPLERGQGTTVGNALRRVLLSNLKGTAVTAVRIAGVNHEFATIPGV 70 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED DI+L +K + L+ + +F +GP VTA + + D+EV+N DH I L Sbjct: 71 REDALDILLRMKELVLRSYSPDPQIGRLFIQGPATVTAINFEVSPDVEVINLDHYIATLS 130 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA + ME + +G GY + + E+ + + IDA++ P++KV+YTVE AR G +++ Sbjct: 131 ADATLEMEFKIEQGKGYRAIERGKDESASLDFLQIDAIFMPVRKVNYTVEDARSGGLVEK 190 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + I T+GS+T ++++ + IL D + S + Sbjct: 191 DRLVLEIWTNGSLTPQEALNQGASILVDLFNPL-----KDVPFRSSEPSHSTEEDETNQI 245 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E L LSVR+ NCL+ I + DL++ ++ D+L + NFG KS E+ L LG Sbjct: 246 PIESLNLSVRAYNCLKRAQINTVADLLEYSQEDLLEIKNFGAKSAEEVIEALH---KNLG 302 Query: 319 MNLP 322 + LP Sbjct: 303 ITLP 306 >gi|225850763|ref|YP_002730997.1| DNA-directed RNA polymerase subunit alpha [Persephonella marina EX-H1] gi|225646203|gb|ACO04389.1| DNA-directed RNA polymerase, alpha subunit [Persephonella marina EX-H1] Length = 324 Score = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 129/315 (40%), Positives = 184/315 (58%), Gaps = 6/315 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E I P+ I + + E+ + EPL RG+ TLGNALRRVL+SSL G A+TAV+I G Sbjct: 5 EFITPSKIYWDE-SSKTESFGRLYVEPLERGYGITLGNALRRVLLSSLEGGAVTAVKIHG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIE 126 V HE ++I+GV ED+++IILN+K I KM + +G G VTA DI+ I+ Sbjct: 64 VAHEFTTIEGVIEDVSEIILNLKQIKFKMDEGIDSDFAILEFKGTGEVTAKDIKVPAGIK 123 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++NPD I +D + +RMEL + KG GYV + IG I ID +SPIKK ++ Sbjct: 124 IVNPDVHIATVDKEIELRMELKIEKGRGYVMVEEMEPP-TEIGWIPIDTAFSPIKKCTFY 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R G+ +YDKL + + TDGSIT E+++ A+ IL + + +N K EV + Sbjct: 183 VEPTRVGEKTNYDKLILEVTTDGSITPEEALTKATNILIEHFQLLLNPTVRKVEVIKKAE 242 Query: 247 VKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +S+ K +EELE+S R+TN L+ I +GDL++ TE D+ + GRK+L Sbjct: 243 PESIAEKIEADKLSLAIEELEISSRATNTLKKLGIQTIGDLVKMTEEDLKEAKSIGRKAL 302 Query: 304 VEIKGVLGTMGLFLG 318 EIK L +GL L Sbjct: 303 KEIKEALAELGLELA 317 >gi|159901451|ref|YP_001547698.1| DNA-directed RNA polymerase subunit alpha [Herpetosiphon aurantiacus ATCC 23779] gi|238687089|sp|A9B437|RPOA_HERA2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|159894490|gb|ABX07570.1| DNA-directed RNA polymerase, alpha subunit [Herpetosiphon aurantiacus ATCC 23779] Length = 331 Score = 316 bits (811), Expect = 2e-84, Method: Composition-based stats. Identities = 116/293 (39%), Positives = 182/293 (62%), Gaps = 4/293 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 EN EPL G+ HTLGNALRRVL+SS+ GAA+ ++IDG+ HE S I+GV ED T+ Sbjct: 16 ENYGRFKIEPLDPGYGHTLGNALRRVLLSSIPGAAVIKIKIDGIFHEFSPIQGVREDATE 75 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVV 143 I+LN+KGI L+ + ++ + K GPGVV A DI+ +++E++NPDH I LD DA + Sbjct: 76 IVLNVKGIRLRSYAERPVKMILSKTGPGVVRASDIECPSNVEIVNPDHYIATLDSSDARL 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MELTV + GY+PA++ PIG I +DA+++P+ KV+Y VE R G + D+D+L + Sbjct: 136 DMELTVERHRGYLPAENRDP--VPIGEIPVDAIFTPVHKVNYVVEHTRIGGMTDFDRLLL 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL-PFNPALLKKVEE 262 I TDG++ D+++ A+++L + +F E ++ + L + +E+ Sbjct: 194 EIWTDGTVKPGDALSYAAQVLVQYSSIIADFNRFDDEQEQVGDANGLVIPSEIYDMPIED 253 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 L+LS R+ NCL+ +I +G +++ E +L + N G+KS+ EI+ L L Sbjct: 254 LDLSTRTYNCLKRADITKVGQVLEMDEKQLLAVRNLGQKSMDEIREKLIERNL 306 >gi|208659512|gb|ACI31186.1| RpoA [Vibrio breoganii] gi|208659514|gb|ACI31187.1| RpoA [Vibrio breoganii] gi|208659516|gb|ACI31188.1| RpoA [Vibrio breoganii] Length = 302 Score = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 134/308 (43%), Positives = 200/308 (64%), Gaps = 11/308 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + KE Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKE 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLG 311 EIK VL Sbjct: 295 TEIKDVLA 302 >gi|163783137|ref|ZP_02178131.1| DNA-directed RNA polymerase alpha subunit [Hydrogenivirga sp. 128-5-R1-1] gi|159881471|gb|EDP74981.1| DNA-directed RNA polymerase alpha subunit [Hydrogenivirga sp. 128-5-R1-1] Length = 316 Score = 316 bits (810), Expect = 3e-84, Method: Composition-based stats. Identities = 128/318 (40%), Positives = 184/318 (57%), Gaps = 7/318 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E + PN I + Q+E+N+ + + EPL RGF TLGNALRRVL+SS+ G A+TAV+I Sbjct: 2 LNEFVFPNKIYW---EQKEDNKGVFVVEPLERGFGTTLGNALRRVLLSSISGTAVTAVKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 GV HE SS++GV ED+ +II NIKG+ + + + + K+G G V AGDI ++ Sbjct: 59 YGVYHEFSSLEGVAEDVVEIIANIKGVRFTLKDSDVEVLYLKKKGEGEVKAGDISLPPNV 118 Query: 126 EVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EV NPD VI + E+ + +G GYV A+ T G I +DA +SP+K VS Sbjct: 119 EVANPDKVIATITDPEVEFNAEIRIERGKGYVLAEEMET-IGETGWILLDADFSPVKLVS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y +E R G+ DY+KL++ + TDG+ + E V A ILQ L + + ++E Sbjct: 178 YRIEQTRVGEKTDYEKLTVEVLTDGTKSPEAVVKEAVDILQRHLSLLEHISYEVPTLEEP 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 I + L +EEL++S R+ N L+ I +GDL+Q TE ++ N GRK+L Sbjct: 238 I--PVDELSEKLTLSIEELDISQRALNSLKRMGITTIGDLVQMTEEELKSTKNIGRKALA 295 Query: 305 EIKGVLGTMGLFLGMNLP 322 EIK L MGL LG+N+ Sbjct: 296 EIKEALKQMGLQLGINIE 313 >gi|295111400|emb|CBL28150.1| DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type [Synergistetes bacterium SGP1] Length = 333 Score = 316 bits (809), Expect = 3e-84, Method: Composition-based stats. Identities = 117/332 (35%), Positives = 189/332 (56%), Gaps = 15/332 (4%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+++P + L + + EPL RG+ TLGNALRRVL+SS+RGAAIT+V+IDG Sbjct: 6 EILRP----VLKLEENTPTYGRLYLEPLERGYGMTLGNALRRVLLSSIRGAAITSVRIDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ GV ED+ +I++N+K I ++ + V++ G+VTAGDI +IE Sbjct: 62 VLHEFSTVPGVREDVMEILMNLKHIPVRSKSKEVRVVSLDVERAGLVTAGDIPENGEIEF 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++P+ IC ++ A + MEL + +G GY+ A+ R P+ + DA++SP+ +V+Y V Sbjct: 122 IDPNAKICTMEEGAHLSMELYIEQGTGYLSAERPRPAYLPVDALLTDAIFSPVLRVNYGV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK--------- 238 E+AR GQ D+++L+M + T+G I + +V A++I++ + Sbjct: 182 EAARVGQRTDFERLAMDVWTNGIIAPDAAVGEAAQIIEKCFSYIVASVGQAGPDGVGGGA 241 Query: 239 --KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 ++ D + L + V ELELS+RS NCL + +GDL+Q++ D+L++ Sbjct: 242 YDIDLGADRRIGPAGNEELLARPVRELELSIRSENCLLRGGVQTIGDLLQKSREDLLKIR 301 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 N G+ SL EI+ L + GL L E Sbjct: 302 NLGKISLTEIEEKLESAGLKLREKKEKAGKED 333 >gi|158334432|ref|YP_001515604.1| DNA-directed RNA polymerase subunit alpha [Acaryochloris marina MBIC11017] gi|158304673|gb|ABW26290.1| DNA-directed RNA polymerase, alpha subunit [Acaryochloris marina MBIC11017] Length = 313 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 105/304 (34%), Positives = 171/304 (56%), Gaps = 8/304 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + ++ + I EPL RG T+GNALRRVL+++LRG A+TAV+I GV HE ++I GV Sbjct: 12 TVEEDFSQYSRFILEPLDRGQGTTVGNALRRVLLANLRGTAVTAVRIAGVNHEFATIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN+K + L+ + + +F +GP VT D + ++E++NP + L Sbjct: 72 REDVLDILLNMKQVVLRSHTNDPQIGRLFVQGPATVTTDDFELPTEVEIVNPTQYVATLS 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA + ME + +G GY +R E + + IDA+Y P+++V+Y VE AR G L+ Sbjct: 132 SDATLEMEFRIEQGKGYHAVGKNRDEAAALDFLEIDAIYMPVRRVNYEVEDARVGGALEK 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L + I T+G++T ++S++ A+ IL D +++ + Sbjct: 192 DRLILDIWTNGNLTPQESLSQAATILVDLFNPL-----KDATFNVVEDIELEEEDETNQI 246 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +E L LSVR+ NCL+ I + DL++ ++ D+L + NFG KS E+ L LG Sbjct: 247 PIEGLNLSVRAYNCLKRAQINSVADLLEYSQEDLLEIKNFGAKSADEVIAALQD---HLG 303 Query: 319 MNLP 322 + +P Sbjct: 304 ITMP 307 >gi|24213465|ref|NP_710946.1| RNA polymerase subunit alpha [Leptospira interrogans serovar Lai str. 56601] gi|45658676|ref|YP_002762.1| DNA-directed RNA polymerase subunit alpha [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|26454665|sp|Q9XD09|RPOA_LEPIN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|59798772|sp|Q72NI8|RPOA_LEPIC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|24194237|gb|AAN47964.1| RNA polymerase alpha subunit [Leptospira interrogans serovar Lai str. 56601] gi|45601920|gb|AAS71399.1| DNA-directed RNA polymerase alpha chain [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 325 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 131/318 (41%), Positives = 202/318 (63%), Gaps = 4/318 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I Sbjct: 7 LKGFKRPKKIEFNT-EANTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRI 65 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTV 122 +GV HE S I+GV ED+T IILN+K + +K D K + + +G G AGD+ Sbjct: 66 EGVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVD 125 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++K Sbjct: 126 SSIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E Sbjct: 186 VVFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEED 245 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++++ +L K VEELELSVRS N LR I ++GDL++R+E +M + ++ + Sbjct: 246 DELDEADEKLKASLSKHVEELELSVRSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQC 305 Query: 303 LVEIKGVLGTMGLFLGMN 320 L E+K L T+GL GM Sbjct: 306 LQELKVKLSTLGLSFGMR 323 >gi|327402757|ref|YP_004343595.1| DNA-directed RNA polymerase subunit alpha [Fluviicola taffensis DSM 16823] gi|327318265|gb|AEA42757.1| DNA-directed RNA polymerase subunit alpha [Fluviicola taffensis DSM 16823] Length = 330 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 121/324 (37%), Positives = 201/324 (62%), Gaps = 10/324 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP+ + ++ Q +E + PL G+ T+GNALRR+L+SSL G AI++V+I+G Sbjct: 5 DFQKPDKV---IMIQSDERKGQFEFRPLEPGYGITVGNALRRILLSSLEGYAISSVRIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVND 124 V HE +++KGV ED+T+I+LN+K + K + + V + G +TAGD+ + + Sbjct: 62 VDHEFATLKGVVEDVTEIVLNLKQVRFKQQIEGTDNETVVVSISGQDKLTAGDLGKFTSG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +VLNPD VICN++ + +ELT+ KG GY+PA+ +++ N P G I ID++++PI V Sbjct: 122 FQVLNPDLVICNMESSVKLELELTIIKGRGYLPAEENKSGNAPFGTIAIDSIFTPIVNVK 181 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 YT+E+ R Q DY+KL + + TDGSI +D++ A++IL +F I + K Sbjct: 182 YTIENYRVEQKTDYEKLVLELTTDGSIHPKDALKEAAKILIHHFMLFSDERITLDSEVKS 241 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 E+ + SL L K+ +++LSVR+ NCL+ ++ +GDL+ + D+L+ NFG+ Sbjct: 242 ETEEFDETSLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVSYNKNDLLKFRNFGK 301 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL E++ ++ + GL GMN+ + Sbjct: 302 KSLTELEDLVDSKGLNFGMNVAKY 325 >gi|5163231|gb|AAD40610.1|AF115283_29 RNA polymerase alpha-subunit [Leptospira interrogans] Length = 325 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 130/318 (40%), Positives = 201/318 (63%), Gaps = 4/318 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + +P IE+ N +AEP RGFA T+GN+LRR LMSS+ GAAI+A++I Sbjct: 7 LKGFKRPKKIEFNT-EANTPNYGKFVAEPFERGFATTIGNSLRRTLMSSIEGAAISAIRI 65 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTV 122 +GV HE S I+GV ED+T IILN+K + +K D K + + +G G AGD+ Sbjct: 66 EGVNHEFSFIEGVAEDVTRIILNLKQVRIKYEPEEKDQSKIIHLELKGAGYFRAGDLAVD 125 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NPD I L+ DA + M+L + +G GYVPA+ + + + +G I +D+++SP++K Sbjct: 126 SSIEIMNPDLHIATLNEDANLVMDLEIQRGRGYVPAEEKKKDIEVLGTIPVDSIFSPVQK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V + V R Q DY+KL++ + TDGS++ +D+VA A++IL++ L +FINFEE +E Sbjct: 186 VVFEVSETRVAQRSDYEKLTLEVWTDGSVSPDDAVAQAAKILKEHLTVFINFEEELEEED 245 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++++ +L K VEELELS RS N LR I ++GDL++R+E +M + ++ + Sbjct: 246 DELDEADEKLKASLSKHVEELELSARSLNVLRSLEIDFIGDLVKRSEEEMSKSKHYSDQC 305 Query: 303 LVEIKGVLGTMGLFLGMN 320 L E+K L T+GL GM Sbjct: 306 LQELKVKLSTLGLSFGMR 323 >gi|257792534|ref|YP_003183140.1| DNA-directed RNA polymerase, alpha subunit [Eggerthella lenta DSM 2243] gi|317490400|ref|ZP_07948884.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA] gi|325833640|ref|ZP_08166089.1| DNA-directed RNA polymerase, alpha subunit [Eggerthella sp. HGA1] gi|257476431|gb|ACV56751.1| DNA-directed RNA polymerase, alpha subunit [Eggerthella lenta DSM 2243] gi|316910535|gb|EFV32160.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA] gi|325485564|gb|EGC88033.1| DNA-directed RNA polymerase, alpha subunit [Eggerthella sp. HGA1] Length = 316 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 118/317 (37%), Positives = 183/317 (57%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E ++P + + + I EPL RG+ +TLGN +RRVL+SSL GA TA+QI+ Sbjct: 2 TEFMRPT----VTTEEVNDTVARFIVEPLERGYGYTLGNCMRRVLLSSLDGAKATAIQIE 57 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVND 124 GV HE ++ +GV ED+TDI+LN+KG+ D + T + GP VT D+ + Sbjct: 58 GVQHEFTTAEGVIEDITDIVLNVKGLVFSALNDDIEEATAHVSAEGPCTVTGADLDIPTE 117 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 ++NP+HVI + + M + + G GYV A+ ++ DPIG+I +D+L+SP+++ + Sbjct: 118 FTLVNPEHVIATVADGGQLDMTVRIGVGRGYVSAERNKRTEDPIGVIHVDSLFSPVRRCT 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ----LGMFINFEEPKKE 240 V R GQ DYDKL + ++TDGSIT ++V AS I+ L + +E + E Sbjct: 178 LNVTDTRVGQRTDYDKLVLEVETDGSITPTEAVCRASNIINQYMGAFLSLSDVVDEEEGE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + N L K++E+L+LSVRS NCL+ I + L++ +E D+L + NFG Sbjct: 238 IPSIFAPEGQESNAELDKQIEDLDLSVRSYNCLKRAGIHSVRQLVEFSENDLLNIRNFGA 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ E+K L +M L L Sbjct: 298 KSIEEVKDKLISMDLNL 314 >gi|150025381|ref|YP_001296207.1| DNA-directed RNA polymerase subunit alpha [Flavobacterium psychrophilum JIP02/86] gi|172048610|sp|A6GZ73|RPOA_FLAPJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149771922|emb|CAL43396.1| DNA-directed RNA polymerase alpha subunit RpoA [Flavobacterium psychrophilum JIP02/86] Length = 330 Score = 316 bits (809), Expect = 4e-84, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+++I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGYAITSIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE S+I GV ED+T+IIL++K + K + ++ VTI G +TAGD Q ++ Sbjct: 63 DHEFSTIPGVVEDVTEIILSLKQVRFKRQIEDIDNESVTIAISGKNQITAGDFQKYISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNP+ VICNLD ME+T+ KG GYVPA+ ++ +N IG I D++++P+K V Y Sbjct: 123 QVLNPELVICNLDSKVNFNMEMTIEKGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E+ R Q DY+KL I TDGSI +D++ A+++L +F I E + Sbjct: 183 AIENFRVEQKTDYEKLVFEIKTDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ ++ L GM+L + Sbjct: 303 SLTELDELVAIKNLTFGMDLAKY 325 >gi|146298135|ref|YP_001192726.1| DNA-directed RNA polymerase subunit alpha [Flavobacterium johnsoniae UW101] gi|146152553|gb|ABQ03407.1| DNA-directed RNA polymerase, alpha subunit [Flavobacterium johnsoniae UW101] Length = 330 Score = 315 bits (808), Expect = 5e-84, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGYAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K + ++ VTI G +TAGD Q ++ Sbjct: 63 DHEFSTISGVVEDVTEIILNLKQVRFKRQIEDIDNESVTISVSGKDQLTAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICNLD + +LT+ KG GYVPA+ ++ +N IG I D++++P+K V Y Sbjct: 123 QVLNPDLVICNLDSKIKLNFDLTIEKGRGYVPAEENKKQNAAIGTIFTDSIFTPVKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E+ R Q DY+KL I TDGSI +D++ A+++L +F I E + Sbjct: 183 AIENFRVEQKTDYEKLVFEIKTDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TESYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ ++ L GM+L + Sbjct: 303 SLTELDELVAVKNLTFGMDLAKY 325 >gi|179184696|gb|ACB78157.1| RNA polymerase alpha subunit [Vibrio inusitatus] Length = 294 Score = 315 bits (808), Expect = 6e-84, Method: Composition-based stats. Identities = 132/297 (44%), Positives = 197/297 (66%), Gaps = 8/297 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I Sbjct: 1 THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEI 60 Query: 86 ILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVV 143 +LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L +A + Sbjct: 61 LLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDGNADI 120 Query: 144 RMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DK Sbjct: 121 AMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDK 180 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T+G++ E+++ A+ IL +QL F++ + + + + F+P LL+ V Sbjct: 181 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPIEEK---PEFDPILLRPV 237 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G L Sbjct: 238 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGXSL 294 >gi|113476555|ref|YP_722616.1| DNA-directed RNA polymerase subunit alpha [Trichodesmium erythraeum IMS101] gi|110167603|gb|ABG52143.1| DNA-directed RNA polymerase, alpha subunit [Trichodesmium erythraeum IMS101] Length = 321 Score = 315 bits (807), Expect = 6e-84, Method: Composition-based stats. Identities = 106/304 (34%), Positives = 164/304 (53%), Gaps = 9/304 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 ++ I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE ++IKGV Sbjct: 19 KTDKDRSQYGKFIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEFATIKGV 78 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+K + LK + + + GP VTA +++EV++ I L Sbjct: 79 REDVLEILLNMKEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQYIATLS 138 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +++ ME + KG GY R + + + IDA++ P++KV+YT+E A G L+ Sbjct: 139 PGSILEMEFRIEKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHIGSSLEQ 198 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L M I T+GS T +D+++ A+ IL + +P Sbjct: 199 DRLIMDIWTNGSYTPQDALSNAAGILMSLFEPLKDITNMADIPS------GETTDPTSQI 252 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L LG Sbjct: 253 PIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---QKRLG 309 Query: 319 MNLP 322 + LP Sbjct: 310 ITLP 313 >gi|325955023|ref|YP_004238683.1| DNA-directed RNA polymerase subunit alpha [Weeksella virosa DSM 16922] gi|323437641|gb|ADX68105.1| DNA-directed RNA polymerase subunit alpha [Weeksella virosa DSM 16922] Length = 330 Score = 315 bits (807), Expect = 6e-84, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 196/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 IKP+ + I++ + + PL G+ T+GNALRRVL+SSL G AIT+++I+GV Sbjct: 6 FIKPDKV--ILIESDTQF-GQFEFRPLEPGYGITVGNALRRVLLSSLEGYAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV ED+T+IILN+K + K D + VT G +TAGD+ + ++ Sbjct: 63 EHEFSTIPGVVEDVTEIILNLKKVRFKKQIDESDAENVTATISGQDQLTAGDLGKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNP+ VI NLD + + T+ KG GYVPA+ ++ + PIG I ID++Y+PIK V Y Sbjct: 123 QVLNPELVIANLDSKVNLTISFTIEKGRGYVPAEENKKASAPIGTIAIDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E+ R Q DY+KL I TDGSI+ +D++ A++IL +F I E + Sbjct: 183 AIENYRVEQKTDYEKLVFEITTDGSISPQDALTEAAKILIHHFMLFSDERITLEAEEVAS 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + ++L L K+ +L+LSVR+ NCL+ + +G+L+ ++D+++ NFG+K Sbjct: 243 GEAYDEEALHMRQLLKTKLVDLDLSVRALNCLKAAEVETLGELVSFAKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ + GL GM+ + Sbjct: 303 SLSELEELVDSKGLSFGMDTSKY 325 >gi|89891130|ref|ZP_01202638.1| DNA-directed RNA polymerase alpha chain [Flavobacteria bacterium BBFL7] gi|89516774|gb|EAS19433.1| DNA-directed RNA polymerase alpha chain [Flavobacteria bacterium BBFL7] Length = 330 Score = 315 bits (807), Expect = 7e-84, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 190/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE S+I+GV ED+T+IILN K I + D + V + G TAGD+Q ++ Sbjct: 63 DHEFSTIEGVVEDVTEIILNFKQIRFRRQIDEVDSEVVNVSFSGKDTFTAGDMQKYISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNP+ VICN + + +ELT+ KG GYVPA+ ++ N IG I ID++++PIK V Y Sbjct: 123 QVLNPEMVICNTESSVSLNLELTIEKGRGYVPAEENKNPNAAIGTIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEISTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ ++ELSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMELSVRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVNVKGLNFGMDLSKY 325 >gi|119366749|sp|Q110D1|RPOA_TRIEI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 314 Score = 315 bits (807), Expect = 8e-84, Method: Composition-based stats. Identities = 106/304 (34%), Positives = 164/304 (53%), Gaps = 9/304 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 ++ I EPL RG T+GNALRRVL+S+L G AIT+V+I GV HE ++IKGV Sbjct: 12 KTDKDRSQYGKFIIEPLARGQGTTVGNALRRVLLSNLEGTAITSVRIAGVNHEFATIKGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+K + LK + + + GP VTA +++EV++ I L Sbjct: 72 REDVLEILLNMKEVVLKSYSEQPQIGRLRVEGPATVTADRFDVPSEVEVIDRSQYIATLS 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +++ ME + KG GY R + + + IDA++ P++KV+YT+E A G L+ Sbjct: 132 PGSILEMEFRIEKGTGYKAVDRTRDDVATLDFLQIDAIFMPVRKVNYTIEDAHIGSSLEQ 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L M I T+GS T +D+++ A+ IL + +P Sbjct: 192 DRLIMDIWTNGSYTPQDALSNAAGILMSLFEPLKDITNMADIPS------GETTDPTSQI 245 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L LG Sbjct: 246 PIEELQLSVRAYNCLKRAQINSVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---QKRLG 302 Query: 319 MNLP 322 + LP Sbjct: 303 ITLP 306 >gi|305665111|ref|YP_003861398.1| DNA-directed RNA polymerase subunit alpha [Maribacter sp. HTCC2170] gi|88709863|gb|EAR02095.1| DNA-directed RNA polymerase alpha subunit [Maribacter sp. HTCC2170] Length = 330 Score = 314 bits (806), Expect = 9e-84, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 190/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+ID V Sbjct: 6 FQKPDKV---IMIDSSDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGHAITSVRIDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S I GV ED+T+IILN+K + K + + V+I G +TAGD Q ++ Sbjct: 63 EHEFSVIPGVVEDVTEIILNLKQVRFKKQIEDSEAEVVSISVSGKDQLTAGDFQKFISGY 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + ME+ + KG GYVPA+ ++ N +G I +D++++PIK V Y Sbjct: 123 QVLNPDLVICNMDSKVSINMEIVIDKGRGYVPAEENKKSNAALGTIAVDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI +D++ +++L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIVTDGSIHPKDALTEGAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVINKGLSFGMDLSKY 325 >gi|149371655|ref|ZP_01891071.1| DNA-directed RNA polymerase subunit alpha [unidentified eubacterium SCB49] gi|149355282|gb|EDM43842.1| DNA-directed RNA polymerase subunit alpha [unidentified eubacterium SCB49] Length = 330 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++++GV Sbjct: 6 FQKPDKV---IMINSTDFEGKFEFRPLEPGYGLTIGNALRRVLLSSLEGFAITSLRVEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K D ++ VTI G V AGD Q ++ Sbjct: 63 DHEFSTIAGVVEDVTEIILNLKQLRFKRQIDEIDNETVTISVSGNDKVVAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD +ICN+D + ME+T+ KG GYVPA+ ++ N P+G I D++++PIK V Y Sbjct: 123 QVLNPDLIICNMDSKVNLNMEITIEKGRGYVPAEENKKANAPLGTIFTDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEITSDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVLVKGLNFGMDLAKY 325 >gi|226227379|ref|YP_002761485.1| DNA-directed RNA polymerase alpha subunit [Gemmatimonas aurantiaca T-27] gi|226090570|dbj|BAH39015.1| DNA-directed RNA polymerase alpha subunit [Gemmatimonas aurantiaca T-27] Length = 357 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 122/329 (37%), Positives = 193/329 (58%), Gaps = 7/329 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M + L++P +E N +PL RGF HTLGNA+RR+L+SSLRG+A+ Sbjct: 1 MATIDLSGLVRPQLVEATKRED-SPNLAEFRLQPLERGFGHTLGNAMRRLLLSSLRGSAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGVVTAGDI 119 A +IDGV+HE +I GV ED+ II N+K + L + + + V I K GPG VTA DI Sbjct: 60 WAFRIDGVVHEHQTIGGVVEDVHQIIGNLKTLTLALPDEVEQTVLRISKSGPGTVTAADI 119 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYS 178 + +++P H I + + +EL V+KG GY+ + H +N + ++ IDA+YS Sbjct: 120 IATGGVRIIDPSHHIFTITGERDFNIELYVNKGRGYIESDQHPADKNLSVDVVRIDAIYS 179 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---- 234 P+++V++TV R GQ DYD+L++T++T+G+++ E++V+ A+ + Q F+ F Sbjct: 180 PVRRVNFTVAETRVGQRTDYDRLTLTVETNGTMSPEEAVSYAAALAQTHFQYFVGFGSSA 239 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + N ++ +++LELSVRS N L+ NI +GDL+++TEA +L+ Sbjct: 240 SAQPGTAGDGANSDAIRLAELFRTPIDDLELSVRSVNSLKNSNIRSLGDLVRQTEAQILQ 299 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + NFG+KSL EI +L GL GM + Sbjct: 300 VKNFGKKSLQEIAALLEKEGLNFGMRYEE 328 >gi|312130522|ref|YP_003997862.1| DNA-directed RNA polymerase subunit alpha [Leadbetterella byssophila DSM 17132] gi|311907068|gb|ADQ17509.1| DNA-directed RNA polymerase subunit alpha [Leadbetterella byssophila DSM 17132] Length = 329 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 123/322 (38%), Positives = 192/322 (59%), Gaps = 9/322 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ + V+ + ++ +PL RG+ T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQMPDKV---VMEKADDFHGFFEFKPLERGYGVTIGNALRRILLSSLEGYAITSVRFPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE S+I+GV +D+T+I+LN+K + K D ++T+ + +TAGDI + + E Sbjct: 63 LHEFSAIEGVVDDVTEIVLNLKQVRFKKIADYVDNKITVKVKNQTEITAGDIGKYTSSFE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD VI LD + E+ V KG GYVP++ +T + PIG I ID++Y+PIK V Y+ Sbjct: 123 ILNPDLVIARLDSKKELEFEIIVDKGRGYVPSEEQKTADLPIGFIAIDSIYTPIKNVKYS 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVK 242 +E+ R Q DY+KL + I TDGSI E ++ AS IL F + F+ E Sbjct: 183 IENTRVEQRTDYEKLLLEIKTDGSIHPEKALQEASHILIQHFLKFTDENMVFDSKSDEED 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ + L L +++L+LSVR+ NCL+ +I +GDL + ADM++ NFG+KS Sbjct: 243 NMVDEEFLHMRKLLKTPLQDLDLSVRAYNCLKSADIRTLGDLARLEVADMMKFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L E++ ++ L GM++ + Sbjct: 303 LTELEQLIADKQLHFGMDVSKY 324 >gi|22297649|ref|NP_680896.1| DNA-directed RNA polymerase subunit alpha [Thermosynechococcus elongatus BP-1] gi|34222870|sp|Q8DML0|RPOA_THEEB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|22293826|dbj|BAC07658.1| RNA polymerase alpha subunit [Thermosynechococcus elongatus BP-1] Length = 321 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 101/312 (32%), Positives = 168/312 (53%), Gaps = 16/312 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + +++ PL G T+GNALRRVL+S+L G+A+TAV+I GV HE S+I GV Sbjct: 11 RVEEDQGQYGQFALHPLAPGQGITVGNALRRVLLSNLPGSAVTAVRIAGVNHEFSTIPGV 70 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVNDIEVLNPDHVI 134 ED+ DI+L +K + ++ + +F + P VTAG +Q +++EV+NP+H I Sbjct: 71 REDVMDILLQMKQLVIRSHTSEPQMGRLFAQAPENEPLTVTAGMVQLGSEVEVVNPNHYI 130 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR--- 191 L A + ME + K GY + R + + + +DA++ P+++V+YTV+S R Sbjct: 131 ATLMPGATLEMEFKIEKDRGYRSVERVRDDRLALDYLQLDAVFMPVRRVNYTVDSVRSAG 190 Query: 192 -EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 EG D L + I T+GS+T +D++ A+ IL D + + + Sbjct: 191 AEGDRQLQDYLKLEIWTNGSLTPQDALNQAATILVDLFSPL-----KEVPLHTSEATATD 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L LSVR+ NCL+ + + DL++ ++ ++L + NFG+KS E+ L Sbjct: 246 DHDETGQIPIEQLNLSVRAYNCLKRAQVNTVADLLEYSQEELLEIKNFGQKSAEEVIEAL 305 Query: 311 GTMGLFLGMNLP 322 LG+ LP Sbjct: 306 ---QKHLGITLP 314 >gi|88803724|ref|ZP_01119248.1| DNA-directed RNA polymerase alpha subunit [Polaribacter irgensii 23-P] gi|88780457|gb|EAR11638.1| DNA-directed RNA polymerase alpha subunit [Polaribacter irgensii 23-P] Length = 330 Score = 314 bits (805), Expect = 1e-83, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 196/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRRVL+SSL G AIT++++DGV Sbjct: 6 FQKPDKV---IMIESTDFSGRFEFRPLEPGFGLTVGNALRRVLLSSLEGFAITSLRLDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S++ GV ED+T+IILN+K + K + + V+I G TAGD+Q ++ Sbjct: 63 EHEFSTVSGVVEDVTEIILNLKQVRFKKQIEETDRETVSISVSGQEQFTAGDLQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + E+T+ KG G+VPA+ ++ + PIG I D++Y+PIK V Y Sbjct: 123 QVLNPDLVICNMDKSVKLNAEITIEKGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL IDTDGSI+ +D++ A++IL +F I E + Sbjct: 183 AVENFRVEQKTDYEKLVFDIDTDGSISPKDALTEAAKILIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L ++ +++LSVR+ NCL+ + +GDL+ ++D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTRLIDMDLSVRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVIVKGLSFGMDLSKY 325 >gi|332042695|gb|EGI78895.1| DNA-directed RNA polymerase, alpha subunit [Lacinutrix algicola 5H-3-7-4] Length = 330 Score = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+++I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S++ GV ED+T+IILN+K + K + ++ V+I G +TAGD Q ++ Sbjct: 63 DHEFSTVAGVVEDVTEIILNLKQMRFKRQIEDVDNESVSISISGQDKITAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLN D VICNLD + ME+T+ KG GYVPA+ ++ + PIG I D++Y+PIK V Y Sbjct: 123 QVLNSDLVICNLDPKVSITMEITIEKGRGYVPAEENKKASAPIGTIFTDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI+ +D++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIQSDGSISPQDALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVNVKGLNFGMDLSKY 325 >gi|78189780|ref|YP_380118.1| DNA-directed RNA polymerase subunit alpha [Chlorobium chlorochromatii CaD3] gi|90110831|sp|Q3APK0|RPOA_CHLCH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78171979|gb|ABB29075.1| DNA-directed RNA polymerase subunit alpha [Chlorobium chlorochromatii CaD3] Length = 327 Score = 314 bits (804), Expect = 1e-83, Method: Composition-based stats. Identities = 122/318 (38%), Positives = 191/318 (60%), Gaps = 6/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P IE ++ IA+PL RG+ TLGN +RRVL++SL G AIT ++I+ V Sbjct: 5 MQMPAKIELDE-SSHSDSFGKFIAQPLERGYGVTLGNLMRRVLLASLPGTAITGIKIENV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I+GV ED+ +I+LN+K + + + T+ GP TAG IQ + EV Sbjct: 64 YHEFSTIQGVREDVPEIVLNLKKVRFRSQCKRSCKTTVTLVGPMEFTAGVIQPQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ V +++ + +G GYVPA+ +R E P+G I ID++++PI+ V +TV Sbjct: 124 LNKDLHIATINAGTTVTLDIFIGRGRGYVPAEENRAEGMPLGFIPIDSIFTPIRNVKFTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----E 243 E+ R GQ DY+K+ + ++TDGSIT +DS++LA R++ D + +F +F ++E + Sbjct: 184 ENTRVGQRTDYEKMILEVETDGSITPDDSISLAGRVISDHVLLFADFSPAEEEYTEEEFK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +G+L+ E ++L NFG+KSL Sbjct: 244 QQDDEFETMRRLLATKIEDLDLSVRSHNCLRLAEIDTLGELVSHKEDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNL 321 E+K L L GM++ Sbjct: 304 TELKEQLDKFDLKFGMDI 321 >gi|118602238|ref|YP_903453.1| DNA-directed RNA polymerase subunit alpha [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] gi|158512574|sp|A1AVM5|RPOA_RUTMC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118567177|gb|ABL01982.1| DNA-directed RNA polymerase subunit alpha [Candidatus Ruthia magnifica str. Cm (Calyptogena magnifica)] Length = 326 Score = 314 bits (804), Expect = 2e-83, Method: Composition-based stats. Identities = 145/329 (44%), Positives = 210/329 (63%), Gaps = 7/329 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + + +KP +E Q N +I EPL RGF HTLGNALRR L+SS+ G+A+T Sbjct: 1 MQGSARNFLKPKLVES---SQTGVNEFKVILEPLERGFGHTLGNALRRTLLSSMTGSAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGV+HE S+I+GV ED+ DI+LN+K +++ ++ +V I K+GP +T DI+ Sbjct: 58 EVAIDGVMHEFSTIEGVQEDVLDILLNLKEVSVMLNTAETAQVVIEKKGPCEITVADIEA 117 Query: 122 VN-DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DI NPD VI ++ ++ +RM L +S G GY A E IG + +DA +SPI Sbjct: 118 NGIDITAFNPDKVIATINDESHMRMTLKISTGIGYDTATSRTDEASSIGGMQLDASFSPI 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++VS+TV++AR Q ++ DKL++TI+T+GS+ E ++ A+ ILQ+QL F+ E ++E Sbjct: 178 RRVSFTVDAARVKQKVNLDKLNITIETNGSVNAEVAIKRAAIILQEQLSSFVELELVEEE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR N GR Sbjct: 238 EALPTSEDFDPQ---LLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTPNLGR 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL L ++ +WPP + Sbjct: 295 KSLNEIKEVLTEKGLNLATSIENWPPVDL 323 >gi|154494406|ref|ZP_02033726.1| hypothetical protein PARMER_03761 [Parabacteroides merdae ATCC 43184] gi|218262261|ref|ZP_03476784.1| hypothetical protein PRABACTJOHN_02458 [Parabacteroides johnsonii DSM 18315] gi|154085850|gb|EDN84895.1| hypothetical protein PARMER_03761 [Parabacteroides merdae ATCC 43184] gi|218223484|gb|EEC96134.1| hypothetical protein PRABACTJOHN_02458 [Parabacteroides johnsonii DSM 18315] Length = 330 Score = 314 bits (804), Expect = 2e-83, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 196/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + PL G+ T+GNALRR+L+SSL G AIT+++I+GV Sbjct: 6 FQKPDKVLMLEADN---FFGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +I GV ED+T+IILN+K + K D +++V+I G V AGDI + + Sbjct: 63 DHEFGTIPGVIEDVTNIILNLKQVRFKHIVDDIENEKVSITVSGSEVFKAGDIGKQLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC LD +A ++ELT++KG GYVPA +R N + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICRLDPNAGFQIELTINKGRGYVPADENRDPNADMHVIAIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVLEIATDGSIHPKEALKEAAKILIHHFMLFSDEKIAIETVDTDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +G+L++ + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKSKLSDMDLSVRALNCLKAADVETLGELVKFNKNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L GM++ + Sbjct: 303 SLTELDELLESLNLSFGMDITKY 325 >gi|148244354|ref|YP_001219048.1| DNA-directed RNA polymerase subunit alpha [Candidatus Vesicomyosocius okutanii HA] gi|158514275|sp|A5CXI9|RPOA_VESOH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|146326181|dbj|BAF61324.1| DNA-directed RNA polymerase alpha subunit [Candidatus Vesicomyosocius okutanii HA] Length = 326 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 146/329 (44%), Positives = 209/329 (63%), Gaps = 7/329 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + ++ +KP +E Q N +I EPL RGF HTLGNA+RR L+SS+ G A+T Sbjct: 1 MQGSARDFLKPKLVES---SQTGVNEFKVILEPLERGFGHTLGNAIRRTLLSSMTGFAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V IDGV+HE S+I GV ED+ DI+LN+K +++ ++ +V I K+GP +T DI+T Sbjct: 58 EVVIDGVMHEFSTIDGVQEDVLDILLNLKEVSVVLNTVETAQVVIDKKGPCEITVADIET 117 Query: 122 VN-DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 DI NPD VI ++ + +RM L ++ G GY A E IG + +DA +SPI Sbjct: 118 NGIDITTFNPDKVIATINDEGHMRMTLKITAGIGYDAAASRTDEASSIGGMQLDASFSPI 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+VS+TV++AR Q ++ DKL++ I+T+GS+ E ++ + ILQ+QL F+ E ++E Sbjct: 178 KRVSFTVDAARVKQKVNLDKLNIMIETNGSVNAEVAIKRVATILQEQLSSFVELELVEEE 237 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V + P LL V+ELEL+VRS NCL+ E I Y+GDLIQ++E D+LR N GR Sbjct: 238 VSLPTSEDFDPQ---LLAAVDELELTVRSANCLKAEQIYYIGDLIQKSEQDLLRTPNLGR 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 KSL EIK VL GL LG N+ +WPP + Sbjct: 295 KSLNEIKEVLTEKGLSLGTNIENWPPVDL 323 >gi|108804947|ref|YP_644884.1| DNA-directed RNA polymerase subunit alpha [Rubrobacter xylanophilus DSM 9941] gi|119366722|sp|Q1AU56|RPOA_RUBXD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|108766190|gb|ABG05072.1| DNA-directed RNA polymerase, alpha subunit [Rubrobacter xylanophilus DSM 9941] Length = 313 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 123/299 (41%), Positives = 183/299 (61%), Gaps = 1/299 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + +E+E + +AEPLPRG HTLGNALRRV++S L GAA+T ++I+GV HE S+I+GV Sbjct: 11 RVEEEDERHGIFVAEPLPRGLGHTLGNALRRVMLSGLPGAAVTKLRIEGVQHEFSTIEGV 70 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DIILN+K + ++ D + I K GPG V DI+ D+EV+NPD I +L Sbjct: 71 REDVVDIILNVKQLKFRLERDEPIELQISKDGPGEVRGSDIELKADVEVVNPDAYIASLS 130 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M LTV +G GYVPA+ ++++ DPIG+I +D+L+SP++KV Y V R G +D Sbjct: 131 EGGHLDMTLTVERGQGYVPAEQNKSDADPIGVIAVDSLFSPVEKVQYRVSETRAGARVDL 190 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D L++ + TDG + +++ ASR L D G+F + +E P + Sbjct: 191 DALTLEVFTDGRLGPREALREASRKLIDFFGLFAEGYQGAGAAEEPGRSGGRPV-ITDER 249 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+LEL+VRS NCL+ E + +G L TE +++ + N G KS+ EI+ L G L Sbjct: 250 PIEDLELTVRSYNCLKREGVDTIGQLATMTEEELMNIRNLGMKSVDEIRSKLEEYGYTL 308 >gi|21674971|ref|NP_663036.1| DNA-directed RNA polymerase subunit alpha [Chlorobium tepidum TLS] gi|25009133|sp|Q8KAJ8|RPOA_CHLTE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21648203|gb|AAM73378.1| DNA-directed RNA polymerase, alpha subunit [Chlorobium tepidum TLS] Length = 328 Score = 313 bits (803), Expect = 2e-83, Method: Composition-based stats. Identities = 130/318 (40%), Positives = 193/318 (60%), Gaps = 6/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P I+ IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPTKIDVDEATHTGSF-GRFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I GV ED+ +I+LN+K + K + + T+ GP AGDI + EV Sbjct: 64 FHEFSTIDGVREDVPEIVLNLKKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ +A V +++ + +G GYVPA+ +R++ PIG I ID++Y+PIK V TV Sbjct: 124 LNKDLHIATINSEATVTIDIYIGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI-- 245 E+ R GQ DY+K+ + ++TDGSIT +D+++LA +I+ D + F NF ++E E+ Sbjct: 184 ENTRVGQKTDYEKMILDVETDGSITPDDAISLAGKIINDHITFFANFSPTEEEFSEEEYK 243 Query: 246 --NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L K+E+L+LSVRS NCLR I +GDL+ R E ++L NFG+KSL Sbjct: 244 QLDDEFESMRKLLQTKIEDLDLSVRSHNCLRLAEIDSLGDLVSRREEELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNL 321 E+K L L GM++ Sbjct: 304 TELKEQLEKFNLKFGMDI 321 >gi|325287074|ref|YP_004262864.1| DNA-directed RNA polymerase subunit alpha [Cellulophaga lytica DSM 7489] gi|324322528|gb|ADY29993.1| DNA-directed RNA polymerase subunit alpha [Cellulophaga lytica DSM 7489] Length = 330 Score = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 190/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+S+L G AIT+V++D V Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSALEGFAITSVRMDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S I GV ED+T++ILN+K + K + + V+I G +TAGD Q ++ Sbjct: 63 EHEFSVIPGVVEDVTEMILNLKQVRFKRQIEDVEAETVSISVSGKNQLTAGDFQKFISGY 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + ME+ + KG GYVPA+ ++ IG I ID++++PIK V Y Sbjct: 123 QVLNPDLVICNMDAKVSINMEIVIEKGRGYVPAEENKKPGAAIGTIPIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A+++L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEISSDGSINPKDALTEAAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVINKGLSFGMDLSKY 325 >gi|58415796|emb|CAH57312.1| RNA polymerase alpha-subunit [Vibrio coralliilyticus] Length = 287 Score = 313 bits (802), Expect = 3e-83, Method: Composition-based stats. Identities = 133/290 (45%), Positives = 197/290 (67%), Gaps = 8/290 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLA 60 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V + Sbjct: 61 VRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVER 120 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T+ Sbjct: 121 GRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VR Sbjct: 181 GTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLG 287 >gi|261880855|ref|ZP_06007282.1| DNA-directed RNA polymerase subunit alpha [Prevotella bergensis DSM 17361] gi|270332362|gb|EFA43148.1| DNA-directed RNA polymerase subunit alpha [Prevotella bergensis DSM 17361] Length = 330 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 129/323 (39%), Positives = 197/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + E+ PL GF T+GNALRR+L+SSL G AI V+IDGV Sbjct: 6 FQKPDKV---VMLEASESFGKFEFSPLEPGFGVTIGNALRRILLSSLEGYAINTVRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVREDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LTV+KG GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTVNKGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + I TDGSI +D++ A++IL +F I E+P K+ Sbjct: 183 SVEPTRVEQKTDYDKLCIEITTDGSIHPKDALNEAAKILIYHFMLFSDEKITLEDPNKDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ +L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLRMRQLLKTKLLDLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|283768437|ref|ZP_06341349.1| DNA-directed RNA polymerase, alpha subunit [Bulleidia extructa W1219] gi|283104829|gb|EFC06201.1| DNA-directed RNA polymerase, alpha subunit [Bulleidia extructa W1219] Length = 319 Score = 313 bits (801), Expect = 3e-83, Method: Composition-based stats. Identities = 121/300 (40%), Positives = 179/300 (59%), Gaps = 5/300 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E EN I PL RGF T+GNALRRVL+SSL GAA+ ++++D V HE +SI GV ED+ Sbjct: 16 ESENYGRFILTPLERGFGTTIGNALRRVLLSSLPGAAVFSIKVDQVYHEFTSIPGVREDV 75 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 + IILN+K + +K+ D + I +GPG V A D+ +E++N D VI NL+V A Sbjct: 76 SMIILNLKQLVMKIEDDEEYTLQISAKGPGTVKAADLIVPAQVEIVNKDLVIANLEVGAS 135 Query: 143 VRMELTVSKGHGYVPAKHHRTE----NDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME+ V G GYV A ++ + IG + D++Y+P+ KV+Y VE R G+ + Y Sbjct: 136 LEMEIKVQNGRGYVSADINKQLRSGVSQGIGTVYTDSIYTPVTKVAYHVEPTRVGENVKY 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-NFEEPKKEVKEDINVKSLPFNPALL 257 D+L+M + TDGSI + +++LA++IL D L + +E + N Sbjct: 196 DELTMEVTTDGSINPQKALSLAAKILVDHLEIVAGINDEVMISDSVIKQSTAEKPNKGHQ 255 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+LSVRS NCL+ I + +L Q+TE +M+R+ N G+KSL E+K L MG Sbjct: 256 MMIEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMRVRNLGKKSLKEVKDKLIEMGFGF 315 >gi|91216884|ref|ZP_01253848.1| DNA-directed RNA polymerase alpha subunit [Psychroflexus torquis ATCC 700755] gi|91185045|gb|EAS71424.1| DNA-directed RNA polymerase alpha subunit [Psychroflexus torquis ATCC 700755] Length = 330 Score = 313 bits (801), Expect = 4e-83, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT+V+I+GV Sbjct: 6 FQKPDKV---IMIDSTDFEGTFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE S+I+GV ED+T++ILN+K I K + ++ V+I G +TAGD Q + Sbjct: 63 DHEFSTIEGVVEDVTEMILNLKQIRFKKRAEDVDNETVSISFSGNDKMTAGDFQKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++LNPD IC +D + +ELTV KG GYVPA+ ++T PIG I D++++PIK V Y Sbjct: 123 DILNPDLEICTMDKKVSLNLELTVQKGRGYVPAEENKTSKAPIGTIFTDSVFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A++ L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLIFEIISDGSIHPKDALTEAAKTLIHHFMLFSDERITLETEEMSQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +L+LSVR+ NCL+ + +GDL+ ++D+++ NFG+K Sbjct: 243 AETYDEESLHMRQLLKTKLVDLDLSVRALNCLKAAEVETLGDLVSHNKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVENKGLDFGMDLSKY 325 >gi|289548514|ref|YP_003473502.1| DNA-directed RNA polymerase subunit alpha [Thermocrinis albus DSM 14484] gi|289182131|gb|ADC89375.1| DNA-directed RNA polymerase, alpha subunit [Thermocrinis albus DSM 14484] Length = 317 Score = 312 bits (800), Expect = 5e-83, Method: Composition-based stats. Identities = 115/318 (36%), Positives = 177/318 (55%), Gaps = 6/318 (1%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 +E + P+ + + ++ + + EPL RGF T+GNALRR L+SS+ G AIT V++ Sbjct: 2 LREFVYPSKVYW---EEKTKTYGRFVVEPLERGFGITVGNALRRTLLSSIEGTAITGVKV 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 G HE S+++GV ED+ +II N+K + ++ + + + KRG G V A DI + Sbjct: 59 YGAYHEFSTVEGVLEDVLEIIANLKRVRFRLRESHVEILYLKKRGEGEVYARDIILPPSV 118 Query: 126 EVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +++ PD I + D + +E+ V +G GYVP + + +G I +DA +SP++ VS Sbjct: 119 DLITPDVKIATITSPDTELHIEIRVERGFGYVPTEEMESFG-EVGWILVDADFSPVRHVS 177 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE R + DYD+L M I TDGS T E+ V A +IL N + V E+ Sbjct: 178 YRVEKTRVERRSDYDRLIMEIRTDGSKTPEEVVKEAVQILLRNFSSLENIAQEIPFVAEE 237 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 V L +EEL++S RS N L+ I +G+L++ TE D+ N GRK++ Sbjct: 238 PVVVDELMEKLSL-PIEELDISQRSLNSLKRIGINTLGELVRLTEEDLKSTKNVGRKAIN 296 Query: 305 EIKGVLGTMGLFLGMNLP 322 EIK L MGL+LGM++ Sbjct: 297 EIKEALKQMGLYLGMDIE 314 >gi|225849517|ref|YP_002729682.1| DNA-directed RNA polymerase subunit alpha [Sulfurihydrogenibium azorense Az-Fu1] gi|225644691|gb|ACN99741.1| DNA-directed RNA polymerase, alpha subunit [Sulfurihydrogenibium azorense Az-Fu1] Length = 326 Score = 312 bits (799), Expect = 6e-83, Method: Composition-based stats. Identities = 120/316 (37%), Positives = 179/316 (56%), Gaps = 7/316 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + + P+ I + + EN + EPL RG+ TLGNALRRVL+SSL AITAV+I G Sbjct: 6 DFVMPSKIYWDE-STKTENFGKLYVEPLERGYGITLGNALRRVLLSSLPSGAITAVKIVG 64 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 V HE +++KGV ED+++IILN+K I LK+ + + + GPG V A DI+ IE Sbjct: 65 VPHEFTTVKGVIEDVSEIILNLKQIRLKIDENIERDFAILEVEGPGKVFAKDIKAPPGIE 124 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++NPD IC L + ++ME + +G GY + + + IG I ID +SPIK+ ++ Sbjct: 125 IVNPDEYICTLSENVKLQMEFRIERGRGYKTVEELE-DINEIGWILIDTSFSPIKRCTFF 183 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE R G DYD+L + I+TDG+IT ++++ ++ IL + + K +V + Sbjct: 184 VEPVRVGDKTDYDRLILEIETDGTITPDEALEKSANILIEHFTLLQKPTVRKAQVIKKTV 243 Query: 247 VKSLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K ++ELE+S R+ N LR I +GDL++ +E D+ + GRKS Sbjct: 244 APKTEELKIEEDKLSLAIDELEISSRAINTLRKLGINTIGDLVKLSEDDLKEAKSIGRKS 303 Query: 303 LVEIKGVLGTMGLFLG 318 L EIK L MGL L Sbjct: 304 LKEIKDALADMGLELA 319 >gi|260061923|ref|YP_003195003.1| DNA-directed RNA polymerase subunit alpha [Robiginitalea biformata HTCC2501] gi|88786056|gb|EAR17225.1| DNA-directed RNA polymerase alpha subunit [Robiginitalea biformata HTCC2501] Length = 317 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 121/310 (39%), Positives = 188/310 (60%), Gaps = 7/310 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + PL G+ T+GNALRRVL++SL G AIT+V+ID V HE S I+GV ED Sbjct: 3 DSTDFEGKFEFRPLEPGYGLTVGNALRRVLLASLEGFAITSVRIDKVEHEFSVIEGVVED 62 Query: 82 LTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLD 138 +T+IILN+K I K D + + V+I G +TAGD Q ++ +VLNPD VICN+D Sbjct: 63 VTEIILNLKQIRFKRQIDDVNEETVSISVSGKEQLTAGDFQKFISGFQVLNPDLVICNMD 122 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME+ + KG GYVPA+ ++ N P+G I +D++++P++ V Y++E+ R Q DY Sbjct: 123 PKVSINMEIIIEKGRGYVPAEENKKSNAPLGSIAVDSIFTPVRNVKYSIENYRVEQKTDY 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNP 254 +KL I TDGSI +D++ A+++L +F I E + E + +SL Sbjct: 183 EKLVFEILTDGSIHPKDALTEAAKVLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQ 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ G Sbjct: 243 LLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKKSLTELEELVINKG 302 Query: 315 LFLGMNLPDW 324 L GM+L + Sbjct: 303 LNFGMDLSKY 312 >gi|213962766|ref|ZP_03391026.1| DNA-directed RNA polymerase, alpha subunit [Capnocytophaga sputigena Capno] gi|213954423|gb|EEB65745.1| DNA-directed RNA polymerase, alpha subunit [Capnocytophaga sputigena Capno] Length = 330 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 187/323 (57%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D V Sbjct: 6 FQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTV-NDI 125 HE S+I GV ED+T+IILN+K + K + + TI G +TAGD Q + Sbjct: 63 DHEFSTIPGVREDVTEIILNLKQVRFKRQVEDVEDETATITVSGKKQLTAGDFQKTLSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN++ A ME+T+ KG GYV A+ + N IG+I D++++PIK V Y Sbjct: 123 QVLNPDLVICNMETSASFTMEITIEKGRGYVSAEENAKPNAAIGVIATDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 183 TIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEVAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+K Sbjct: 243 TDAYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL+E+ ++ GL GM+ + Sbjct: 303 SLIELDELVANKGLVFGMDTSKY 325 >gi|228472281|ref|ZP_04057047.1| DNA-directed RNA polymerase, alpha subunit [Capnocytophaga gingivalis ATCC 33624] gi|228276484|gb|EEK15208.1| DNA-directed RNA polymerase, alpha subunit [Capnocytophaga gingivalis ATCC 33624] Length = 330 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + E PL G+ T+GNALRRV++SSL G AIT+V+ID V Sbjct: 6 FQKPDKV---IMIESSEFEGKFEFRPLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDSV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K+ + ++ +I G +TAGD Q + Sbjct: 63 EHEFSTITGVVEDVTEIILNLKQVRFKLQTEGTDHEKASISVTGKKQLTAGDFQKFITGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN++ D ++M++T+ KG GYV A+ + N P+G I DA+++PIK V Y Sbjct: 123 QVLNPDLVICNMEPDVAIKMDITIDKGMGYVFAEENTKPNMPMGTIPTDAIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLIFEIKTDGSIHPKDALMEAAKTLIHHFMLFSDERITIEPEEVVQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ T+ D+++ NFG+K Sbjct: 243 PESYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ ++ + GL GM+L + Sbjct: 303 SLTELDELVESKGLTFGMDLSRY 325 >gi|328814015|gb|AEB52123.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 273 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 117/271 (43%), Positives = 175/271 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I G Sbjct: 3 ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 63 VLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTV 122 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 123 ADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 182 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 183 FDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 242 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 +EEL+LSVRS NCL+ I + +L +T Sbjct: 243 MTIEELDLSVRSYNCLKRAGINTVQELTNKT 273 >gi|208659518|gb|ACI31189.1| RpoA [Vibrio breoganii] Length = 302 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 132/308 (42%), Positives = 199/308 (64%), Gaps = 11/308 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC++ D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHITDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + KE Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEKE 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GD +QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDXVQRTEVELLKTPNLGKKSL 294 Query: 304 VEIKGVLG 311 EIK VL Sbjct: 295 TEIKDVLA 302 >gi|298207753|ref|YP_003715932.1| DNA-directed RNA polymerase alpha subunit [Croceibacter atlanticus HTCC2559] gi|83850391|gb|EAP88259.1| DNA-directed RNA polymerase alpha subunit [Croceibacter atlanticus HTCC2559] Length = 317 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 122/310 (39%), Positives = 188/310 (60%), Gaps = 7/310 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + PL G+ T+GNALRRVL+SSL G AI++V+++GV HE S+I GV ED Sbjct: 3 DSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAISSVRVEGVDHEFSTISGVVED 62 Query: 82 LTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLD 138 +T+IILN+K + K D ++ VT+ G +TAGD Q ++ +VLNPD VICN+D Sbjct: 63 VTEIILNLKQVRFKRQIDEVDNETVTMNISGQEQLTAGDFQKFISGFQVLNPDMVICNMD 122 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +E+T+ KG GYVPA+ ++ N PIG I D++++PIK V Y++E+ R Q DY Sbjct: 123 KKVNLNIEITIEKGRGYVPAEENKKSNAPIGTIFTDSIFTPIKNVKYSIENYRVEQKTDY 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNP 254 +KL I TDGSI +D++ A++ L +F I E + E + +SL Sbjct: 183 EKLVFEIQTDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQ 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ G Sbjct: 243 LLKTKLVDMDLSVRALNCLKAAEVDSLGDLVSYNKNDLMKFRNFGKKSLTELEELVNNKG 302 Query: 315 LFLGMNLPDW 324 L GM+L + Sbjct: 303 LNFGMDLSKY 312 >gi|288801125|ref|ZP_06406581.1| DNA-directed RNA polymerase, alpha subunit [Prevotella sp. oral taxon 299 str. F0039] gi|288332059|gb|EFC70541.1| DNA-directed RNA polymerase, alpha subunit [Prevotella sp. oral taxon 299 str. F0039] Length = 330 Score = 311 bits (798), Expect = 7e-83, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 197/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIKIGGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K D +++V+I AGD+ + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVDEFENEKVSITVENTTEFKAGDMGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A +++++T++KG GYVPA +R + + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDITINKGRGYVPADENRQYSTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI+ +D++ A++IL +F I E P+++ Sbjct: 183 SVEPYRVEQKTDYDKLVLEVTTDGSISPKDALKEAAKILIYHFMLFSDEKITLENPEQDS 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NDEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|311748487|ref|ZP_07722272.1| DNA-directed RNA polymerase, alpha subunit [Algoriphagus sp. PR1] gi|126577004|gb|EAZ81252.1| DNA-directed RNA polymerase, alpha subunit [Algoriphagus sp. PR1] Length = 329 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 120/322 (37%), Positives = 194/322 (60%), Gaps = 9/322 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P + V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT+++I GV Sbjct: 6 FQMPEKV---VMEKADDFHGLFTFKPLEKGYGVTIGNALRRILLSSLEGYAITSIKIPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE S+I+GV ED+TDIILN+K + K+ ++T+ + V TAGDI + + E Sbjct: 63 LHEFSTIEGVVEDVTDIILNLKQVRFKKVHEAFDGKITVEIKNQSVFTAGDIAKFTSSFE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD VIC++D +E+TV KG GY+PA+ + + G I IDA+++PIK V Y+ Sbjct: 123 ILNPDLVICHIDESKNFEIEITVEKGRGYLPAEESKPKEQVFGQIAIDAIFTPIKNVKYS 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEVK 242 VE+ R Q D++KL + + TDGSI E ++ +++IL +F + + Sbjct: 183 VENTRVEQKTDFEKLILEVSTDGSIHPEKALQESAKILIQHFMLFSDQTMVLDSTGIAEP 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E I+ + L L + +L+LSVR+ NCL+ ++ +GDL + +DM++ NFG+KS Sbjct: 243 EPIDEEFLHMRKLLKTSLSDLDLSVRAFNCLKAADVKTLGDLAKLEISDMMKFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L E++ ++ GL GM++ + Sbjct: 303 LAELEQLIQEKGLTFGMDISKY 324 >gi|319952170|ref|YP_004163437.1| DNA-directed RNA polymerase subunit alpha [Cellulophaga algicola DSM 14237] gi|319420830|gb|ADV47939.1| DNA-directed RNA polymerase subunit alpha [Cellulophaga algicola DSM 14237] Length = 330 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRVL+SSL G AIT++++D V Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSIRVDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S I G+ ED+T+IILN+K + K + + V++ G +TAGD Q ++ Sbjct: 63 EHEFSVISGIVEDVTEIILNLKQVRFKRQIEDVDSETVSVSVSGKNQLTAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D MEL + KG GYVPA+ ++ PIG I ID++++PIK V Y Sbjct: 123 QVLNPDLVICNMDAKVNFNMELVIEKGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I++DGSIT +D++ +++L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIESDGSITPKDALTEGAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVINKGLSFGMDLSKY 325 >gi|281423812|ref|ZP_06254725.1| DNA-directed RNA polymerase, alpha subunit [Prevotella oris F0302] gi|299141174|ref|ZP_07034311.1| DNA-directed RNA polymerase, alpha subunit [Prevotella oris C735] gi|281402039|gb|EFB32870.1| DNA-directed RNA polymerase, alpha subunit [Prevotella oris F0302] gi|298577134|gb|EFI49003.1| DNA-directed RNA polymerase, alpha subunit [Prevotella oris C735] Length = 330 Score = 311 bits (798), Expect = 8e-83, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + E PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEASEKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINKGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P ++ Sbjct: 183 SVEPYRVEQKTDYDKLVIEVSTDGSIHPKDALKEAAKILIYHFMLFSDEKITLESPDQDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|326334519|ref|ZP_08200730.1| DNA-directed RNA polymerase subunit alpha [Capnocytophaga sp. oral taxon 338 str. F0234] gi|325693288|gb|EGD35216.1| DNA-directed RNA polymerase subunit alpha [Capnocytophaga sp. oral taxon 338 str. F0234] Length = 330 Score = 311 bits (797), Expect = 9e-83, Method: Composition-based stats. Identities = 123/323 (38%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + E PL G+ T+GNALRRV++SSL G AIT+V+ID V Sbjct: 6 FQKPDKV---IMIESSEFEGKFEFRPLEPGYGLTIGNALRRVMLSSLEGYAITSVKIDTV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K+ + ++ +I G +TAGD Q + Sbjct: 63 EHEFSTIAGVVEDVTEIILNLKQVRFKLQTEGTDHEKASISVTGKKQLTAGDFQKFITGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN++ + ++M++T+ KG GYV A+ + N P+G I DA+++PIK V Y Sbjct: 123 QVLNPDLVICNMEPEVEIKMDITIDKGMGYVSAEENAKPNMPVGTIPTDAIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLIFEIKTDGSIHPKDALMEAAKTLIHHFMLFSDERITIEPEEVVQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ T+ D+++ NFG+K Sbjct: 243 PESYDEESLHMRQLLKTKLIDMDLSVRALNCLKAAEVDTLGDLVSFTKTDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ ++ + GL GM+L + Sbjct: 303 SLTELDELVESKGLTFGMDLSKY 325 >gi|254495367|ref|ZP_05108291.1| DNA-directed RNA polymerase, alpha subunit [Polaribacter sp. MED152] gi|85819721|gb|EAQ40878.1| DNA-directed RNA polymerase, alpha subunit [Polaribacter sp. MED152] Length = 330 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRRVL+SSL G AIT+++IDGV Sbjct: 6 FQKPDKV---IMIESTDFSGRFEFRPLEPGFGLTVGNALRRVLLSSLEGFAITSLRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S++ G+ ED+T+IILN+K + K D + V++ G TAGD+Q ++ Sbjct: 63 EHEFSTVSGIVEDVTEIILNLKQVRFKKQIDETDRETVSVSISGQEQFTAGDLQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + E+T+ KG G+VPA+ ++ + PIG I D++Y+PIK V Y Sbjct: 123 QVLNPDLVICNMDKSVKLNAEITIEKGRGFVPAEENKKASAPIGTIFTDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E+ R Q DY+KL IDTDGSI +D++ A++IL +F I E + Sbjct: 183 AIENFRVEQKTDYEKLVFDIDTDGSINPKDALTEAAKILIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L ++ +++LSVR+ NCL+ + +GDL+ ++D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTRLIDMDLSVRALNCLKAAEVDTLGDLVSFNKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVIVKGLSFGMDLTKY 325 >gi|225011672|ref|ZP_03702110.1| DNA-directed RNA polymerase, alpha subunit [Flavobacteria bacterium MS024-2A] gi|225004175|gb|EEG42147.1| DNA-directed RNA polymerase, alpha subunit [Flavobacteria bacterium MS024-2A] Length = 330 Score = 311 bits (797), Expect = 1e-82, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ E PL G+ T+GNALRRVL+SSL G AIT+V+++ V Sbjct: 6 FQKPDKV---IMIDSSEFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVKLENV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K + K + ++VT+ G + A D+Q ++ Sbjct: 63 EHEFSTIPGVVEDVTEIILNLKQVRFKRQIEDTEEEKVTVIIGGQEQLKAADLQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VIC+L+ + ME+ + KG GYVPA+ ++ N +G+I ID++++PIK V Y Sbjct: 123 QVLNPDLVICHLEKSVQLNMEIAIEKGRGYVPAEENKKANAELGVIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI +D++ A++ L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIITDGSIHPKDALTEAAKTLIHHFLLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSYNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVVLKGLSFGMDLAKY 325 >gi|332176606|gb|AEE12296.1| DNA-directed RNA polymerase subunit alpha [Porphyromonas asaccharolytica DSM 20707] Length = 330 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 116/323 (35%), Positives = 190/323 (58%), Gaps = 7/323 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + +++ ++ +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE Sbjct: 7 QQPDSVLMLDASDHYAKFEFKPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEF 66 Query: 73 SSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLN 129 ++I GV ED+T IILN+K I K + + +T+ G AGD+ Q + +V N Sbjct: 67 ATIPGVLEDVTHIILNLKQIRFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD VICNL DA +EL ++KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ Sbjct: 127 PDLVICNLAEDADFTIELRINKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEA 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 R Q DY+KL + I+TDG+I +++ A+ IL +F + E + +E+ + Sbjct: 187 YRVDQRTDYEKLVLEIETDGTIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLL 246 Query: 248 --KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++ L+ + +LSVR+ NCL+ I + DL+ R ++L++ NFG+KSLVE Sbjct: 247 DNQTMKVRTQLMTDLATTDLSVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVE 306 Query: 306 IKGVLGTMGLFLGMNLPDWPPES 328 I+ L L M+L + ++ Sbjct: 307 IEQFLADQDLDFDMDLTPYRLDN 329 >gi|225010542|ref|ZP_03701013.1| DNA-directed RNA polymerase, alpha subunit [Flavobacteria bacterium MS024-3C] gi|225005371|gb|EEG43322.1| DNA-directed RNA polymerase, alpha subunit [Flavobacteria bacterium MS024-3C] Length = 330 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + PL G+ T+GNALRRV++S+L G AIT+V++D V Sbjct: 6 FQKPDKV---IMIDSTDFEGKFEFRPLEPGYGLTVGNALRRVMLSALEGFAITSVRMDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S I GV ED+T+IILN+K + K + ++ ++I G +TAGD Q ++ Sbjct: 63 AHEFSVIPGVVEDVTEIILNLKQVRFKRQIEDVDNETISIALSGKQQLTAGDFQKFISGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VICN+D + MELT+ KG GYVPA+ ++ PIG I ID++++PIK V Y Sbjct: 123 QVLNPDLVICNMDAKVNINMELTIEKGRGYVPAEENKKSGAPIGTIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I +DGSI +D++ A+++L +F I E + Sbjct: 183 SIENFRVEQKTDYEKLVFEIVSDGSIHPKDALTEAAKVLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + +SL L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+K Sbjct: 243 TETYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVDTLGDLVSFNKNDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ ++ GL GM+L + Sbjct: 303 SLTELEELVINKGLSFGMDLSKY 325 >gi|193211878|ref|YP_001997831.1| DNA-directed RNA polymerase subunit alpha [Chlorobaculum parvum NCIB 8327] gi|238692676|sp|B3QR98|RPOA_CHLP8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|193085355|gb|ACF10631.1| DNA-directed RNA polymerase, alpha subunit [Chlorobaculum parvum NCIB 8327] Length = 328 Score = 311 bits (796), Expect = 1e-82, Method: Composition-based stats. Identities = 129/318 (40%), Positives = 193/318 (60%), Gaps = 6/318 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + P I+ IA+PL RG+ TLGNA+RRVL++SL G AIT ++IDGV Sbjct: 5 MQMPAKIDVDEATHTGSF-GRFIAQPLERGYGVTLGNAMRRVLLASLPGTAITGIKIDGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDIEV 127 HE S+I GV ED+ +I+LN+K + K + + T+ GP AGDI + EV Sbjct: 64 FHEFSTIDGVREDVPEIVLNLKKVRFKSNCKRSCKTTLTLAGPKDFLAGDIVAQEGEFEV 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LN D I ++ +A V +++ + +G GYVPA+ +R++ PIG I ID++Y+PIK V TV Sbjct: 124 LNKDLHIATINSEAAVTIDIYIGRGRGYVPAEENRSDGMPIGFIAIDSIYTPIKNVKLTV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE----EPKKEVKE 243 E+ R GQ DY+K+ + ++TDGSI+ +D+++LA RI+ D + F NF E +E + Sbjct: 184 ENTRVGQKTDYEKMILDVETDGSISPDDAISLAGRIINDHVTFFANFSPTEEEYAEEEYK 243 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 ++ + L K+E+L+LSVRS NCLR I + DL+ R E ++L NFG+KSL Sbjct: 244 QLDEEFENMRKKLQTKIEDLDLSVRSHNCLRLAEIDTLADLVSRREDELLNYKNFGKKSL 303 Query: 304 VEIKGVLGTMGLFLGMNL 321 E++ L GL GM++ Sbjct: 304 TELREALEKEGLKFGMDI 321 >gi|313887090|ref|ZP_07820789.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas asaccharolytica PR426713P-I] gi|312923501|gb|EFR34311.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas asaccharolytica PR426713P-I] Length = 330 Score = 310 bits (795), Expect = 1e-82, Method: Composition-based stats. Identities = 115/323 (35%), Positives = 190/323 (58%), Gaps = 7/323 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + +++ ++ +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE Sbjct: 7 QQPDSVLMLDASDHYAKFEFKPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEF 66 Query: 73 SSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDI-QTVNDIEVLN 129 ++I GV ED+T IILN+K I K + + +T+ G AGD+ Q + +V N Sbjct: 67 ATIPGVLEDVTHIILNLKQIRFKAAVEDPQEETITLHVTGRNTFQAGDLNQVLTSYKVQN 126 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD VICNL DA +E+ ++KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ Sbjct: 127 PDLVICNLAEDADFTIEIRINKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEA 186 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV-- 247 R Q DY+KL + I+TDG+I +++ A+ IL +F + E + +E+ + Sbjct: 187 YRVDQRTDYEKLVLEIETDGTIHPREALRQAATILISHFALFTDKEFEVELPEEEPDQLL 246 Query: 248 --KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++ L+ + +LSVR+ NCL+ I + DL+ R ++L++ NFG+KSLVE Sbjct: 247 DNQTMKVRTQLMTDLATTDLSVRALNCLKAAGISTIADLLSRDRDELLKIKNFGKKSLVE 306 Query: 306 IKGVLGTMGLFLGMNLPDWPPES 328 I+ L L M+L + ++ Sbjct: 307 IEQFLADQDLDFDMDLTPYRLDN 329 >gi|260895674|ref|ZP_05904170.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus Peru-466] gi|308089502|gb|EFO39197.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus Peru-466] Length = 318 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 130/314 (41%), Positives = 201/314 (64%), Gaps = 11/314 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 VRV---PEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 294 Query: 297 NFGRKSLVEIKGVL 310 N G+ L+ +K L Sbjct: 295 NLGKNLLLRLKTYL 308 >gi|282880974|ref|ZP_06289665.1| DNA-directed RNA polymerase, alpha subunit [Prevotella timonensis CRIS 5C-B1] gi|281305197|gb|EFA97266.1| DNA-directed RNA polymerase, alpha subunit [Prevotella timonensis CRIS 5C-B1] Length = 330 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + V+ + ++ PL GF T+GN+LRR+L+SSL G AI ++I GV Sbjct: 6 FQKPEKV---VMLEADDKFGKFEFRPLEPGFGITIGNSLRRILLSSLEGYAINTMRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT+++G GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINQGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 TVE R Q DYDKL + + TDGSI+ +D++ A++IL +F I E P ++ Sbjct: 183 TVEPYRVEQKTDYDKLVIEVTTDGSISPKDALKEAAKILIYHFMLFSDEKITLENPDQDT 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|313204944|ref|YP_004043601.1| DNA-directed RNA polymerase subunit alpha [Paludibacter propionicigenes WB4] gi|312444260|gb|ADQ80616.1| DNA-directed RNA polymerase subunit alpha [Paludibacter propionicigenes WB4] Length = 330 Score = 310 bits (795), Expect = 2e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 197/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + + PL G+ T+GNALRR+L+SSL G AIT+++I+G+ Sbjct: 6 FQKPEKV---IMLEADAFQGKFEFRPLEPGYGITIGNALRRILLSSLEGFAITSIKIEGI 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+I GV +D+T+IILN+K + K + +++VTI G AGDI + Sbjct: 63 DHEYSTIPGVIDDVTNIILNLKQVRFKQIVEDIENEKVTINVSGTTSFKAGDIGKYFTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP VIC LD A ++++TV+KG GY P++ ++ N IGLI IDA+++PI+ V Y Sbjct: 123 EVLNPKLVICELDPSASFQIDITVNKGRGYAPSEENKPANAEIGLIPIDAIFTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R QV DY+KL + I TDGSI ++++ +++IL +F I+ E + E Sbjct: 183 SIENYRVEQVTDYEKLVLEISTDGSIHPKEALKESAKILIHHFMLFSDEKISLEVTEGEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ +LELSVR+ NCL+ ++ +G L + D+L+ NFG+K Sbjct: 243 SDEFDEEILHMRQLLKTKLTDLELSVRALNCLKAADVDTLGQLAGYHKHDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ L ++ L GM++ + Sbjct: 303 SLTELEEKLESLNLSFGMDIAKY 325 >gi|149279637|ref|ZP_01885766.1| DNA-directed RNA polymerase subunit alpha [Pedobacter sp. BAL39] gi|149229673|gb|EDM35063.1| DNA-directed RNA polymerase subunit alpha [Pedobacter sp. BAL39] Length = 330 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 130/323 (40%), Positives = 201/323 (62%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQKPDKV---IMQKSTDFDGIFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S++KGV EDLT+IILN+K + K GD ++V I G TAGDI + N+ Sbjct: 63 SHEFSTMKGVVEDLTEIILNLKQVRFKKVGDSGDSEKVFILVNGQDQFTAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VICN++ + +ELT++KG GYVPA+ ++ + +G+I ID++++P+K V Y Sbjct: 123 EVLNPDFVICNMEKTVTLEVELTINKGRGYVPAEENKINDAVVGVIAIDSIFTPMKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI E+++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLILDISTDGSIHPEEALKEAAKILIQHFMLFSDENLVLESQAKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++++ + L L ++ +L+LSVR+ NCL+ +I + DL+ ADML+ NFG+K Sbjct: 243 TKEVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRTLADLVSYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + L GMNL + Sbjct: 303 SLTEIQELVKSKSLSFGMNLSKF 325 >gi|157783870|gb|ABV72700.1| RNA polymerase alpha-subunit [Vibrio mangrovi] gi|163962991|gb|ABY50538.1| RNA polymerase alpha-subunit [Vibrio sp. MSSRF39] Length = 297 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 133/300 (44%), Positives = 198/300 (66%), Gaps = 8/300 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 1 LVDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 60 Query: 77 GVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC Sbjct: 61 GVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVIC 120 Query: 136 NLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L D A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Sbjct: 121 HLTDDNAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAAR 180 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P Sbjct: 181 VEQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK L Sbjct: 241 ---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDGLH 297 >gi|189308769|gb|ACD87086.1| RpoA [Vibrio sp. PP-203] Length = 295 Score = 310 bits (794), Expect = 2e-82, Method: Composition-based stats. Identities = 130/298 (43%), Positives = 197/298 (66%), Gaps = 8/298 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +G Sbjct: 1 VDIEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEG 60 Query: 78 VHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 V ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+ Sbjct: 61 VQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICH 120 Query: 137 LDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 L +A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Sbjct: 121 LTDGNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARV 180 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 181 EQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP- 239 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 240 --ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVL 295 >gi|256420686|ref|YP_003121339.1| DNA-directed RNA polymerase, alpha subunit [Chitinophaga pinensis DSM 2588] gi|256035594|gb|ACU59138.1| DNA-directed RNA polymerase, alpha subunit [Chitinophaga pinensis DSM 2588] Length = 331 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 195/323 (60%), Gaps = 11/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ I VL + + PL G+ T+GNALRRVL+SSL G AI ++I+G Sbjct: 6 FQKPDKI---VLQKSTDFEAQFEFRPLEPGYGVTVGNALRRVLLSSLEGYAIVGIKIEGA 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH---KRVTIFKRGPGVVTAGDIQ-TVND 124 HE +++KG+ ED+T+IILN+K + K ++ +++ I +G A I+ + Sbjct: 63 DHEFATLKGITEDVTEIILNLKQVRFKRIVENEVNNEKIQISIKGKTEFRADMIEKATSA 122 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +++NP+ +IC LD A + +ELT+ KG GYVPA+ ++ ++ G I ID++++PIK V Sbjct: 123 FQIMNPELLICTLDPSAKLDIELTIGKGRGYVPAEENKPKDAVFGYIAIDSIFTPIKNVK 182 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKE 240 Y++E+ R Q DY+KL M + TDG+I E++V ASRIL L + I+F+ E Sbjct: 183 YSIENTRVEQKTDYEKLIMEVITDGTIHPEEAVKQASRILIQHLMIITDENISFDTKDTE 242 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ ++ ++L L +E+L+LSVR+ NCL+ I + +L+Q + ++++ NFG+ Sbjct: 243 KEDVVDEQTLQLRKILKTPLEDLDLSVRAFNCLKAAKINSLSELVQYEQEELMKFRNFGQ 302 Query: 301 KSLVEIKGVLGTMGLFLGMNLPD 323 KSL EI+ VL GL GM+L Sbjct: 303 KSLSEIEQVLNERGLHFGMDLSK 325 >gi|195952671|ref|YP_002120961.1| DNA-directed RNA polymerase subunit alpha [Hydrogenobaculum sp. Y04AAS1] gi|229564248|sp|B4U772|RPOA_HYDS0 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|195932283|gb|ACG56983.1| DNA-directed RNA polymerase, alpha subunit [Hydrogenobaculum sp. Y04AAS1] Length = 319 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 110/316 (34%), Positives = 179/316 (56%), Gaps = 7/316 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +E I P I + ++++N + EPL RG+ T+GNALRRVL+SS+ G+AITAV+I+ Sbjct: 2 KEFIFPMKIYW---EEKDKNYGRFVVEPLERGYGTTIGNALRRVLLSSIYGSAITAVKIE 58 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV HE S+I+GV ED+ II N+K + + + + + K PGVV A DI+T ++ Sbjct: 59 GVQHEFSTIEGVQEDVLQIIANLKNVRFDLKDSDLEILYLEKNAPGVVLASDIKTPPNVT 118 Query: 127 VLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++N D I ++ + ++ME+ + +G GYV + G + +DA +SPIK ++ Sbjct: 119 IINKDAYIATINSANTTLKMEIRIERGKGYVMSDEMEQ-IGEAGWVVLDADFSPIKVAAF 177 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R G DYDKL+ + T+G ++ + ++ A ++ + M N + E + Sbjct: 178 RVEATRVGDRTDYDKLTFELTTNGVVSPDTAIQQAVELIVKHMNMLTNISYEVPTLPEPM 237 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +EEL++S R+ N L+ + +G+L+Q TE ++ N GRK+L E Sbjct: 238 PPDELMEKLTF--SIEELDISQRALNSLKRIGVTTIGELVQLTEDELKSSKNIGRKALTE 295 Query: 306 IKGVLGTMGLFLGMNL 321 IK L MG LGMN+ Sbjct: 296 IKEALKNMGFSLGMNI 311 >gi|332181991|gb|AEE17679.1| DNA-directed RNA polymerase subunit alpha [Treponema brennaborense DSM 12168] Length = 350 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 128/349 (36%), Positives = 199/349 (57%), Gaps = 14/349 (4%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + L N A P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGITFEQLDS-NPNYGKFTAYPFETGFGTTVGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KR 109 IT+V+I D V H E +I V ED +++ ++K I L++ GD+ + +F + Sbjct: 60 ITSVRITSYDADNVPHVISSEFETIPNVVEDTLEVLNSLKQIRLRLPGDAEQETFLFEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GPG +T+ D +E+L+ D ++ + +A + E+ V G GY PA+ + + +G Sbjct: 120 GPGTITSNDFSR-EGLEILSKDMLVFTMMENAHLEFEVQVDLGRGYTPAEVNEHYIEIVG 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA+++PI KV Y +E R GQ DYDKL + I TDG+I+ ED++A A++I +D Sbjct: 179 TIPMDAIFTPIPKVKYAIEPCRVGQRNDYDKLVIEIWTDGTISPEDALAEAAKIAKDHFA 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F+NF + + +++ L V+ELELSVRS+NCL+ NI +G+L ++TE Sbjct: 239 IFVNFNDSEIGHDGELDEGDERIRQLLNTPVDELELSVRSSNCLKNANIRTIGELTKKTE 298 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 D+ + NFG+KSL EIK L L LGM +++ L+KK E+ Sbjct: 299 DDIAKTRNFGKKSLTEIKEKLLEWNLNLGMTDYSHLKDAV-NLSKKKEE 346 >gi|317503954|ref|ZP_07961962.1| DNA-directed RNA polymerase subunit alpha [Prevotella salivae DSM 15606] gi|315664980|gb|EFV04639.1| DNA-directed RNA polymerase subunit alpha [Prevotella salivae DSM 15606] Length = 330 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GY+PA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINKGRGYIPADENREFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P ++ Sbjct: 183 SVEPYRVEQKTDYDKLVIEVSTDGSIHPKDALKEAAKILIYHFMLFSDEKITLESPDQDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L ++ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTRLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|189308773|gb|ACD87088.1| RpoA [Vibrio sp. PP-204] Length = 295 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 130/297 (43%), Positives = 196/297 (65%), Gaps = 8/297 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV Sbjct: 2 IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQ 61 Query: 80 EDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 62 EDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEITNPEHVICHLT 121 Query: 139 V-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 +A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q Sbjct: 122 DGNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQ 181 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 182 RTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP--- 238 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 239 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKNVLA 295 >gi|255530541|ref|YP_003090913.1| DNA-directed RNA polymerase subunit alpha [Pedobacter heparinus DSM 2366] gi|255343525|gb|ACU02851.1| DNA-directed RNA polymerase, alpha subunit [Pedobacter heparinus DSM 2366] Length = 330 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 131/323 (40%), Positives = 200/323 (61%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQKPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+IKGV EDLT+IILN+K + K SGD ++V I G AGDI + N+ Sbjct: 63 SHEFSTIKGVVEDLTEIILNLKQVRFKKSGDAGDSEKVFILVNGQEQFVAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VICN++ + +ELT++KG GYVPA+ ++ + +G+I ID++++P+K V Y Sbjct: 123 EVLNPDFVICNMEKSVTLEVELTINKGRGYVPAEENKINDAVVGVIAIDSIFTPMKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI E+++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLILDISTDGSIHPEEALKEAAKILIQHFMLFSDENLVLESQAKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++++ + L L ++ +L+LSVR+ NCL+ +I + DL+ ADML+ NFG+K Sbjct: 243 TKEVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRTLADLVSYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + L GMNL + Sbjct: 303 SLTEIQELVKSKSLSFGMNLSKF 325 >gi|284929584|ref|YP_003422106.1| DNA-directed RNA polymerase subunit alpha [cyanobacterium UCYN-A] gi|284810028|gb|ADB95725.1| DNA-directed RNA polymerase subunit alpha [cyanobacterium UCYN-A] Length = 314 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 102/310 (32%), Positives = 169/310 (54%), Gaps = 11/310 (3%) Query: 16 EYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + + + EPL RG T+GNALRRVL+++L G A+TA++I GV HE Sbjct: 5 QIECVESKTQKNQSQYSKFVLEPLERGQGITVGNALRRVLLANLEGTAVTAIRIGGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I GV ED+ +IILN+K I LK D + + G VTA +++E++NP Sbjct: 65 FATIPGVREDVLEIILNMKEIVLKSHTDQIQIGRLVAVGAAHVTAAQFDLPSEVEIINPT 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L A + ME + KG GYVP + + + + + IDA++ P+ KV+Y+VE+ R Sbjct: 125 QPIATLTDGAKLEMEFRIEKGMGYVPVERGKEKQGALDFLQIDAVFMPVTKVNYSVENIR 184 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + D L + I T+GS+ +++++ A+ +L + N +++ + Sbjct: 185 GERNEVKDSLMLEIWTNGSVNPKEALSQATEVLVNLFSPLKNIN----QIETVVPEYPDE 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 NP +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 241 ENPQSQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL- 299 Query: 312 TMGLFLGMNL 321 LG+ L Sbjct: 300 --QKRLGITL 307 >gi|328949253|ref|YP_004366590.1| DNA-directed RNA polymerase subunit alpha [Treponema succinifaciens DSM 2489] gi|328449577|gb|AEB15293.1| DNA-directed RNA polymerase subunit alpha [Treponema succinifaciens DSM 2489] Length = 348 Score = 309 bits (793), Expect = 3e-82, Method: Composition-based stats. Identities = 125/330 (37%), Positives = 189/330 (57%), Gaps = 12/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + L N A P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGIIFEHLEN-NPNYGKFTAYPFEPGFGTTVGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KR 109 I++V+I DGV H E +I + ED +++ ++K I L++ D + + + Sbjct: 60 ISSVRITSYDADGVPHVISSEFETIPNISEDTLEVLNSLKQIRLRLPRDVEQETFFYEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GPG V + D+ +E+++ D I + A + +E V G GYVPA+ + + +G Sbjct: 120 GPGTVKSDDLAKEGQLEIMSKDLEIFTMMEGAHLEIEFQVDLGRGYVPAEVNEHYIEIVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +D +++P+ KV Y++E R GQ DYDKL + I TDGSIT ED++A A++I +D Sbjct: 180 TIAMDCIFTPVPKVKYSIEPCRVGQRNDYDKLILEIWTDGSITPEDALAEAAKIAKDYFA 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F+NF E + ++++ L VEELELSVRS+NCL+ NI +G+L ++TE Sbjct: 240 IFVNFNESEYSGSDELDEGDEKIRQLLNTSVEELELSVRSSNCLKNANIRTIGELTKKTE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 D+ + NFG+KSL EIK L GL LGM Sbjct: 300 DDITKTRNFGKKSLEEIKAKLEEHGLTLGM 329 >gi|15605668|ref|NP_213043.1| DNA-directed RNA polymerase subunit alpha [Aquifex aeolicus VF5] gi|6226037|sp|O66483|RPOA_AQUAE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2982817|gb|AAC06440.1| RNA polymerase alpha subunit [Aquifex aeolicus VF5] Length = 317 Score = 309 bits (792), Expect = 3e-82, Method: Composition-based stats. Identities = 119/319 (37%), Positives = 182/319 (57%), Gaps = 8/319 (2%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E I P+ I + ++ + ++ EPL RGF T+GN+LRRVL+SS+ G AITAV+I Sbjct: 2 LNEFIYPDKIFW---EEKTDTYGRLVVEPLERGFGTTVGNSLRRVLLSSISGTAITAVKI 58 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVND 124 G+ HE S+I+GV ED ++I N+K I M GDS + + + K+G G V A DI+T + Sbjct: 59 YGIYHEFSAIEGVQEDAIELIANLKKIKFLMKGDSDVEILYLQKKGEGEVKASDIKTPPN 118 Query: 125 IEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +E+LNPD I + + + +E+ V +G GYVP + +G I +DA +SP+KKV Sbjct: 119 VEILNPDQYIATITDPNKELNIEIRVERGRGYVPVEEMEA-IGEVGWILVDADFSPVKKV 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 + V++ R G+ Y++L++ I T+G T + + A IL+ + N K V Sbjct: 178 GFRVDNVRVGKKSTYERLTLEIFTNGIKTPDQCMQEAIEILKKHYELLENIFTEKPTV-- 235 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V L +EEL++S R+ N L+ I +GDL++ TE ++ N GRK+L Sbjct: 236 PQKVAVDELAEKLSLSIEELDISQRALNSLKRIGITTIGDLVRMTEDELKSTKNIGRKAL 295 Query: 304 VEIKGVLGTMGLFLGMNLP 322 EIK L +GL LGMN+ Sbjct: 296 AEIKEALHKLGLELGMNIE 314 >gi|110639509|ref|YP_679718.1| DNA-directed RNA polymerase subunit alpha [Cytophaga hutchinsonii ATCC 33406] gi|119366677|sp|Q11QD8|RPOA_CYTH3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110282190|gb|ABG60376.1| DNA-directed RNA polymerase subunit alpha [Cytophaga hutchinsonii ATCC 33406] Length = 329 Score = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 120/322 (37%), Positives = 193/322 (59%), Gaps = 9/322 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P + V+ + ++ L +PL +G+ T+GNALRR+L+SSL G AIT +++ GV Sbjct: 6 FQMPEKV---VMEKADDFHGLFEFKPLEKGYGVTIGNALRRILLSSLEGYAITGIKVPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDI-QTVNDIE 126 LHE S+I GV ED+T+IILN+K + K D ++ + + + AGDI + + + Sbjct: 63 LHEFSTIPGVREDVTEIILNLKQVRFKKISDVNENKIVVSIKKQASFKAGDIAKFTSAYQ 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNP+ +ICN+D ++ +ELT+ KG GY+PA+ ++ G I IDA+++PIK V Y+ Sbjct: 123 ILNPELLICNVDSNSNFDIELTLEKGRGYLPAEENKPAEQIFGYIPIDAIFTPIKNVKYS 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVK 242 VE+ R Q DY+KL + I TDGSI ED++ A+ IL +F + FE K E + Sbjct: 183 VENTRVEQRTDYEKLILEILTDGSIHPEDALKGAANILIKHFMLFSDQTMTFEAVKAEEE 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E ++ + L L + +L+LSVR+ NCL+ +I +G+L +DM++ NFG+KS Sbjct: 243 ETVDEEFLHMRKLLKTSLADLDLSVRAYNCLKAADIKTLGELATLDISDMMKFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L E++ ++ L GM+ + Sbjct: 303 LNELEQLIIDKNLSFGMDTAKY 324 >gi|294674744|ref|YP_003575360.1| DNA-directed RNA polymerase subunit alpha [Prevotella ruminicola 23] gi|294472989|gb|ADE82378.1| DNA-directed RNA polymerase, alpha subunit [Prevotella ruminicola 23] Length = 330 Score = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + ++ Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQIVEEFENEKVSITVENSTEFKAGDISKYLSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDITINKGRGYVPADENREFCTDVNVIAIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I+ E + E Sbjct: 183 AVEPYRVEQKTDYDKLVLEVTTDGSIHPKDALKEAAKILIYHFMLFSDEKISLESSETES 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L ++ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEILHMRQLLKTRLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|179184670|gb|ACB78156.1| RNA polymerase alpha subunit [Vibrio rarus] Length = 301 Score = 309 bits (792), Expect = 4e-82, Method: Composition-based stats. Identities = 131/303 (43%), Positives = 196/303 (64%), Gaps = 8/303 (2%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I VLHE S+ +GV Sbjct: 2 IEQINATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIGSVLHEYSTKEGVQ 61 Query: 80 EDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 62 EDILEILLNLKGLAVRVAEGKDDVLITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLT 121 Query: 139 VD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 D A + M + V +G GYVPA H + PIG + +DA YSP+ +++Y+V +AR Q Sbjct: 122 DDNADIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDQIAYSVAAARVEQ 181 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + + + F+P Sbjct: 182 RTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVQEPIEEK---PEFDP 238 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + G Sbjct: 239 ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRG 298 Query: 315 LFL 317 L Sbjct: 299 XSL 301 >gi|300728416|ref|ZP_07061778.1| DNA-directed RNA polymerase, alpha subunit [Prevotella bryantii B14] gi|299774335|gb|EFI70965.1| DNA-directed RNA polymerase, alpha subunit [Prevotella bryantii B14] Length = 330 Score = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 125/323 (38%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI V+I GV Sbjct: 6 FQKPDKV---VMLEANDKFGRFEFRPLEPGFGVTVGNALRRMLLSSLEGYAINTVKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K I K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQIRFKQVVEEFENEKVSIIVENSTEFKAGDISKHLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +R++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDPKASMRIDLTINKGRGYVPADENRQFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL++ + TDGSI +D++ A++IL +F I E P ++ Sbjct: 183 SVEPYRVEQKTDYDKLTIEVTTDGSIHPKDALKEAAKILIYHFMLFSDEKITLENPDQDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|281422225|ref|ZP_06253224.1| DNA-directed RNA polymerase, alpha subunit [Prevotella copri DSM 18205] gi|281403730|gb|EFB34410.1| DNA-directed RNA polymerase, alpha subunit [Prevotella copri DSM 18205] Length = 331 Score = 309 bits (791), Expect = 4e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G A+ ++I GV Sbjct: 6 FQKPDKV---VMLEADNKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAVNTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINKGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + I TDGSI+ +D++ A++IL +F I E +E Sbjct: 183 AVEPYRVEQKTDYDKLVLEITTDGSISPKDALKEAAKILIYHFMLFSDEKITLETQDQES 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L ++ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTRLVDMNLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|86141166|ref|ZP_01059712.1| DNA-directed RNA polymerase alpha subunit [Leeuwenhoekiella blandensis MED217] gi|85831725|gb|EAQ50180.1| DNA-directed RNA polymerase alpha subunit [Leeuwenhoekiella blandensis MED217] Length = 317 Score = 308 bits (790), Expect = 5e-82, Method: Composition-based stats. Identities = 122/310 (39%), Positives = 186/310 (60%), Gaps = 7/310 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + PL G+ T+GNALRRVL+SSL G AIT+V+++GV HE S+I GV ED Sbjct: 3 DSTDFEGKFEFRPLEPGYGLTVGNALRRVLLSSLEGFAITSVRVEGVDHEFSTIAGVVED 62 Query: 82 LTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLD 138 T+IILN+K + K D ++ VTI +TAGD Q ++ ++LNPD VI N++ Sbjct: 63 FTEIILNLKQVRFKRQIDEIDNETVTISVSDKEQLTAGDFQKFISGFQILNPDLVIANME 122 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME+TV KG GYVPA+ ++ +N P+G I D++Y+PIK V Y++E+ R Q DY Sbjct: 123 KSVNINMEITVEKGRGYVPAEENKKQNAPVGTIFTDSIYTPIKNVKYSIENYRVEQKTDY 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNP 254 +KL I TDGSI +D++ A++ L +F I E + E + +SL Sbjct: 183 EKLVFEIITDGSIHPKDALTEAAKTLIHHFMLFSDERITLEADEIAQTETYDEESLHMRQ 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+ +++LSVR+ NCL+ + +GDL+ + D+++ NFG+KSL E++ ++ G Sbjct: 243 LLKTKLVDMDLSVRALNCLKAAEVETLGDLVSYNKNDLMKFRNFGKKSLTELEELVNVKG 302 Query: 315 LFLGMNLPDW 324 L GM+L + Sbjct: 303 LNFGMDLSKY 312 >gi|281357932|ref|ZP_06244417.1| DNA-directed RNA polymerase, alpha subunit [Victivallis vadensis ATCC BAA-548] gi|281315590|gb|EFA99618.1| DNA-directed RNA polymerase, alpha subunit [Victivallis vadensis ATCC BAA-548] Length = 338 Score = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 134/331 (40%), Positives = 191/331 (57%), Gaps = 4/331 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P +I + E IA P GF HTLGN+LRRVL+SSL GAAI +V+IDG Sbjct: 7 FPMPKSI-VVDDATVTETYAKFIAAPFQSGFGHTLGNSLRRVLLSSLEGAAICSVRIDGA 65 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+ V ED+T+I+LN+K + L + + K + I K G VTA DI + +EVL Sbjct: 66 KHEFDSLDNVVEDVTEIVLNLKCVRLNLHAEGPKTLEIRKDKAGKVTAADIVCDSTVEVL 125 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD VIC LD R E+ V KG GY+PA+ + IG I +D L+SP+ +V+Y V Sbjct: 126 NPDQVICTLDKSLPFRAEIEVIKGKGYLPAEKNTAP-RSIGTIPVDCLFSPVTRVNYQVG 184 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +AR G+ + D L + I TDG I+ ++++ A+RIL+D L F+ + +K+V Sbjct: 185 AARVGEETEMDSLELEIWTDGRISPQNALEEAARILRDHLQPFMGNQVVEKDVVLTEEE- 243 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L VE L+LSVR+ NCL NI +G+L +TE+ ML+ NFG+KSL EIK Sbjct: 244 -TKMFKLLSHDVEILDLSVRAMNCLNSANIKLIGELCTKTESRMLKYRNFGKKSLDEIKE 302 Query: 309 VLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + +GL LGM+ D ++E + + + Sbjct: 303 KIEKLGLELGMSFSDRLMAALEAESVRVRSE 333 >gi|153805983|ref|ZP_01958651.1| hypothetical protein BACCAC_00228 [Bacteroides caccae ATCC 43185] gi|149130660|gb|EDM21866.1| hypothetical protein BACCAC_00228 [Bacteroides caccae ATCC 43185] Length = 330 Score = 308 bits (790), Expect = 6e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 SVENFRVEQKTDYEKLVLEISTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDTDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|34541514|ref|NP_905993.1| DNA-directed RNA polymerase subunit alpha [Porphyromonas gingivalis W83] gi|188995705|ref|YP_001929957.1| DNA-directed RNA polymerase subunit alpha [Porphyromonas gingivalis ATCC 33277] gi|41688626|sp|Q7MTP0|RPOA_PORGI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|34397831|gb|AAQ66892.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas gingivalis W83] gi|188595385|dbj|BAG34360.1| DNA-directed RNA polymerase alpha subunit [Porphyromonas gingivalis ATCC 33277] Length = 330 Score = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP N+ ++ + ++ +PL G+ T+GNALRR+L+SSL G AITA++I+GV Sbjct: 6 FQKPENV---LMMETSDSIAKFEFKPLEPGYGITIGNALRRILLSSLEGFAITAIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE ++I GV ED+T+IILN+K + K ++ TI V AGD+ +++ Sbjct: 63 EHEFATIPGVLEDVTNIILNLKQVRFKQIVPNADVEKATIVISNSEVFRAGDLNAQLSNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLN + VIC+LD A + ME +++KG GYV A+ +R E++ + I ID++Y+PI+ V Y Sbjct: 123 EVLNSNLVICHLDKSATLTMEFSINKGRGYVSAEENRAEHNELSTIAIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL M + TDGSI D++ A++IL +F I E Sbjct: 183 AVENFRVEQKTDYEKLLMEVTTDGSIRPVDALREAAQILISHFSLFAENKIAIEYVDIVD 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + SL L K+ L+LSVR+ NCL + +GDL+ + +D++++ NFG+K Sbjct: 243 TDEFDEDSLHMRQLLKSKLSGLDLSVRALNCLNAAGVDTLGDLVSLSRSDLMKIRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L T+ L GM++ + Sbjct: 303 SLTELDELLATLNLSFGMDISKY 325 >gi|189465444|ref|ZP_03014229.1| hypothetical protein BACINT_01797 [Bacteroides intestinalis DSM 17393] gi|224537843|ref|ZP_03678382.1| hypothetical protein BACCELL_02730 [Bacteroides cellulosilyticus DSM 14838] gi|189437718|gb|EDV06703.1| hypothetical protein BACINT_01797 [Bacteroides intestinalis DSM 17393] gi|224520529|gb|EEF89634.1| hypothetical protein BACCELL_02730 [Bacteroides cellulosilyticus DSM 14838] Length = 330 Score = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E R Q DYDKL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QIEPFRVEQKTDYDKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|29348110|ref|NP_811613.1| DNA-directed RNA polymerase subunit alpha [Bacteroides thetaiotaomicron VPI-5482] gi|253569618|ref|ZP_04847028.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 1_1_6] gi|298386206|ref|ZP_06995763.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 1_1_14] gi|41688697|sp|Q8A4A2|RPOA_BACTN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|29340013|gb|AAO77807.1| DNA-directed RNA polymerase alpha chain [Bacteroides thetaiotaomicron VPI-5482] gi|251841637|gb|EES69718.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 1_1_6] gi|298261434|gb|EFI04301.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 1_1_14] Length = 330 Score = 308 bits (790), Expect = 7e-82, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENFRVEQKTDYEKLVLEISTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDTDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|270265489|emb|CBI68381.1| RNA polymerase alpha-subunit [Vibrio tapetis] gi|270265491|emb|CBI68382.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 299 Score = 308 bits (789), Expect = 7e-82, Method: Composition-based stats. Identities = 131/301 (43%), Positives = 196/301 (65%), Gaps = 8/301 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 2 LVDIEQVSATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 61 Query: 77 GVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC Sbjct: 62 GVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVIC 121 Query: 136 NLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Sbjct: 122 HLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAAR 181 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + +++ + P Sbjct: 182 VEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEKEEKPEFDP 241 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G KSL EIK VL Sbjct: 242 ---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGNKSLTEIKDVLA 298 Query: 312 T 312 + Sbjct: 299 S 299 >gi|289523340|ref|ZP_06440194.1| DNA-directed RNA polymerase, alpha subunit [Anaerobaculum hydrogeniformans ATCC BAA-1850] gi|289503032|gb|EFD24196.1| DNA-directed RNA polymerase, alpha subunit [Anaerobaculum hydrogeniformans ATCC BAA-1850] Length = 340 Score = 308 bits (789), Expect = 8e-82, Method: Composition-based stats. Identities = 112/306 (36%), Positives = 173/306 (56%), Gaps = 6/306 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + + + EPL RG+ TLGNA+RRVL+SS+ GAA++A++IDGVLHE S++ G Sbjct: 4 IHIEESSSGYGRIRIEPLERGYGVTLGNAIRRVLLSSIPGAAVSAIRIDGVLHEFSTVPG 63 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ +IILNIK + + D + + + GP VVT DI +++E NP+ IC L Sbjct: 64 VMEDVLEIILNIKKLAVVSHSDDVRMLRLEAEGPKVVTVADIIPDSEVEFSNPEAYICTL 123 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + M+L V +G GY+ R PI ++ +DA++SP+ +V+Y V +AR GQ D Sbjct: 124 EEGHKLEMDLYVERGVGYLTMDRPRPNYLPIDVLLVDAVFSPVLRVNYNVGAARVGQRTD 183 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLG------MFINFEEPKKEVKEDINVKSLP 251 Y+ L + + T+ ++ + A +IL G + EV E + Sbjct: 184 YESLLIELWTNETVEPAKAFLEAVKILNQYFGHIASLLLKEPVSPVAAEVPEAVVEAVAE 243 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P L + + +LELS+RS NCL + +GDL+Q T D+L++ N G+ SL EI+ L Sbjct: 244 EDPILSRPIRDLELSIRSENCLLRAGVRTIGDLVQYTRDDLLKIRNLGKISLKEIEEKLD 303 Query: 312 TMGLFL 317 GL L Sbjct: 304 IFGLSL 309 >gi|159027085|emb|CAO89270.1| rpoA [Microcystis aeruginosa PCC 7806] Length = 313 Score = 308 bits (789), Expect = 8e-82, Method: Composition-based stats. Identities = 97/308 (31%), Positives = 166/308 (53%), Gaps = 8/308 (2%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 +E + + + + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++ Sbjct: 9 VEAKTYKNQSQ-YSKFVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFAT 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 ++GV ED+ +++LN+K I LK + + + GP V A +++E+++ + + Sbjct: 68 VEGVREDVMELMLNMKEITLKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYV 127 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A + ME V KG GY + E + + ID+++ P+ KV+Y+VE R Sbjct: 128 ATLAEGAKLEMEFRVEKGKGYRAIDRSKEEATSLDFLQIDSIFMPVTKVNYSVEDIRSES 187 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D+L + I T+GSI +++++ A+ +L + + ++ N N Sbjct: 188 GQARDRLLLEIWTNGSINPKEALSQAADMLVNLFNPLKDLN----ALESSGNFDDQEINQ 243 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 244 ENQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---Q 300 Query: 315 LFLGMNLP 322 LG+ LP Sbjct: 301 KRLGITLP 308 >gi|288925688|ref|ZP_06419620.1| DNA-directed RNA polymerase, alpha subunit [Prevotella buccae D17] gi|315606477|ref|ZP_07881492.1| DNA-directed RNA polymerase subunit alpha [Prevotella buccae ATCC 33574] gi|288337626|gb|EFC75980.1| DNA-directed RNA polymerase, alpha subunit [Prevotella buccae D17] gi|315251883|gb|EFU31857.1| DNA-directed RNA polymerase subunit alpha [Prevotella buccae ATCC 33574] Length = 330 Score = 308 bits (789), Expect = 9e-82, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++L ++KG GYVPA+ +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDTKASMQIDLNINKGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++ L +F I E P ++ Sbjct: 183 AVEPYRVEQKTDYDKLVIEVTTDGSIHPKDALKEAAKTLIYHFMLFSDEKITLENPDQDN 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L ++ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTRLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L + L G ++ + Sbjct: 303 SLSELDDLLEGLNLSFGTDISKY 325 >gi|161511875|emb|CAP16948.1| DNA-directed RNA polymerase subunit alpha [Pediococcus siamensis] Length = 275 Score = 308 bits (789), Expect = 9e-82, Method: Composition-based stats. Identities = 121/269 (44%), Positives = 175/269 (65%), Gaps = 2/269 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E EN + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+G Sbjct: 3 IHKIDENENYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 63 VVEDVTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTV 122 Query: 138 DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LT G GYV A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 123 ADGVTFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQR 182 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 DYDKL++ + TDGSI+ ++ +L+++IL + L +F+N + +E + + + Sbjct: 183 NDYDKLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQEAEIMVEKEETHKEKM 242 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDL 284 L +EEL+LSVRS NCL+ I + +L Sbjct: 243 LEMSIEELDLSVRSYNCLKRAGINTVQEL 271 >gi|258648132|ref|ZP_05735601.1| DNA-directed RNA polymerase, alpha subunit [Prevotella tannerae ATCC 51259] gi|260852013|gb|EEX71882.1| DNA-directed RNA polymerase, alpha subunit [Prevotella tannerae ATCC 51259] Length = 330 Score = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 121/323 (37%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---IMLENDDKFGKFEFRPLESGFGVTIGNALRRILLSSLEGFAINTIKIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +SI GV ED+T+IILN+K + K + +++V++ AGDI + ++ Sbjct: 63 EHEFASIPGVREDVTNIILNLKQVRFKHIVEELENEKVSLTISNATEFRAGDIGKHLSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VI +LD A + +ELT++KG GYVPA+ +R + I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVIAHLDSKATISIELTINKGRGYVPAEENRDACVEVTQIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I E+ +E Sbjct: 183 VVEPFRVEQKTDYDKLVLEVTTDGSIQPKDALKEAAKILIYHFMLFSDEKITMEDATQED 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L +K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQVLKQKLSDMNLSVRALNCLKAADVETLGDLVQFNKNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLAGLNLQFGTDISKY 325 >gi|166367995|ref|YP_001660268.1| DNA-directed RNA polymerase subunit alpha [Microcystis aeruginosa NIES-843] gi|166090368|dbj|BAG05076.1| RNA polymerase alpha subunit [Microcystis aeruginosa NIES-843] Length = 313 Score = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 97/308 (31%), Positives = 166/308 (53%), Gaps = 8/308 (2%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 +E + + + + EPL RG T+GNALRR+L+S+L GAA+TA++I GV HE ++ Sbjct: 9 VEAKTYKNQSQ-YSKFVLEPLERGQGTTVGNALRRILISNLEGAAVTALRIAGVNHEFAT 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 ++GV ED+ +++LN+K I LK + + + GP V A +++E+++ + + Sbjct: 68 VQGVREDVMELMLNMKEIILKSYTNQTQIGRLVATGPATVVAAQFDLPSEVEIVDRNQYV 127 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L A + ME V KG GY + E + + ID+++ P+ KV+Y+VE R Sbjct: 128 ATLAEGAKLEMEFRVEKGKGYRAIDRSKDEATSLDFLQIDSIFMPVTKVNYSVEDIRSES 187 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D+L + I T+GSI +++++ A+ +L + + ++ N N Sbjct: 188 GQARDRLLLEIWTNGSINPKEALSQAADMLVNLFNPLKDLN----ALESSSNFDDQEINQ 243 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L Sbjct: 244 ENQIPIEELQLSVRAYNCLKRAQINTVADLLDYSQEDLLEIKNFGQKSAEEVIEAL---Q 300 Query: 315 LFLGMNLP 322 LG+ LP Sbjct: 301 KRLGITLP 308 >gi|323344663|ref|ZP_08084887.1| DNA-directed RNA polymerase subunit alpha [Prevotella oralis ATCC 33269] gi|323093933|gb|EFZ36510.1| DNA-directed RNA polymerase subunit alpha [Prevotella oralis ATCC 33269] Length = 330 Score = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 195/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMVEADDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTIRIGGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LDV A +++++T++KG GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDVKASMQIDITINKGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI +D++ A++IL +F I E +E Sbjct: 183 SVEPYRVEQKTDYDKLVLEVTTDGSIYPKDALKEAAKILIYHFMLFSDEKITLESSDQEN 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTKLIDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLSFGTDISKY 325 >gi|145577845|gb|ABP87373.1| RpoA [Vibrio ruber] Length = 294 Score = 308 bits (788), Expect = 1e-81, Method: Composition-based stats. Identities = 131/296 (44%), Positives = 197/296 (66%), Gaps = 8/296 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 2 LVDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 61 Query: 77 GVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC Sbjct: 62 GVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVIC 121 Query: 136 NLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L +A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Sbjct: 122 HLTDGNAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAAR 181 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P Sbjct: 182 VEQRTDLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP 241 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 242 ---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 294 >gi|256544533|ref|ZP_05471906.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus vaginalis ATCC 51170] gi|256399858|gb|EEU13462.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus vaginalis ATCC 51170] Length = 317 Score = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 115/309 (37%), Positives = 193/309 (62%), Gaps = 5/309 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + +E N + PL RG+ T+GN++RR+L+SSL G++++ + IDGVLHE Sbjct: 7 TKIEILDIDEET-NYGKFVLYPLERGYGTTIGNSMRRMLLSSLPGSSVSKILIDGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ ++ILNIKGI++K + + GP +VTA DI+T I+V NPDH Sbjct: 66 STIPGVVEDVPELILNIKGIDIKKHTKEDITLFLDIEGPKIVTAKDIKTDAQIDVANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 + ++ + + L V+ G GY A+ ++ + DPIG I ID+ ++P+K V++TVE+ R Sbjct: 126 YLATVNDKGRLFIALDVTDGKGYRVAEQNKKDTDPIGAIAIDSSFTPVKSVNFTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI----NFEEPKKEVKEDINVK 248 G+ DYDKL + + TDG+IT +++++ + IL + + F P+ E +E ++ Sbjct: 186 GESTDYDKLILEVWTDGTITPQEALSEGASILMEDIRFFKDLPGQQFPPEDEEEEIEEIE 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L K +EEL+LS+RS NCL+ +G++I+++E+++ + NFG+KSL E+ Sbjct: 246 EDNNQMELSKTIEELDLSLRSFNCLKRAGYNTVGEIIEKSESELKDIKNFGKKSLEEVID 305 Query: 309 VLGTMGLFL 317 + ++GL L Sbjct: 306 KIHSLGLSL 314 >gi|312889340|ref|ZP_07748894.1| DNA-directed RNA polymerase subunit alpha [Mucilaginibacter paludis DSM 18603] gi|311298217|gb|EFQ75332.1| DNA-directed RNA polymerase subunit alpha [Mucilaginibacter paludis DSM 18603] Length = 330 Score = 307 bits (787), Expect = 1e-81, Method: Composition-based stats. Identities = 130/323 (40%), Positives = 201/323 (62%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQKPDKV---IMQKSNDFDGTFEFRPLEPGFGITIGNALRRILLSSLEGYAITSVRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+IKGV ED+T+IILN+K + +K SG+ +++ + G +AGDI + N+ Sbjct: 63 NHEFSTIKGVVEDVTEIILNLKQVRMKKSGESGDSEKIFVIINGQDTFSAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 VLNPD VICN+D + +E+TV KG GYVP++ ++ + +G+I ID++Y+PIK V Y Sbjct: 123 TVLNPDLVICNMDSSVTLEIEITVGKGRGYVPSEENKNPDAMVGVIAIDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGS+ ED++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLVLDIATDGSVHPEDALKEAAKILIQHFMLFSDENMMLEAQAKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++++ + L L ++ +L+LSVR+ NCL+ +I + DL+ ADML+ NFG+K Sbjct: 243 TKEVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRSLADLVSYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQDLVKSKGLSFGMNLSKF 325 >gi|160883038|ref|ZP_02064041.1| hypothetical protein BACOVA_01001 [Bacteroides ovatus ATCC 8483] gi|237717426|ref|ZP_04547907.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D1] gi|237718716|ref|ZP_04549197.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 2_2_4] gi|255690030|ref|ZP_05413705.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides finegoldii DSM 17565] gi|260175443|ref|ZP_05761855.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D2] gi|262406191|ref|ZP_06082741.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_22] gi|293372093|ref|ZP_06618484.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides ovatus SD CMC 3f] gi|294644084|ref|ZP_06721861.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides ovatus SD CC 2a] gi|294806544|ref|ZP_06765383.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides xylanisolvens SD CC 1b] gi|298483091|ref|ZP_07001272.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. D22] gi|299144597|ref|ZP_07037665.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_23] gi|315923672|ref|ZP_07919912.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D2] gi|156111510|gb|EDO13255.1| hypothetical protein BACOVA_01001 [Bacteroides ovatus ATCC 8483] gi|229443409|gb|EEO49200.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D1] gi|229451848|gb|EEO57639.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 2_2_4] gi|260624637|gb|EEX47508.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides finegoldii DSM 17565] gi|262357066|gb|EEZ06156.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_22] gi|292632885|gb|EFF51472.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides ovatus SD CMC 3f] gi|292640608|gb|EFF58849.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides ovatus SD CC 2a] gi|294446239|gb|EFG14867.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides xylanisolvens SD CC 1b] gi|295085402|emb|CBK66925.1| DNA-directed RNA polymerase subunit alpha [Bacteroides xylanisolvens XB1A] gi|298270835|gb|EFI12415.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. D22] gi|298515088|gb|EFI38969.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_23] gi|313697547|gb|EFS34382.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D2] Length = 330 Score = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENFRVEQKTDYEKLVLEISTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDTDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|254424496|ref|ZP_05038214.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. PCC 7335] gi|196191985|gb|EDX86949.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. PCC 7335] Length = 315 Score = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 98/304 (32%), Positives = 168/304 (55%), Gaps = 8/304 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 ++ ++ + + EPL R T+GNALRRVL+S+L G A+T+V+I G HE S+I GV Sbjct: 12 IIEDDQSQFSRFVIEPLGRSQGTTVGNALRRVLLSNLEGTAVTSVRIAGASHEFSTIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN+K LK + + +GP VTA + +++E+++ D I ++ Sbjct: 72 REDVLDILLNMKETVLKSYSAQPQIGRLVVQGPAKVTAANFDLPSEVELISTDRYIASVA 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME + +G GY R E + + IDA++ P++KV+Y+VE+ + + Sbjct: 132 AGHKLEMEFRIERGKGYKAIDRSREETGGVEFMQIDAVFMPVRKVNYSVENFIDPEGFPK 191 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+L M I T+GS+T + +++ A+ +L D ++ + + +P Sbjct: 192 DRLVMEIWTNGSLTAQQAMSEAAALLVDMFNPL-----KDVTLEPKRDEDTKEEDPTYQI 246 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVR+ NCL+ I + DL+ ++ D+L + NFG+KS E+ L + LG Sbjct: 247 PIEELQLSVRAYNCLKRAQINAVSDLLDYSQEDLLEIKNFGQKSAEEVVEAL---QIHLG 303 Query: 319 MNLP 322 + LP Sbjct: 304 IMLP 307 >gi|325972636|ref|YP_004248827.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta sp. Buddy] gi|324027874|gb|ADY14633.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta sp. Buddy] Length = 350 Score = 307 bits (787), Expect = 2e-81, Method: Composition-based stats. Identities = 129/330 (39%), Positives = 193/330 (58%), Gaps = 13/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP I + E N IA P RGF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGITFEH-SAVEPNYGKFIAYPFERGFGTTIGNTLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 +TAV+ DGV H E + GV ED+ DII +K + ++M DS + I + Sbjct: 60 VTAVKFTSFNEDGVPHLISSEYEQLPGVREDIADIIAALKKLQIRMPEDSEGTNLLIECK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GPG+VT + + +E+ N D V+ + DA + ME+ + G GYVP++ + + IG Sbjct: 120 GPGIVTGANFERD-QVEITNKDLVLFTMMDDANIEMEVQIDLGRGYVPSEINEKYVEEIG 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I IDA +SP+ +V Y++E R G DYDKL++ I TDG+I ++++A A++I ++ Sbjct: 179 TIPIDATFSPVTRVKYSIEPTRVGYRSDYDKLTLEIYTDGTIAPQNALAEAAKIAKEYFQ 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF+E ++++ + L VEELEL+VRS+NCL+ NI +GDL ++TE Sbjct: 239 IFINFDETLISNNDEVDEEEERVRKILNTSVEELELTVRSSNCLKNANIRTIGDLTKKTE 298 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ + NFG+KSL EIK L L LGM Sbjct: 299 EEIAKTRNFGKKSLQEIKEKLKEWNLSLGM 328 >gi|53715439|ref|YP_101431.1| DNA-directed RNA polymerase subunit alpha [Bacteroides fragilis YCH46] gi|60683411|ref|YP_213555.1| DNA-directed RNA polymerase subunit alpha [Bacteroides fragilis NCTC 9343] gi|253566697|ref|ZP_04844150.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 3_2_5] gi|255011673|ref|ZP_05283799.1| DNA-directed RNA polymerase subunit alpha [Bacteroides fragilis 3_1_12] gi|265767575|ref|ZP_06095241.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_16] gi|313149509|ref|ZP_07811702.1| RNA polymerase subunit alpha [Bacteroides fragilis 3_1_12] gi|61215863|sp|Q64NN5|RPOA_BACFR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|81313537|sp|Q5L8D6|RPOA_BACFN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|52218304|dbj|BAD50897.1| DNA-directed RNA polymerase alpha chain [Bacteroides fragilis YCH46] gi|60494845|emb|CAH09652.1| putative DNA-directed RNA polymerase alpha chain [Bacteroides fragilis NCTC 9343] gi|251944869|gb|EES85344.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 3_2_5] gi|263252880|gb|EEZ24392.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 2_1_16] gi|301164896|emb|CBW24457.1| putative DNA-directed RNA polymerase alpha chain [Bacteroides fragilis 638R] gi|313138276|gb|EFR55636.1| RNA polymerase subunit alpha [Bacteroides fragilis 3_1_12] Length = 330 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADAKFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|254701949|ref|ZP_05163777.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 267 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 178/267 (66%), Positives = 222/267 (83%), Gaps = 1/267 (0%) Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 SSI GV ED+TDI+LNIK I ++M G+ KR+ + K GPGVVTAGDIQTV D+E+LNP+H Sbjct: 1 SSIPGVREDVTDIVLNIKEIAIRMEGEGPKRMVVRKEGPGVVTAGDIQTVGDVEILNPEH 60 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VIC LD A +RME TV+ G GYVPA +R E+ PIGLI +D+LYSP++KVSY +E+ RE Sbjct: 61 VICTLDEGAEIRMEFTVNTGKGYVPADRNRAEDAPIGLIPVDSLYSPVRKVSYKIENTRE 120 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQVLDYDKL++ I+T+GS+TGED+VA A+RILQDQL +F+NFEEP+KE ++ V L F Sbjct: 121 GQVLDYDKLTLNIETNGSVTGEDAVAYAARILQDQLSIFVNFEEPQKEAPQEQ-VAELAF 179 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 NPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL + Sbjct: 180 NPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLAS 239 Query: 313 MGLFLGMNLPDWPPESIEELAKKYEDK 339 MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 240 MGLHLGMEIPAWPPENIEDLAKRYEDQ 266 >gi|313677146|ref|YP_004055142.1| DNA-directed RNA polymerase subunit alpha [Marivirga tractuosa DSM 4126] gi|312943844|gb|ADR23034.1| DNA-directed RNA polymerase subunit alpha [Marivirga tractuosa DSM 4126] Length = 329 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 111/322 (34%), Positives = 187/322 (58%), Gaps = 9/322 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P + + + ++ L +PL +G+ T+GNALRR+L+SSL G AIT ++I GV Sbjct: 6 FQMPEKV---AMEKADDFHGLFTFKPLEKGYGVTVGNALRRILLSSLEGYAITGIKIPGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDI-QTVNDIE 126 LHE S+++GV ED++++ILN+K + K ++ ++ I + AGDI + E Sbjct: 63 LHEFSAVEGVVEDVSELILNLKMVRFKKIAETADNKINISLKNTKEFKAGDINKFTTAFE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD +IC++D +ELT+ KG GYV ++ + + I ID++++PIK V Y+ Sbjct: 123 ILNPDLLICHMDESINFEIELTIEKGRGYVSSEENTLVDQVADYIAIDSIFTPIKNVKYS 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP----KKEVK 242 VE+ R Q DY++L + I+TDGSI E ++ A+ IL +F + + Sbjct: 183 VENTRVEQKTDYEQLVLDIETDGSIHPEVALKGAANILIKHFMLFSDQNMVLDAGGSDEP 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 E ++ + L L + +L+LSVR+ NCL+ ++ +GDL+ +DM++ NFG+KS Sbjct: 243 EAVDEEMLHMRKLLKTALNDLDLSVRAYNCLKAADVKTLGDLVALEISDMMKFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDW 324 L E++ ++ GL GM+L + Sbjct: 303 LAELEQLVADKGLTFGMDLSKY 324 >gi|288574689|ref|ZP_06393046.1| DNA-directed RNA polymerase, alpha subunit [Dethiosulfovibrio peptidovorans DSM 11002] gi|288570430|gb|EFC91987.1| DNA-directed RNA polymerase, alpha subunit [Dethiosulfovibrio peptidovorans DSM 11002] Length = 354 Score = 307 bits (786), Expect = 2e-81, Method: Composition-based stats. Identities = 108/327 (33%), Positives = 181/327 (55%), Gaps = 21/327 (6%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E ++P I + + ++ PL RGF T+GNALRRVL+SS++GAAIT+V+IDG Sbjct: 16 EFMRPE----IRVEECSATSARIVVGPLERGFGVTIGNALRRVLLSSIKGAAITSVRIDG 71 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S+I GV ED+ +++LN+K + ++ + + + G VTA D Q ++IE Sbjct: 72 VVHEFSTIPGVGEDVIELLLNLKHVPIRSYSPEVRVLRLEAEGERRVTAADFQPDSEIEF 131 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++P+ IC L A + +E+ + +G GY PA + P+ + IDA+++PI++V Y V Sbjct: 132 VDPEAYICTLAEGARLSLEVYIEQGVGYAPADRPKPAYLPMDSLLIDAIFTPIQRVKYEV 191 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++ R GQ DY+++ M +DT+G + + +VA A+R+L+ + + + + Sbjct: 192 QAERVGQRTDYERIVMDVDTNGVVKPDLAVAEAARLLRKYFTIVVEEIQKLHPSEHTDPE 251 Query: 248 KSLPFNPAL-----------------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 ++ + V +LELS+RS NCL I +GDL+ R Sbjct: 252 IVESQEISVAEEETETEQESEENTLLSRGVRDLELSIRSENCLLRGGIHTIGDLVSRGRD 311 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFL 317 D+L++ N G+ SL EI+ L +G L Sbjct: 312 DLLKIRNLGKISLREIEEKLENLGFSL 338 >gi|189501627|ref|YP_001957344.1| DNA-directed RNA polymerase subunit alpha [Candidatus Amoebophilus asiaticus 5a2] gi|189497068|gb|ACE05615.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Amoebophilus asiaticus 5a2] Length = 329 Score = 306 bits (785), Expect = 2e-81, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 190/323 (58%), Gaps = 9/323 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P I + Q +E + +PL RG+ T+GNALRRV++SSL G AIT+++I G+ Sbjct: 6 FQIPGKI---SVKQADEFHGIFTFKPLERGYGVTIGNALRRVILSSLEGYAITSIRIPGI 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-VTIFKRGPGVVTAGDI-QTVNDIE 126 HE S+I+GV EDL +IILN+K I K GD+ + + I ++TAGD Q E Sbjct: 63 YHEFSTIEGVTEDLVEIILNLKQIRFKKIGDTTENKIFISINNKKILTAGDFAQATAAFE 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + NP+ VIC++D A +E+TV KG GYVPA+ ++ + G+I ID++++P+K V Y Sbjct: 123 ITNPELVICHIDESARFEIEVTVEKGRGYVPAEENKIDAQVKGVIPIDSIFTPVKNVKYH 182 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI----NFEEPKKEVK 242 VE+ R GQ DY+ L +++TDG+I + ++ A+ I+ + I E + Sbjct: 183 VENTRVGQKTDYESLVFSVETDGTIHPQTAIERAADIMIKHFALLIDRNKMVETKDADEI 242 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + ++ +L L + E+ LSVR+ NCL+ +I +GDL+Q +DM + NFG+KS Sbjct: 243 DVLDESTLQMRKLLKTPLSEMGLSVRAFNCLKAADIKTLGDLVQLKVSDMAQFRNFGKKS 302 Query: 303 LVEIKGVLGTMGLFLGMNLPDWP 325 L E++ ++ + L GM+L + Sbjct: 303 LKELQDLVASKDLTFGMDLSAYN 325 >gi|218131300|ref|ZP_03460104.1| hypothetical protein BACEGG_02911 [Bacteroides eggerthii DSM 20697] gi|317476330|ref|ZP_07935579.1| DNA-directed RNA polymerase [Bacteroides eggerthii 1_2_48FAA] gi|217986517|gb|EEC52853.1| hypothetical protein BACEGG_02911 [Bacteroides eggerthii DSM 20697] gi|316907356|gb|EFV29061.1| DNA-directed RNA polymerase [Bacteroides eggerthii 1_2_48FAA] Length = 330 Score = 306 bits (785), Expect = 2e-81, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|328813991|gb|AEB52111.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 269 Score = 306 bits (785), Expect = 3e-81, Method: Composition-based stats. Identities = 124/269 (46%), Positives = 177/269 (65%), Gaps = 2/269 (0%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+ Sbjct: 1 ENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDV 60 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 61 TAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAH 120 Query: 143 VRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DK Sbjct: 121 FHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDK 180 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + T+GSIT ++++L+++IL D L +F+N + K + + L + Sbjct: 181 LTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTI 240 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTE 289 EEL+LSVRS NCL+ I + +L +TE Sbjct: 241 EELDLSVRSYNCLKRAGINTVQELTNKTE 269 >gi|328813951|gb|AEB52091.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 260 Score = 306 bits (785), Expect = 3e-81, Method: Composition-based stats. Identities = 114/260 (43%), Positives = 170/260 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T II Sbjct: 1 YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + Sbjct: 61 LNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVR 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + Sbjct: 121 MTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ ++++LA++IL + L +F+N + K + + + L +EEL+LS Sbjct: 181 TNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLS 240 Query: 267 VRSTNCLRGENIVYMGDLIQ 286 VRS NCL+ I + +L Sbjct: 241 VRSYNCLKRAGINTVQELTN 260 >gi|167764346|ref|ZP_02436471.1| hypothetical protein BACSTE_02730 [Bacteroides stercoris ATCC 43183] gi|167697751|gb|EDS14330.1| hypothetical protein BACSTE_02730 [Bacteroides stercoris ATCC 43183] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDADG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|288803960|ref|ZP_06409383.1| DNA-directed RNA polymerase, alpha subunit [Prevotella melaninogenica D18] gi|302345101|ref|YP_003813454.1| DNA-directed RNA polymerase, alpha subunit [Prevotella melaninogenica ATCC 25845] gi|288333593|gb|EFC72045.1| DNA-directed RNA polymerase, alpha subunit [Prevotella melaninogenica D18] gi|302149271|gb|ADK95533.1| DNA-directed RNA polymerase, alpha subunit [Prevotella melaninogenica ATCC 25845] Length = 332 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 195/325 (60%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA+ +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTINKGRGYVPAEENREYCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P +E Sbjct: 183 AVEPYRVEQKTDYDKLVVEVTTDGSIHPKDALKEAAKILIYHFMLFSDEKITLENPDQEG 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEVLHMRQLLKTKLTDASLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKY 327 >gi|319900952|ref|YP_004160680.1| DNA-directed RNA polymerase subunit alpha [Bacteroides helcogenes P 36-108] gi|319415983|gb|ADV43094.1| DNA-directed RNA polymerase subunit alpha [Bacteroides helcogenes P 36-108] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 118/323 (36%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++ ++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDIAINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|160888372|ref|ZP_02069375.1| hypothetical protein BACUNI_00785 [Bacteroides uniformis ATCC 8492] gi|270294725|ref|ZP_06200926.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. D20] gi|317477725|ref|ZP_07936918.1| DNA-directed RNA polymerase [Bacteroides sp. 4_1_36] gi|156862049|gb|EDO55480.1| hypothetical protein BACUNI_00785 [Bacteroides uniformis ATCC 8492] gi|270273972|gb|EFA19833.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. D20] gi|316906070|gb|EFV27831.1| DNA-directed RNA polymerase [Bacteroides sp. 4_1_36] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ G ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGAKEDVTNIILNLKQVRFKQVVEEFESEKVSITVENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|282878784|ref|ZP_06287552.1| DNA-directed RNA polymerase, alpha subunit [Prevotella buccalis ATCC 35310] gi|281299175|gb|EFA91576.1| DNA-directed RNA polymerase, alpha subunit [Prevotella buccalis ATCC 35310] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GN+LRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEADDKFGKFEFRPLEPGFGITIGNSLRRILLSSLEGYAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT+++G GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINQGRGYVPADENRQFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGS++ +D++ A++IL +F I E P ++ Sbjct: 183 SVEPYRVEQKTDYDKLVIEVTTDGSLSPKDALKEAAKILIYHFMLFSDEKITLENPDQDD 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L K+ +L LSVR+ NCL+ + +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLRMRQLLKTKLIDLNLSVRALNCLKAAEVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G + + Sbjct: 303 SLSELDDLLESLNLSFGTDTSKY 325 >gi|329956729|ref|ZP_08297302.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides clarus YIT 12056] gi|328524101|gb|EGF51177.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides clarus YIT 12056] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AIT ++I+GV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|330837630|ref|YP_004412271.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta coccoides DSM 17374] gi|329749533|gb|AEC02889.1| DNA-directed RNA polymerase subunit alpha [Spirochaeta coccoides DSM 17374] Length = 350 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 127/330 (38%), Positives = 191/330 (57%), Gaps = 13/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + +P I + + A P RGF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLMKGFKRPKGI-IFEHSDVKPDYGKFTAYPFERGFGTTIGNTLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKR 109 ITAV+ DGV H E S+ GV ED++DII +K + L++ +S + I + Sbjct: 60 ITAVKFTTFNQDGVPHLVTSEYESLPGVREDVSDIIAALKKLQLRLPEESESTTLLIECK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GPG+++ + +EV+N D I + DA + ME+ + G GYVPA+ + + IG Sbjct: 120 GPGILSGASFER-GQVEVINKDMEILTMMDDANIEMEVQIDLGRGYVPAEINEKYVEEIG 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA +SP+ +V Y +E R GQ DYDKL + + TDG+I+ E ++A A++I +D Sbjct: 179 TIPLDASFSPVTRVKYAIEPTRVGQRSDYDKLVIEVYTDGTISPESALAEAAKIAKDHFS 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF+E ++I+ + L VEELEL+VRS+NCL+ NI +GDL ++TE Sbjct: 239 IFINFDESLINSSDEIDEEEERVRKILNTSVEELELTVRSSNCLKNANIRTIGDLTKKTE 298 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ + NFG+KSL EIK L L LGM Sbjct: 299 EEIAKTRNFGKKSLSEIKAKLAEWNLSLGM 328 >gi|313158337|gb|EFR57739.1| DNA-directed RNA polymerase, alpha subunit [Alistipes sp. HGB5] Length = 330 Score = 306 bits (784), Expect = 3e-81, Method: Composition-based stats. Identities = 116/321 (36%), Positives = 185/321 (57%), Gaps = 10/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + PL GF T+GNALRR+L+SSL G AIT V++ GV Sbjct: 6 FQKPEKV---IMLESTSSFGKFEFRPLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDI 125 HE ++I GV ED+ IILN+K + + D+ ++V+I G +TAG I ++ Sbjct: 63 DHEFAAIPGVMEDMLKIILNLKQVRFIRTVDNQDAEKVSINVAGVTELTAGYISNYLSFF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPD VIC+L ++M LT+ KG GYVPA+ + G + ID++++PIK V Y Sbjct: 123 KVLNPDLVICHLAPGTKMQMTLTIGKGRGYVPAEENTPAECEFGTLPIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL++ I TDGSI ++++ A++IL +F I Sbjct: 183 SIENYRVEQKTDYEKLNLEITTDGSIHPKEALKEAAKILIQHFMLFSDEKITVNMEDTNG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + L L K+ + +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+K Sbjct: 243 AEEFDEDVLHMRQLLKTKLSDQDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLP 322 SL E+ +L ++ L GM++ Sbjct: 303 SLTELDELLTSLNLKFGMDVS 323 >gi|323144991|ref|ZP_08079551.1| DNA-directed RNA polymerase, alpha subunit [Succinatimonas hippei YIT 12066] gi|322415270|gb|EFY06044.1| DNA-directed RNA polymerase, alpha subunit [Succinatimonas hippei YIT 12066] Length = 329 Score = 306 bits (784), Expect = 4e-81, Method: Composition-based stats. Identities = 134/331 (40%), Positives = 195/331 (58%), Gaps = 16/331 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 +L++PN E + L N + +I EP + +A LG ALRR+++SS+ G AIT V+ID Sbjct: 5 TDLLRPNIKEVVTL---SRNVSRVILEPFEQHYAQVLGTALRRIMLSSIPGYAITEVEID 61 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVND 124 GV+HE S+++GV ED+ I+LN+K + + + + I K G G VTA DIQ Sbjct: 62 GVVHEYSALEGVQEDILLILLNLKEVAVFSATIPQHDPVLEINKSGIGTVTAADIQCPGG 121 Query: 125 IEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRT----ENDPIGLITIDALYSP 179 IE+ NP+ V+C++ D +RM L V++G GYVPA H E+ IG + +DA Y P Sbjct: 122 IEIRNPELVLCHITDEKTNLRMRLHVTRGRGYVPAVTHPHIEGAEDRFIGRLLLDASYCP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + V+ +GQ ++L + I+T+G+I D+V A+ I DQL F++ Sbjct: 182 VLNVAVHTAPLNDGQ----EQLILDIETNGTIDPSDAVCSAATIFADQLNSFVDIRNSVA 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +P LL VE+LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 PADD--ASFKPLIDPKLLCPVEDLELTVRSANCLKAEGIKYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 +KSL EIK VL GL LGM L +WPP +E Sbjct: 296 KKSLTEIKDVLAERGLSLGMRLENWPPADLE 326 >gi|325856023|ref|ZP_08171912.1| DNA-directed RNA polymerase, alpha subunit [Prevotella denticola CRIS 18C-A] gi|325483695|gb|EGC86659.1| DNA-directed RNA polymerase, alpha subunit [Prevotella denticola CRIS 18C-A] Length = 332 Score = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 195/325 (60%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLETNDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA+ +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTINKGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P +E Sbjct: 183 AVEPYRVEQKTDYDKLVVEVTTDGSIHPKDALKEAAKILIYHFMLFSDEKITLENPDQEG 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEVLHMRQLLKTKLTDASLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKY 327 >gi|198273977|ref|ZP_03206509.1| hypothetical protein BACPLE_00113 [Bacteroides plebeius DSM 17135] gi|198273055|gb|EDY97324.1| hypothetical protein BACPLE_00113 [Bacteroides plebeius DSM 17135] Length = 330 Score = 306 bits (783), Expect = 4e-81, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AI ++I+GV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIRIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE ++I GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFATIPGVKEDVTNIILNLKQVRFKRVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDITINKGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E E Sbjct: 183 AVENYRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIHHFMLFSDEKITLETSDAEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|325294424|ref|YP_004280938.1| DNA-directed RNA polymerase subunit alpha [Desulfurobacterium thermolithotrophum DSM 11699] gi|325064872|gb|ADY72879.1| DNA-directed RNA polymerase subunit alpha [Desulfurobacterium thermolithotrophum DSM 11699] Length = 318 Score = 306 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 114/315 (36%), Positives = 176/315 (55%), Gaps = 7/315 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E I P + + EN + EPL +G+ T+GNALRRVL+SS+ GAA TAV+ +G Sbjct: 3 EFITPEKFLW---EEHTENYGRFVVEPLEKGYGTTVGNALRRVLLSSIEGAAPTAVKFEG 59 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE +++ GV ED+T+I+LN+K + + G+ + + KRGPG V A D + + +E+ Sbjct: 60 AYHEFTTLPGVVEDVTEIVLNLKQLRFILHGEGPVFIELKKRGPGKVYAKDFELPSQVEL 119 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVS 184 L PD I LD ++ + + L + KG G+V ++ + IG I +DA +SPIKKV+ Sbjct: 120 LTPDQEIATLDNENSEIEIYLRIDKGKGFVLSEDIQEIFDISTIGWIPLDADFSPIKKVA 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-EVKE 243 + VE R G+ DY++L+M I TDGSIT +D+V A+ IL + M + + Sbjct: 180 FRVEDTRVGRRTDYNRLTMEIWTDGSITPKDAVVRAANILIEHFSMVRDKLVEAIFATAQ 239 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 VK + +EE L R+ L I +GDL++ T+ ++ M G+KSL Sbjct: 240 PEEVKKEEVPEIYNQTLEEAGLKGRALKILGENGITTVGDLVKLTKKELESMKGLGKKSL 299 Query: 304 VEIKGVLGTMGLFLG 318 EI+ L ++G LG Sbjct: 300 AEIENFLASLGFELG 314 >gi|269837094|ref|YP_003319322.1| DNA-directed RNA polymerase, alpha subunit [Sphaerobacter thermophilus DSM 20745] gi|269786357|gb|ACZ38500.1| DNA-directed RNA polymerase, alpha subunit [Sphaerobacter thermophilus DSM 20745] Length = 340 Score = 306 bits (783), Expect = 5e-81, Method: Composition-based stats. Identities = 120/321 (37%), Positives = 181/321 (56%), Gaps = 12/321 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ +P + N EPL G+ T+GNALRR+L+ SL G AI V+I Sbjct: 3 EIARPR----VQQTHAGVNYGRFEIEPLEPGYGITIGNALRRILLRSLPGTAIVRVRIAD 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDI 125 V HE S+I+GV ED+T+I+LN+K + LK + R +++ +G GVV AGDI D+ Sbjct: 59 VWHEFSTIEGVREDVTEIVLNLKRVRLKALTESFREGRASLYAQGEGVVRAGDIDWPGDV 118 Query: 126 EVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EV+NP+HVI LD DA + M+L +++G GY PA E IG I +DA+++PI+KV+ Sbjct: 119 EVVNPEHVIATLDNDDARLEMDLVIARGRGYQPA--ETQEIYTIGEIPVDAIFTPIEKVN 176 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE R GQ+ DYD+L + I TDG+I D+++ A++IL D + +F E +E+ Sbjct: 177 YVVEHTRVGQMTDYDRLIIEIITDGTIEPADALSEAAQILVDHARLIADFNREPSEPEEE 236 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + + + EL LS R N LR I +G ++ + +L + NFG +SL Sbjct: 237 EDKTPSIVD---NRPLAELGLSPRVLNALRSRQIERVGQVLSLPQEQLLSIRNFGPRSLQ 293 Query: 305 EIKGVLGTMGLFLGMNLPDWP 325 E++ L G L M+ Sbjct: 294 ELRERLAEHGYTLAMDAEKKD 314 >gi|219849860|ref|YP_002464293.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus aggregans DSM 9485] gi|219544119|gb|ACL25857.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus aggregans DSM 9485] Length = 318 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 110/301 (36%), Positives = 170/301 (56%), Gaps = 4/301 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I + + E+ EPL G+ HTLGNALRRVL++++ G+AIT V++ GV E I Sbjct: 8 KIEVVEATESFGRFKIEPLDPGYGHTLGNALRRVLLTAIPGSAITHVRVTGVYQETDRIP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ ++ILN+KGI+L+ + TI K+GPGVVTA D+ + V++PDH IC Sbjct: 68 GVTEDMVELILNLKGIHLRGHHEGTVTATIRKQGPGVVTAADLVLPEGLAVVDPDHYICT 127 Query: 137 LD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 L+ A + + T+ +G GY+ A P+G I IDA+++P+ +V+Y VE+ R GQ Sbjct: 128 LEHEQAQIELTATIERGRGYLSADQRG--ILPLGEIPIDAIFTPVPRVNYIVENTRIGQA 185 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNP 254 D+D+L + + T+G++ D++ A+R+L NF E + L Sbjct: 186 TDFDRLILEVWTNGTVRPVDALDYAARVLVHYNTTIANFNRMAVEPEAQPETTGLEIPPS 245 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E LELS R+ NCL+ I +G ++Q E +L + N G+KS+ EI+ L G Sbjct: 246 VYDTSIETLELSTRTYNCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIRDKLIERG 305 Query: 315 L 315 Sbjct: 306 Y 306 >gi|260592738|ref|ZP_05858196.1| DNA-directed RNA polymerase, alpha subunit [Prevotella veroralis F0319] gi|325269508|ref|ZP_08136124.1| DNA-directed RNA polymerase subunit alpha [Prevotella multiformis DSM 16608] gi|327313217|ref|YP_004328654.1| DNA-directed RNA polymerase subunit alpha [Prevotella denticola F0289] gi|260535269|gb|EEX17886.1| DNA-directed RNA polymerase, alpha subunit [Prevotella veroralis F0319] gi|324988127|gb|EGC20094.1| DNA-directed RNA polymerase subunit alpha [Prevotella multiformis DSM 16608] gi|326945436|gb|AEA21321.1| DNA-directed RNA polymerase, alpha subunit [Prevotella denticola F0289] Length = 332 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 124/325 (38%), Positives = 195/325 (60%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDHFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA+ +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTINKGRGYVPAEENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P +E Sbjct: 183 AVEPYRVEQKTDYDKLVVEVTTDGSIHPKDALKEAAKILIYHFMLFSDEKITLENPDQEG 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEVLHMRQLLKTKLTDASLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLSFGTDITKY 327 >gi|328813947|gb|AEB52089.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 267 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 116/264 (43%), Positives = 171/264 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I G Sbjct: 3 ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 63 VLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTV 122 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 123 ADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 182 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 183 FDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 242 Query: 258 KKVEELELSVRSTNCLRGENIVYM 281 +EEL+LSVRS NCL+ I + Sbjct: 243 MTIEELDLSVRSYNCLKRAGINTV 266 >gi|328813955|gb|AEB52093.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 261 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 116/261 (44%), Positives = 173/261 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +T Sbjct: 61 IKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+ Sbjct: 121 VKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GSI+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVR Sbjct: 181 GSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVR 240 Query: 269 STNCLRGENIVYMGDLIQRTE 289 S NCL+ I + +L +TE Sbjct: 241 SYNCLKRAGINTVQELTNKTE 261 >gi|58416044|emb|CAH57436.1| RNA polymerase alpha-subunit [Vibrio sp. R-21433] Length = 294 Score = 305 bits (782), Expect = 5e-81, Method: Composition-based stats. Identities = 127/300 (42%), Positives = 194/300 (64%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >gi|157493235|gb|ABV57983.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493237|gb|ABV57984.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 289 Score = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 126/289 (43%), Positives = 193/289 (66%), Gaps = 8/289 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 287 >gi|11467399|ref|NP_043256.1| RNA polymerase alpha subunit [Cyanophora paradoxa] gi|1350840|sp|P48118|RPOA_CYAPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1016200|gb|AAA81287.1| alpha subunit of RNA polymerase [Cyanophora paradoxa] Length = 315 Score = 305 bits (782), Expect = 6e-81, Method: Composition-based stats. Identities = 98/305 (32%), Positives = 164/305 (53%), Gaps = 9/305 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + I EPL G T+GN+LRRVL+S + G+AITAV+I GV HE SI GV Sbjct: 12 KVESSCNQYGRFIVEPLEPGQGITIGNSLRRVLLSDIEGSAITAVRIAGVNHEFCSIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +++LN+K I LK + + + +G VT + + +++E+++ + + Sbjct: 72 KEDVLELLLNLKNIVLKSYTNEPQIGRLKIQGACKVTTANFELPSEVEIIHGTQYVATVA 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +A++ ME + KG GY +TEN I + IDA++ P++KV+Y VE Sbjct: 132 ENAILEMEFKIEKGRGYKIIDKKQTENS-IDFLPIDAIFMPVRKVNYMVEEIFLRNSEIK 190 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++L + I +GS+T +DS++ A+ +L + F K + + + Sbjct: 191 ERLILEIWRNGSVTPQDSISQAAEVLLNLFNPF-----KKINFENTDDSTEQTEDKISQI 245 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVR+ NCL+ I +GDL+ ++ ++L + NFG+KS E+ L LG Sbjct: 246 PIEELQLSVRAYNCLKRAQIHSIGDLLNVSQEELLEIRNFGQKSAKEVIDAL---QKRLG 302 Query: 319 MNLPD 323 ++LP Sbjct: 303 ISLPK 307 >gi|269997192|gb|ACZ57818.1| RNA polymerase alpha subunit [Vibrio owensii] gi|269997194|gb|ACZ57819.1| RNA polymerase alpha subunit [Vibrio owensii] gi|269997196|gb|ACZ57820.1| RNA polymerase alpha subunit [Vibrio sp. CAIM 994] Length = 294 Score = 305 bits (781), Expect = 6e-81, Method: Composition-based stats. Identities = 127/300 (42%), Positives = 195/300 (65%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >gi|325104841|ref|YP_004274495.1| DNA-directed RNA polymerase subunit alpha [Pedobacter saltans DSM 12145] gi|324973689|gb|ADY52673.1| DNA-directed RNA polymerase subunit alpha [Pedobacter saltans DSM 12145] Length = 330 Score = 305 bits (781), Expect = 6e-81, Method: Composition-based stats. Identities = 129/323 (39%), Positives = 199/323 (61%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQKPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSVRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+IKGV ED+ DIILN+K + K +G+ +++ + G AGDI + N+ Sbjct: 63 SHEFSTIKGVAEDVVDIILNLKQVRFKKTGESGDSEKIFVIINGQESFKAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD V+CN++ + +ELT++KG GYV A+ ++ + +G+I ID++Y+PIK V Y Sbjct: 123 EVLNPDFVVCNMESSVTLEIELTINKGRGYVAAEENKNADAAVGVIAIDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI ED++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLLLDISTDGSIHPEDALKEAAKILIQHFMLFSDENLILESQAKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++++ + L L ++ +L+LSVR+ NCL+ +I + DL+ ADML+ NFG+K Sbjct: 243 TKEVDEEVLHMRKILKTELVDLDLSVRALNCLKAADIRSLADLVSYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQELVKSKGLSFGMNLSKY 325 >gi|227538692|ref|ZP_03968741.1| DNA-directed RNA polymerase [Sphingobacterium spiritivorum ATCC 33300] gi|227241611|gb|EEI91626.1| DNA-directed RNA polymerase [Sphingobacterium spiritivorum ATCC 33300] Length = 330 Score = 305 bits (781), Expect = 6e-81, Method: Composition-based stats. Identities = 127/323 (39%), Positives = 199/323 (61%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +P+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQRPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+IKGV ED+T+IILN+K + K +G+ +++ + G AGDI + N+ Sbjct: 63 SHEFSTIKGVVEDVTEIILNLKQVRFKKTGEQGDSEKIFVVINGQEQFLAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 VLNPD V+CN+D + +EL+V+KG GYV A+ ++ + P+GLI ID++++PIK V Y Sbjct: 123 TVLNPDFVVCNMDSSVTIEVELSVAKGRGYVNAEENKVTDGPVGLIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI ED++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLLLDITTDGSIHPEDALKEAAKILIQHFMLFSDENMLLESQTKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++ + L L ++ +L+LSVR+ NCL+ +I + +L+ ADML+ NFG+K Sbjct: 243 TKVVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRTLAELVTYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + GL GMNL + Sbjct: 303 SLSEIQELVKSKGLSFGMNLSKF 325 >gi|256820008|ref|YP_003141287.1| DNA-directed RNA polymerase subunit alpha [Capnocytophaga ochracea DSM 7271] gi|256581591|gb|ACU92726.1| DNA-directed RNA polymerase, alpha subunit [Capnocytophaga ochracea DSM 7271] Length = 330 Score = 305 bits (781), Expect = 7e-81, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 190/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D V Sbjct: 6 FQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K I K + ++ TI G +TAGD Q ++ Sbjct: 63 GHEFSTISGVREDVTEIILNLKQIRFKRQIEDIENETATITVSGKRQLTAGDFQKALSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLN D VICN+D A +E+T+ KG GYV A+ + N PIG+I DA+++PIK V Y Sbjct: 123 QVLNTDLVICNMDSSASFTIEITIEKGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+K Sbjct: 243 TDTYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL+E++ ++ GL GM+ + Sbjct: 303 SLIELEELVVNKGLVFGMDTSKY 325 >gi|257067033|ref|YP_003153289.1| DNA-directed RNA polymerase subunit alpha [Anaerococcus prevotii DSM 20548] gi|256798913|gb|ACV29568.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus prevotii DSM 20548] Length = 318 Score = 305 bits (781), Expect = 7e-81, Method: Composition-based stats. Identities = 112/313 (35%), Positives = 188/313 (60%), Gaps = 6/313 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NI+ + + +E EN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE Sbjct: 7 TNIQILDIDEE-ENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH Sbjct: 66 STIDGVVEDVPEIVLNIKGLDVTKHVDEDVTLFLDIEGPKIVTAKDIKADSSVDIANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + + + + V+ G GY + ++ E+DPIG I ID+ ++P++KV++TVE+ R Sbjct: 126 YIATVNEKSRLFIAMDVTDGKGYRVSDDNKKESDPIGAIAIDSSFTPVEKVNFTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G+ DYDKL M + T+G+IT ++++A S IL + F + + + Sbjct: 186 GESTDYDKLVMEVWTNGTITPQEALAEGSSILIENFSFFNELPNQQFPPEVEEEEIEEVE 245 Query: 253 NPALL-----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LS+RS NCL+ +GD+I+ +E+++ + NFG+KSL E+ Sbjct: 246 EEDSLSEDLAMTIEELDLSLRSFNCLKRAGFDRVGDIIKVSESELKTIKNFGKKSLTEVI 305 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 306 EKLDELGLSLKDE 318 >gi|330997338|ref|ZP_08321189.1| DNA-directed RNA polymerase, alpha subunit [Paraprevotella xylaniphila YIT 11841] gi|329570712|gb|EGG52428.1| DNA-directed RNA polymerase, alpha subunit [Paraprevotella xylaniphila YIT 11841] Length = 330 Score = 305 bits (781), Expect = 7e-81, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + ++ PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---LMLEADDKYGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTMRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +S+ GV ED+T+IILN+K I K + +++V+I AGDI + + Sbjct: 63 EHEFASVPGVKEDVTNIILNLKQIRFKKIVEEFENEKVSITVENTTEFKAGDINKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A +++EL+++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDAKATMQIELSINKGRGYVPADENRIFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI +D++ A++IL +F I E E Sbjct: 183 AVENYRVEQKTDYEKLVLEISTDGSIHPKDALKEAAKILIYHFMLFSDEKITLENSDGEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|300770225|ref|ZP_07080104.1| DNA-directed RNA polymerase subunit alpha [Sphingobacterium spiritivorum ATCC 33861] gi|300762701|gb|EFK59518.1| DNA-directed RNA polymerase subunit alpha [Sphingobacterium spiritivorum ATCC 33861] Length = 330 Score = 304 bits (780), Expect = 9e-81, Method: Composition-based stats. Identities = 128/323 (39%), Positives = 199/323 (61%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +P+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+++ GV Sbjct: 6 FQRPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSIRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S+IKGV ED+T+IILN+K I K +G+ +++ + G AGDI + N+ Sbjct: 63 SHEFSTIKGVVEDVTEIILNLKQIRFKKTGEQGDSEKIFVVINGQEQFLAGDITKFSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 VLNPD V+CN+D + +EL+V+KG GYV A+ ++ + P+GLI ID++++PIK V Y Sbjct: 123 TVLNPDFVVCNMDSSVTIEVELSVAKGRGYVNAEENKVTDGPVGLIAIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI ED++ A++IL +F + E KE Sbjct: 183 TIENYRVEQKTDYEKLLLDITTDGSIHPEDALKEAAKILIQHFMLFSDENMLLESQTKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++ + L L ++ +L+LSVR+ NCL+ +I + +L+ ADML+ NFG+K Sbjct: 243 TKVVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRTLAELVTYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + GL GMNL + Sbjct: 303 SLSEIQELVKSKGLSFGMNLSKF 325 >gi|315225426|ref|ZP_07867240.1| DNA-directed RNA polymerase subunit alpha [Capnocytophaga ochracea F0287] gi|314944699|gb|EFS96734.1| DNA-directed RNA polymerase subunit alpha [Capnocytophaga ochracea F0287] Length = 330 Score = 304 bits (780), Expect = 1e-80, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 189/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GNALRRV++SSL G AIT+V+ D V Sbjct: 6 FQKPDKV---IMIESSDFEGRFEFRPLEPGYGLTIGNALRRVMLSSLEGFAITSVKFDKV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQ-TVNDI 125 HE S+I GV ED+T+IILN+K I K + ++ TI G +TAGD Q ++ Sbjct: 63 GHEFSTISGVREDVTEIILNLKQIRFKRQIEDIENETATITVSGKRQLTAGDFQKALSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLN D VICN+D A +E+T+ KG GYV A+ + N PIG+I DA+++PIK V Y Sbjct: 123 QVLNTDLVICNMDSSASFTIEVTIEKGRGYVSAEENAKPNAPIGVIATDAIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL I TDGSI + ++ A++ L +F I E + Sbjct: 183 SIENYRVEQKTDYEKLVFEIKTDGSIHPKQALTEAAKTLIHHFMLFSDERITLEADEIAQ 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + +SL L K+ +++LSVR+ NCL+ + +GDL+ +AD+++ NFG+K Sbjct: 243 TDTYDEESLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGDLVSFNKADLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL+E+ ++ GL GM+ + Sbjct: 303 SLIELDELVVNKGLVFGMDTSKY 325 >gi|150003362|ref|YP_001298106.1| DNA-directed RNA polymerase subunit alpha [Bacteroides vulgatus ATCC 8482] gi|212695279|ref|ZP_03303407.1| hypothetical protein BACDOR_04819 [Bacteroides dorei DSM 17855] gi|237711701|ref|ZP_04542182.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 9_1_42FAA] gi|237725858|ref|ZP_04556339.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. D4] gi|254881349|ref|ZP_05254059.1| RNA polymerase subunit alpha [Bacteroides sp. 4_3_47FAA] gi|265753120|ref|ZP_06088689.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_33FAA] gi|294777846|ref|ZP_06743290.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides vulgatus PC510] gi|319640350|ref|ZP_07995075.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 3_1_40A] gi|172048639|sp|A6KYH0|RPOA_BACV8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149931786|gb|ABR38484.1| DNA-directed RNA polymerase alpha chain [Bacteroides vulgatus ATCC 8482] gi|212662189|gb|EEB22763.1| hypothetical protein BACDOR_04819 [Bacteroides dorei DSM 17855] gi|229435666|gb|EEO45743.1| DNA-directed RNA polymerase subunit alpha [Bacteroides dorei 5_1_36/D4] gi|229454396|gb|EEO60117.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 9_1_42FAA] gi|254834142|gb|EET14451.1| RNA polymerase subunit alpha [Bacteroides sp. 4_3_47FAA] gi|263236306|gb|EEZ21801.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides sp. 3_1_33FAA] gi|294448300|gb|EFG16856.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides vulgatus PC510] gi|317388125|gb|EFV68979.1| DNA-directed RNA polymerase subunit alpha [Bacteroides sp. 3_1_40A] Length = 330 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 193/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AI ++I+GV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAINTIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +S+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFASVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSSEFKAGDISKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A ++M++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQMDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETSDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLEGLNLSFGTDISKY 325 >gi|58415944|emb|CAH57386.1| RNA polymerase alpha-subunit [Vibrio mytili] Length = 294 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 126/300 (42%), Positives = 194/300 (64%), Gaps = 11/300 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GY+PA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYIPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 294 >gi|326799155|ref|YP_004316974.1| DNA-directed RNA polymerase subunit alpha [Sphingobacterium sp. 21] gi|326549919|gb|ADZ78304.1| DNA-directed RNA polymerase subunit alpha [Sphingobacterium sp. 21] Length = 330 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 128/323 (39%), Positives = 198/323 (61%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT+V+ GV Sbjct: 6 FQKPDKV---IMQKSTDFDGTFEFRPLEPGFGVTIGNALRRILLSSLEGYAITSVRFSGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVN-DI 125 HE S+I GV ED+T+IILN+K + K +G+ +++ + G AGDI + + + Sbjct: 63 SHEFSTITGVVEDVTEIILNLKQVRFKKTGESGDSEKIFVVINGQDQFKAGDITSHSNNF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 VLNPD VICN++ + +ELTV+KG GYV A+ ++ + +G+I ID++Y+PIK V Y Sbjct: 123 TVLNPDLVICNMESSVTLEVELTVNKGRGYVNAEENKVADAAVGVIAIDSIYTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 T+E+ R Q DY+KL + I TDGSI ED++ A++IL +F I E KE Sbjct: 183 TIENFRVEQKTDYEKLLLDISTDGSIHPEDALKEAAKILIHHFMLFSDENILLESQTKEE 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++++ + L L ++ +L+LSVR+ NCL+ +I + +L+ ADML+ NFG+K Sbjct: 243 TKEVDEEILHMRKILKTELVDLDLSVRALNCLKAADIRSLAELVSYDVADMLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL EI+ ++ + GL GMNL + Sbjct: 303 SLTEIQELVKSKGLSFGMNLSKY 325 >gi|320160441|ref|YP_004173665.1| DNA-directed RNA polymerase alpha chain [Anaerolinea thermophila UNI-1] gi|319994294|dbj|BAJ63065.1| DNA-directed RNA polymerase alpha chain [Anaerolinea thermophila UNI-1] Length = 321 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 112/304 (36%), Positives = 174/304 (57%), Gaps = 6/304 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + E N I PL G+ TLGNALRRVL+SSL GAA+T+++I VLHE S I Sbjct: 11 KVEREAEARNYGKFIIGPLEGGYGVTLGNALRRVLLSSLEGAAVTSIRISDVLHEFSDIP 70 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ ++LNIK + L + + + RG G VTA DIQ ++E++NP+ + Sbjct: 71 GVREDVIQVMLNIKQLRLILHDVETTHMHLEVRGEGTVTAADIQAPAEVEIVNPELELFT 130 Query: 137 LDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 +D + + ++ TVS+G GY PA PIG + +DA++SP+K+V+++V +AR GQ Sbjct: 131 VDDPNTRLEIDFTVSRGRGYSPASERSGR-LPIGELPVDAIFSPVKRVNWSVTAARVGQS 189 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNP 254 +YD+L + I TDG+IT E++++ +++IL D L V + V + Sbjct: 190 TNYDRLILEIWTDGTITPENALSTSAKILIDHLRYITGVSAESLAVTVEKEVAGGRLTSE 249 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGD---LIQRTEADMLRMANFGRKSLVEIKGVLG 311 A +E L+LSVR N L+ I +GD L+++ E ++ + NFG KSL E++ + Sbjct: 250 AAETPIENLDLSVRVFNSLKRTGITTVGDVLELLEKGEDAVMSIRNFGEKSLDELRQKMR 309 Query: 312 TMGL 315 G Sbjct: 310 EKGF 313 >gi|257456916|ref|ZP_05622097.1| DNA-directed RNA polymerase, alpha subunit [Treponema vincentii ATCC 35580] gi|257445625|gb|EEV20687.1| DNA-directed RNA polymerase, alpha subunit [Treponema vincentii ATCC 35580] Length = 351 Score = 304 bits (779), Expect = 1e-80, Method: Composition-based stats. Identities = 120/348 (34%), Positives = 190/348 (54%), Gaps = 12/348 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +E+ ++ A P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGLEF-AADVSNDSYGKFTASPFETGFGTTIGNCLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF-KR 109 I+AV+I D V H E +I V ED +++ N+K + L++ + + +F + Sbjct: 60 ISAVKITSYGADDVPHSISSEFEAIPNVTEDTMEVLNNLKQMRLRLPNEIEQDTFLFDFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP V A D +E+L+ D I L +A V +E+ V G GYVPA+ + + +G Sbjct: 120 GPRSVKAADFAKPGQLEILSGDLHIMELMENAHVELEVQVDFGRGYVPAETNEKYVEVVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I++D ++SP++KVSY ++ R GQ DYDKL + I TDG+I ED++A A++I ++ Sbjct: 180 TISLDTIFSPVRKVSYEIQPCRVGQRNDYDKLVLEIWTDGTIRPEDALAEAAKIAKEHFT 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F+NF E + ++ + L + EL+LSVR++NCL+ N+ + DL TE Sbjct: 240 VFVNFNENELLSDDEADESDEMIKQLLDTPITELDLSVRASNCLKNANVSTIRDLTMMTE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 ++ + N G+KSL EI+ L L LGM SI+ +K E Sbjct: 300 DEISKTRNVGKKSLQEIQEKLAERNLSLGMTDYSHLKNSIKLSRQKEE 347 >gi|304384302|ref|ZP_07366713.1| DNA-directed RNA polymerase subunit alpha [Prevotella marshii DSM 16973] gi|304334618|gb|EFM00900.1| DNA-directed RNA polymerase subunit alpha [Prevotella marshii DSM 16973] Length = 330 Score = 304 bits (778), Expect = 1e-80, Method: Composition-based stats. Identities = 124/323 (38%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I V Sbjct: 6 FQKPDKV---VMLEANDKFGKFEFRPLEPGFGVTIGNALRRILLSSLEGYAINTMRIGSV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SSI GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSIPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYV A +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASMQIDLTINKGRGYVTADENREFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 TVE R Q DYDKL + +DTDGSI +D++ A++IL +F I E P E Sbjct: 183 TVEPYRVEQKTDYDKLVIEVDTDGSIQPKDALKEAAKILIYHFMLFSDEKIALESPDVEG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + + L L ++ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NQEFDEEVLHMRQLLKTRLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLSELDDLLESLNLTFGTDISKY 325 >gi|303237482|ref|ZP_07324047.1| DNA-directed RNA polymerase, alpha subunit [Prevotella disiens FB035-09AN] gi|302482302|gb|EFL45332.1| DNA-directed RNA polymerase, alpha subunit [Prevotella disiens FB035-09AN] Length = 332 Score = 304 bits (778), Expect = 1e-80, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 192/325 (59%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GN+LRR+L+SSL G AI V+I GV Sbjct: 6 FQKPDKV---VMLEANDQFGKFEFRPLEPGFGVTIGNSLRRILLSSLEGYAINTVRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE S++ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSTVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYV A +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTINKGRGYVSADENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE R Q DYDKL + + TDGSI +D++ A++IL +F I E P +E Sbjct: 183 AVEPYRVEQKTDYDKLVIEVATDGSIHPKDALKEAAKILIYHFMLFSDEKIMLESPDQEG 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEVLHMRQLLKTKLTDSSLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L ++ L G ++ + Sbjct: 303 KKSLSELDDLLESLNLTFGTDITKY 327 >gi|163847950|ref|YP_001635994.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus aurantiacus J-10-fl] gi|222525830|ref|YP_002570301.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus sp. Y-400-fl] gi|163669239|gb|ABY35605.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus aurantiacus J-10-fl] gi|222449709|gb|ACM53975.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus sp. Y-400-fl] Length = 318 Score = 304 bits (778), Expect = 2e-80, Method: Composition-based stats. Identities = 107/301 (35%), Positives = 167/301 (55%), Gaps = 4/301 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I + + E EPL G+ HTLGNALRRVL++++ G+AIT V+I GV E I Sbjct: 8 KIEVVEATETFGRFKIEPLDPGYGHTLGNALRRVLLTAIPGSAITHVRIAGVYQETDVIP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++ILN+KGI+L+ + + TI K+GP +VTA D+ + V++P H IC Sbjct: 68 GMTEDVVELILNLKGIHLRGRHEGTVQATIQKQGPAIVTAADLMLPEGLSVVDPTHYICT 127 Query: 137 LDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 L+ D A + + T+ G GY+ A P+G IDA+++P+ +V+Y VE+ R GQ Sbjct: 128 LEHDQARIEITATIEHGRGYLSADQRG--ILPLGEFPIDAIFTPVPRVNYVVENTRIGQA 185 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP-FNP 254 DYD+L + + T+G+I ++++ A+R+L NF E L Sbjct: 186 TDYDRLILEVWTNGTIRAQEALDYAARVLVHYYTTIANFNRLMVEPAAQPETNGLEIPAH 245 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +E L+LS R+ NCL+ I +G ++Q E +L + N G+KS+ EI+ L G Sbjct: 246 VYDTSIETLDLSTRTYNCLKRAEITKIGQVLQMDEKALLSVRNLGQKSMEEIRDKLIERG 305 Query: 315 L 315 Sbjct: 306 Y 306 >gi|189460710|ref|ZP_03009495.1| hypothetical protein BACCOP_01357 [Bacteroides coprocola DSM 17136] gi|189432669|gb|EDV01654.1| hypothetical protein BACCOP_01357 [Bacteroides coprocola DSM 17136] Length = 330 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 118/323 (36%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AI + I+GV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +++ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFATVPGVKEDVTNIILNLKQVRFKQIVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A ++++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDLTINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENYRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETSDADG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|224023645|ref|ZP_03642011.1| hypothetical protein BACCOPRO_00352 [Bacteroides coprophilus DSM 18228] gi|224016867|gb|EEF74879.1| hypothetical protein BACCOPRO_00352 [Bacteroides coprophilus DSM 18228] Length = 330 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 119/323 (36%), Positives = 190/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AI + IDGV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE ++I GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFATIPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD ++M++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKTTMQMDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENYRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETSDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|212697280|ref|ZP_03305408.1| hypothetical protein ANHYDRO_01848 [Anaerococcus hydrogenalis DSM 7454] gi|325848968|ref|ZP_08170478.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus hydrogenalis ACS-025-V-Sch4] gi|212675729|gb|EEB35336.1| hypothetical protein ANHYDRO_01848 [Anaerococcus hydrogenalis DSM 7454] gi|325480612|gb|EGC83674.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus hydrogenalis ACS-025-V-Sch4] Length = 318 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 117/310 (37%), Positives = 193/310 (62%), Gaps = 6/310 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 IE + + +E N + PL RG+ T+GN++RR+L+SSL G++++ + IDGVLHE Sbjct: 7 TKIEILDIDEET-NYGKFVLYPLERGYGTTIGNSMRRMLLSSLPGSSVSKILIDGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ ++ILNIKGI++K + + GP +VTA DI+T IEV NPDH Sbjct: 66 STIPGVVEDVPELILNIKGIDIKKHTKEDLTLFLDIEGPKIVTAKDIKTDAQIEVANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 + ++ A + + L V+ G GY A+ ++ + DPIG I ID+ ++P+K V++TVE+ R Sbjct: 126 YLATVNDKARLFIALDVTDGKGYRVAELNKKDTDPIGAIAIDSSFTPVKSVNFTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-----INFEEPKKEVKEDINV 247 G+ DYDKL + + TDG+IT +++++ + IL + + F F +E + + Sbjct: 186 GESTDYDKLILEVWTDGTITPQEALSEGASILMEDIRFFKDLPGQQFPPEVEEEEVEEIE 245 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K +EEL+LS+RS NCL+ +G++I+++EA++ + NFG+KSL E+ Sbjct: 246 EEDDNQVELSKTIEELDLSLRSFNCLKRAGYNTVGEIIEKSEAELKDIKNFGKKSLDEVI 305 Query: 308 GVLGTMGLFL 317 + ++GL L Sbjct: 306 DKIHSLGLSL 315 >gi|58416046|emb|CAH57437.1| RNA polymerase alpha-subunit [Vibrio sp. R-21434] gi|58416048|emb|CAH57438.1| RNA polymerase alpha-subunit [Vibrio sp. R-21435] gi|58416050|emb|CAH57439.1| RNA polymerase alpha-subunit [Vibrio sp. R-21439] Length = 293 Score = 303 bits (777), Expect = 2e-80, Method: Composition-based stats. Identities = 126/299 (42%), Positives = 194/299 (64%), Gaps = 11/299 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H+ + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 293 >gi|237756134|ref|ZP_04584706.1| DNA-directed RNA polymerase, alpha subunit [Sulfurihydrogenibium yellowstonense SS-5] gi|237691698|gb|EEP60734.1| DNA-directed RNA polymerase, alpha subunit [Sulfurihydrogenibium yellowstonense SS-5] Length = 325 Score = 303 bits (776), Expect = 2e-80, Method: Composition-based stats. Identities = 120/320 (37%), Positives = 173/320 (54%), Gaps = 7/320 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + + + P I + + + + EPL RGF T+GNALRRVL+SSL G AITAV Sbjct: 1 MSLLDFVMPTKIYWDEA-TKTDTYGKLYVEPLERGFGITIGNALRRVLLSSLPGGAITAV 59 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTV 122 +I GV HE ++IKGV ED+ +I+LN+K I LK+ + + + G V A DI+ Sbjct: 60 KIMGVPHEFTTIKGVIEDVAEIVLNLKQIRLKIDENIERDFAILEAENVGKVYAKDIKFP 119 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++ PD IC + ++ME V +G GY + IG I ID +SPIK+ Sbjct: 120 AGIELVTPDVHICTISEPTKLQMEFRVERGIGYKTVEELEP-ISEIGWIIIDTAFSPIKR 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V++ VE R G DYDKL + I+TDG+IT ++++ AS IL D + K +V Sbjct: 179 VAFNVEPTRVGDKTDYDKLILEIETDGTITPDEALTKASNILIDHFNILQKPTVKKVQVI 238 Query: 243 EDINVKSLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + K ++ELE+S R+ N LR I +GDL++ +E D+ + Sbjct: 239 KKTVAPKPEEIKIEEDKLSLSIDELEISSRAINNLRKLGINTIGDLVRLSEEDLKEAKSI 298 Query: 299 GRKSLVEIKGVLGTMGLFLG 318 GRKS+ EIK L MGL L Sbjct: 299 GRKSIKEIKDALAEMGLELA 318 >gi|228470691|ref|ZP_04055542.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas uenonis 60-3] gi|228307548|gb|EEK16544.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas uenonis 60-3] Length = 317 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 113/314 (35%), Positives = 190/314 (60%), Gaps = 7/314 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++ +PL G+A T+GNALRR+L+SSL G AI +++I+GV HE ++I GV ED Sbjct: 3 DASDHYAKFEFKPLEPGYAMTIGNALRRILLSSLEGYAIASIRIEGVEHEFATIPGVLED 62 Query: 82 LTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDI-QTVNDIEVLNPDHVICNLD 138 +T IILN+K I + + + + +T+ G AGD+ + + +V NPD VICNL Sbjct: 63 VTHIILNLKQIRFRATVEDPQEETITLHVTGRNSFKAGDLNKVLTSYKVQNPDLVICNLA 122 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 DA +E+ ++KG GYV ++ +R E+DP+ + ID +Y+PI+KV+ T E+ R Q DY Sbjct: 123 EDADFTIEIRINKGRGYVVSEENRREDDPVNTLPIDGIYTPIRKVNQTTEAYRVDQRTDY 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFNP 254 +KL + I+TDG+I +++ A++IL +F + E P++E ++ ++ + + Sbjct: 183 EKLVLEIETDGTIHPREALREAAKILISHFALFTDKEFEVELPEEEPEQLLDNQMMKVRS 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L+ + +LSVR+ NCL+ I + DL+ R ++L++ NFG+KSLVE++ L Sbjct: 243 QLMTDLATTDLSVRALNCLKAAGISTIADLLSRDREELLKIKNFGKKSLVELEQFLTDQK 302 Query: 315 LFLGMNLPDWPPES 328 L M+L + ++ Sbjct: 303 LDFDMDLSPYRLDN 316 >gi|325299105|ref|YP_004259022.1| DNA-directed RNA polymerase subunit alpha [Bacteroides salanitronis DSM 18170] gi|324318658|gb|ADY36549.1| DNA-directed RNA polymerase subunit alpha [Bacteroides salanitronis DSM 18170] Length = 330 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 118/323 (36%), Positives = 191/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + PL GF T+GNALRR+L+SSL G AI + I+GV Sbjct: 6 FQKPDKVLMLEADSK---FGKFEFRPLEPGFGITVGNALRRILLSSLEGYAINTIHIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE +++ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFATVPGVKEDVTNIILNLKQVRFKQIVEEFENEKVSITVENSTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD A ++++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKATMQIDLTINKGRGYVPADENREFCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 AVENYRVEQKTDYEKLVLEITTDGSIHPKEALKEAAKILIYHFMLFSDEKITLETSDADG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLNLSFGTDISKY 325 >gi|188996211|ref|YP_001930462.1| DNA-directed RNA polymerase, alpha subunit [Sulfurihydrogenibium sp. YO3AOP1] gi|188931278|gb|ACD65908.1| DNA-directed RNA polymerase, alpha subunit [Sulfurihydrogenibium sp. YO3AOP1] Length = 324 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 121/320 (37%), Positives = 173/320 (54%), Gaps = 7/320 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + + + P I + + + + EPL RGF T+GNALRRVL+SSL G AITAV Sbjct: 1 MSLLDFVMPTKIYWDEA-TKTDTYGKLYVEPLERGFGITIGNALRRVLLSSLPGGAITAV 59 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTV 122 +I GV HE ++IKGV ED+ +I+LN+K I LK+ + + + G V A DI+ Sbjct: 60 KIMGVPHEFTTIKGVLEDVVEIVLNLKQIRLKIDENIERDFAILEAENVGKVYAKDIKFP 119 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++ PD IC + ++ME V +G GY + IG I ID +SPI+K Sbjct: 120 AGIELVTPDVHICTISEPTKLQMEFRVERGIGYKTVEELEP-ISEIGWIIIDTAFSPIRK 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V++ VE R G DYDKL + I+TDG+IT ++++ AS IL D + K +V Sbjct: 179 VAFNVEPTRVGDKTDYDKLILEIETDGTITPDEALTKASNILIDHFNILQKPTVKKVQVI 238 Query: 243 EDINVKSLPFNPALLKK----VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + K ++ELE+S R+ N LR I +GDL++ +E D+ + Sbjct: 239 KKTVAPKSEEIKIEEDKLSLSIDELEISSRAINTLRKLGINTIGDLVRLSEEDLREAKSI 298 Query: 299 GRKSLVEIKGVLGTMGLFLG 318 GRKSL EIK L MGL L Sbjct: 299 GRKSLKEIKDALAEMGLELA 318 >gi|162446984|ref|YP_001620116.1| DNA-directed RNA polymerase subunit alpha [Acholeplasma laidlawii PG-8A] gi|161985091|gb|ABX80740.1| DNA-directed RNA polymerase, alpha subunit [Acholeplasma laidlawii PG-8A] Length = 330 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 118/314 (37%), Positives = 189/314 (60%), Gaps = 11/314 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KP ++E I +E N + +PL RG+ TLGNALRRVL+SSL GAAI V+I+G Sbjct: 5 KFEKPTSVEEI---SQEGNLGRFLIKPLERGYGLTLGNALRRVLLSSLPGAAIVNVKIEG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR---VTIFKRGPGVVTAGDIQTVND 124 V HE S+I+GV+ED+ I+LN+K + + + + ++ GP V+TAGD +D Sbjct: 62 VEHEFSTIEGVYEDVMGIVLNLKKVVFSVDSQDPQYEQQLELYAEGPAVITAGDFNLADD 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKV 183 IEV+N D I L A M +TV +G GYVPA ++ + +I ID+LY+P+++V Sbjct: 122 IEVVNKDQHIATLAEGAKFNMTVTVRRGIGYVPADQNKQYSKYELNVIPIDSLYTPVERV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 Y+VE R D D+L++ I+T+G+I ++++ALAS++L D + ++ E E Sbjct: 182 IYSVEKTRG----DLDELTIEIETNGAILAKEALALASKMLVDHFQVLVDISEKASEFDF 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++ P + K+E+L+LSVR N L+ I +G+L++ +E +++R+ + GRKS Sbjct: 238 IRDIEEEPASKKSDTKIEQLDLSVRLFNSLKRSGITTVGELLKLSEEEVMRLRSLGRKSF 297 Query: 304 VEIKGVLGTMGLFL 317 E+K L GL Sbjct: 298 KELKEKLAEHGLEF 311 >gi|282857336|ref|ZP_06266573.1| DNA-directed RNA polymerase, alpha subunit [Pyramidobacter piscolens W5455] gi|282584836|gb|EFB90167.1| DNA-directed RNA polymerase, alpha subunit [Pyramidobacter piscolens W5455] Length = 338 Score = 303 bits (776), Expect = 3e-80, Method: Composition-based stats. Identities = 112/346 (32%), Positives = 188/346 (54%), Gaps = 26/346 (7%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 E+++P I + + ++ PL RG+ T+GNALRRVL+SS++GAAI+AV+++ Sbjct: 1 MEIMRPE----IQVEECSSTAARLVIGPLERGYGQTIGNALRRVLLSSIKGAAISAVRVE 56 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 G HE ++I G+ ED+ +++LN+K + ++ ++ + + G VTA D Q +DIE Sbjct: 57 GAQHEFTTIPGMKEDVIELLLNLKHVPVRSHSAEYRTLKLDVEGGKKVTAADFQEDSDIE 116 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++PD IC L + +E+ + +G GY R P+ + IDA+YSPI +V Y Sbjct: 117 FIDPDAYICTLAEGHSLSLEVYIEQGVGYATVDRPRPSYLPVDALMIDAIYSPILRVKYE 176 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------------ 234 V++ R GQ DY+K+ M + T+G + + +VA A+++L++ + I Sbjct: 177 VQNERVGQKTDYEKIVMNVTTNGVVAPDIAVAEAAKLLREYFDIVIQELRKLHPAEPGLF 236 Query: 235 -----EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +P + + P N L K V ELELS+RS NCL I +GDL+ R++ Sbjct: 237 DDESASQPSGNGQAGDGADNPPENALLNKPVRELELSIRSENCLLRGGIHTIGDLVSRSK 296 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 D+L++ N G+ SL EI+ + G+ L + S E +K+ Sbjct: 297 DDLLKIRNLGKISLREIEEKMTKYGIVLSDD-----KASAENSSKE 337 >gi|157493247|gb|ABV57989.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 125/288 (43%), Positives = 192/288 (66%), Gaps = 8/288 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EI Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEI 286 >gi|227501161|ref|ZP_03931210.1| DNA-directed RNA polymerase [Anaerococcus tetradius ATCC 35098] gi|227216746|gb|EEI82147.1| DNA-directed RNA polymerase [Anaerococcus tetradius ATCC 35098] Length = 318 Score = 303 bits (775), Expect = 3e-80, Method: Composition-based stats. Identities = 119/313 (38%), Positives = 196/313 (62%), Gaps = 6/313 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NI+ + + EEE+ PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE Sbjct: 7 TNIQILDI-NEEEHYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ +I+LNIKG+++ D + + GP +VTA DI+ + +E+ NPDH Sbjct: 66 STIDGVVEDVPEIVLNIKGLDVTKHTDEDVTLFLDIEGPKIVTAKDIKEDSSVEIANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + + + + V+ G GY ++ ++ E+DPIG I ID+ ++P+KKV++TVE+ R Sbjct: 126 YIATVNEKSRLFIAMDVTDGKGYRISEENKKESDPIGAIAIDSSFTPVKKVNFTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-----KEVKEDINV 247 G+ DYDKL M + T+G+IT ++++A S IL D F + +EV+E++N Sbjct: 186 GESTDYDKLIMEVWTNGTITPQEALAEGSSILIDNFSFFTELPNQQFPPEVEEVEEEVND 245 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + N L +EE++LS+RS NCL+ + D+I+ TE+++ + NFG+KSL E+ Sbjct: 246 EEENLNEDLAMTIEEMDLSLRSFNCLKRAGFNRVSDIIEVTESELKAIKNFGKKSLTEVI 305 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 306 EKLDELGLSLKDE 318 >gi|260656836|gb|ACX47808.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 295 Score = 303 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 129/298 (43%), Positives = 193/298 (64%), Gaps = 8/298 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 1 LVDIEQISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 60 Query: 77 GVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ + G +T+ K G G V AGDI D+E+ NP+HVIC Sbjct: 61 GVQEDILEILLNLKGLAVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVIC 120 Query: 136 NLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L D A + M + V +G GYVP+ H + PIG + +DA YSP+ K++Y VE+AR Sbjct: 121 HLTDDKAEIAMRIKVQRGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAAR 180 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 181 VEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP 240 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 241 ---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 295 >gi|294101657|ref|YP_003553515.1| DNA-directed RNA polymerase, alpha subunit [Aminobacterium colombiense DSM 12261] gi|293616637|gb|ADE56791.1| DNA-directed RNA polymerase, alpha subunit [Aminobacterium colombiense DSM 12261] Length = 339 Score = 303 bits (775), Expect = 4e-80, Method: Composition-based stats. Identities = 121/331 (36%), Positives = 184/331 (55%), Gaps = 19/331 (5%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 EL++P I + + +I EPL RG+ TLGNALRRVL+SS++GAAIT+V++DG Sbjct: 6 ELMRPE----IRIEECSSTFGKVIVEPLERGYGVTLGNALRRVLLSSVKGAAITSVRVDG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+ +++LN+K I + K + + GP V A DIQ ++IE Sbjct: 62 VLHEFSTIPGVREDVIELMLNLKHIPVHSYSKDVKVLHLEAEGPKQVVAADIQPDSEIEF 121 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++PD +C L+ A + M+L + +G GY R P + IDA+YSP+ KV Y V Sbjct: 122 IDPDAPVCVLEDGAQLSMDLYIEQGVGYATIDRPRPAYLPADALLIDAIYSPVLKVHYDV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----- 242 E+AR GQ DY++L + + T+G I + +V A++I++ G + + ++ Sbjct: 182 EAARVGQRTDYERLVLDVTTNGVIAPDVAVGEAAKIIRSYFGFIVEDVDKLHPLEGIDEE 241 Query: 243 ----------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + + L + V ELELS+RS NCL I +GDL+ RT D+ Sbjct: 242 EAALSADEAAAEAAEAAKEEDDLLSRPVRELELSIRSENCLLRGGIHTIGDLLTRTRDDL 301 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L++ N G+ SL EI+ L GL L + Sbjct: 302 LKIRNLGKISLREIEERLEKQGLRLSTEKSE 332 >gi|167752412|ref|ZP_02424539.1| hypothetical protein ALIPUT_00656 [Alistipes putredinis DSM 17216] gi|167660653|gb|EDS04783.1| hypothetical protein ALIPUT_00656 [Alistipes putredinis DSM 17216] Length = 330 Score = 302 bits (774), Expect = 4e-80, Method: Composition-based stats. Identities = 114/321 (35%), Positives = 185/321 (57%), Gaps = 10/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP + ++ + + PL GF T+GNALRR+L+SSL G AIT V++ GV Sbjct: 6 FQKPEKV---IMLESTSSFGKFEFRPLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDI 125 HE ++I GV E + DIILN+K + + D+ ++V++ G +TAG I ++ Sbjct: 63 DHEFAAIPGVMEGMIDIILNLKQVRFIRTVDNQDAEKVSVNVAGVTELTAGYISNYLSFF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNP+ VIC+L +++ LT+ KG GYVPA+ + + G + ID++++PIK V Y Sbjct: 123 KVLNPELVICHLAPGTKMQLTLTIGKGRGYVPAEENTPADCEFGTLPIDSIFTPIKNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 ++E+ R Q DY+KL++ I TDGSI D++ A++IL +F I Sbjct: 183 SIENYRVEQKTDYEKLNLEITTDGSIHPTDALKEAAKILIQHFMLFSDEKITVNMEDTNG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + L L K+ + +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+K Sbjct: 243 AEEFDEDILHMRQLLKTKLSDQDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLP 322 SL E+ +L ++ L GM++ Sbjct: 303 SLTELDELLASLNLKFGMDVS 323 >gi|189485112|ref|YP_001956053.1| DNA-directed RNA polymerase alpha chain [uncultured Termite group 1 bacterium phylotype Rs-D17] gi|170287071|dbj|BAG13592.1| DNA-directed RNA polymerase alpha chain [uncultured Termite group 1 bacterium phylotype Rs-D17] Length = 323 Score = 302 bits (773), Expect = 5e-80, Method: Composition-based stats. Identities = 114/316 (36%), Positives = 182/316 (57%), Gaps = 5/316 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 +L K + + + A P RG+ HT+GN+LRR+L+SSL GAAIT+V+I G Sbjct: 5 DLEKLRKL-ILDEKTATKFYGHFSAGPFERGYGHTIGNSLRRILLSSLEGAAITSVKIAG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE + +KGV ED+ I+LN+K I +K+ + +++ + + G VTA DI+ +E+ Sbjct: 64 AFHEFAVLKGVKEDVAQIVLNLKRIKVKLHSEGPEKLYLKVKKAGTVTAKDIEANASVEI 123 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ I N+D + MEL S G GYV A+ ++ G I +D+L+SPI KV+Y V Sbjct: 124 MNPEQEIANIDNGTTLEMELEASLGKGYVLAEEMKSNGYSSGTIILDSLFSPIIKVNYEV 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R Q L+YDKL + I TDGS++ +D++ ++ IL+ L +F + +EV D Sbjct: 184 ENTRVEQTLNYDKLIIEIWTDGSVSPKDALMRSAEILRKILVIFTDNAFKTEEVSADKE- 242 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L K V +++SV++ L+ I + DL++ E D+L N ++S EIK Sbjct: 243 ---EQDGILGKPVSIMDISVKTLKSLKSAGIETVEDLVKIKEEDLLNFNNLSKRSCEEIK 299 Query: 308 GVLGTMGLFLGMNLPD 323 + +GL LGM + D Sbjct: 300 NRVKELGLSLGMKIED 315 >gi|187251794|ref|YP_001876276.1| DNA-directed RNA polymerase subunit alpha [Elusimicrobium minutum Pei191] gi|186971954|gb|ACC98939.1| DNA-directed RNA polymerase, alpha subunit [Elusimicrobium minutum Pei191] Length = 329 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 120/327 (36%), Positives = 182/327 (55%), Gaps = 13/327 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + +L+ P I+ +IAEP G+ HT+GN+LRR+L+S L G+A+TAV++ Sbjct: 3 FNQLVLPTKIQLDE-KTVTPFYGRIIAEPYESGYGHTVGNSLRRILLSGLDGSAVTAVRV 61 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 G +HE S+I V ED+ +I+LN+K + +K+ G + + V + PG VTA DI V+ + Sbjct: 62 RGAVHEYSTIPNVKEDVINILLNLKKLRVKLEGKNREYVYLTASKPGKVTAKDIAEVSGV 121 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++N D I NL+ + +E+ +S+G GYVPA+ P G I +DA++SPI KV Y Sbjct: 122 EIINKDLEIANLEQGGKLELEIEISQGKGYVPAEDLSKIQRPAGFIPVDAIFSPILKVHY 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE AR GQ DYD+L + I TDG++ ++ A+ +L L +F E + Sbjct: 182 DVEPARVGQKTDYDRLVIQITTDGTLEPAKALHKAAVLLSQSLHIFTIEGEEVNAAAPET 241 Query: 246 NV------------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + L + VE +ELS RS NCL+ E + + DL+ +TE D+ Sbjct: 242 EPLSTTGSVSGVSAVNSKVEELLNQSVEFIELSSRSINCLKSEGVNTVKDLVSKTEDDLK 301 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMN 320 + NFG +SL E+K L M L LGM Sbjct: 302 MIKNFGTRSLDEVKERLAEMNLSLGMK 328 >gi|282858348|ref|ZP_06267528.1| DNA-directed RNA polymerase, alpha subunit [Prevotella bivia JCVIHMP010] gi|282588796|gb|EFB93921.1| DNA-directed RNA polymerase, alpha subunit [Prevotella bivia JCVIHMP010] Length = 332 Score = 302 bits (773), Expect = 6e-80, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 190/325 (58%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANDTFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE SS+ GV ED+T+IILN+K + + + +++V+I AGDI + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFRQVVEEFENEKVSITVENSTEFKAGDISNYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A +++ELT++KG GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIELTINKGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI +D++ A++ L +F I E +E Sbjct: 183 SVEPYRVEQKTDYDKLVIEVTTDGSIHPKDALKEAAKTLIYHFMLFSDEKITLESSDQEN 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEILHMRQLLKTKLTDASLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L + L G ++ + Sbjct: 303 KKSLSELDDLLEGLNLSFGTDITKY 327 >gi|291514968|emb|CBK64178.1| DNA-directed RNA polymerase subunit alpha [Alistipes shahii WAL 8301] Length = 317 Score = 301 bits (772), Expect = 8e-80, Method: Composition-based stats. Identities = 114/308 (37%), Positives = 181/308 (58%), Gaps = 7/308 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL GF T+GNALRR+L+SSL G AIT V++ GV HE ++I GV ED Sbjct: 3 ESTSSFGKFEFRPLEPGFGMTVGNALRRILLSSLEGYAITTVKVAGVDHEFAAIPGVMED 62 Query: 82 LTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLD 138 + +IILN+K + + D+ ++V+I G +TAG I ++ +VLNPD VIC+L Sbjct: 63 MLNIILNLKQVRFIRTVDNQDAEKVSINVAGVTELTAGYISNYLSFFKVLNPDLVICHLA 122 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++M LT+ KG GYVPA+ + G + ID++++PIK V Y++E+ R Q DY Sbjct: 123 PGTKMQMTLTIGKGRGYVPAEENAPAESEFGTLPIDSIFTPIKNVKYSIENYRVEQKTDY 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNP 254 +KL++ I TDGSI ++++ A++IL +F I E+ + L Sbjct: 183 EKLNLEITTDGSIHPKEALKEAAKILIQHFMLFSDEKITVNMEDTNGAEEFDEDVLHMRQ 242 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+ + +LSVR+ NCL+ ++ +GDL++ D+L+ NFG+KSL E+ +L ++ Sbjct: 243 LLKTKLSDQDLSVRALNCLKAADVDTVGDLVKLNRNDLLKFRNFGKKSLTELDELLTSLN 302 Query: 315 LFLGMNLP 322 L GM++ Sbjct: 303 LKFGMDVS 310 >gi|307565140|ref|ZP_07627648.1| DNA-directed RNA polymerase, alpha subunit [Prevotella amnii CRIS 21A-A] gi|307346171|gb|EFN91500.1| DNA-directed RNA polymerase, alpha subunit [Prevotella amnii CRIS 21A-A] Length = 332 Score = 301 bits (771), Expect = 9e-80, Method: Composition-based stats. Identities = 122/325 (37%), Positives = 191/325 (58%), Gaps = 12/325 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + E PL GF T+GNALRR+L+SSL G AI ++I GV Sbjct: 6 FQKPDKV---VMLEANETFGKFEFRPLEPGFGVTIGNALRRILLSSLEGFAINTIRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQT-VNDI 125 HE SS+ GV ED+T+IILN+K + + + +++V+I AGDI + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFRQVVEEFENEKVSITVENSTEFKAGDISNYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA +R + ++ ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDSKASMQIDLTINKGRGYVPADENREFCTDVNVLPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI ++++ A++ L +F I E P +E Sbjct: 183 SVEPYRVEQKTDYDKLIIEVTTDGSIPPKEALKEAAKTLIHHFMLFSDEKITLESPDQEN 242 Query: 242 KEDINVKSLPFNPALLKKVEE--LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 ++ + + L L K+ + L LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG Sbjct: 243 NQEFDEEVLHMRQLLKTKLTDATLNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFG 302 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL E+ +L + L G ++ + Sbjct: 303 KKSLSELDDLLEGLNLSFGTDITKY 327 >gi|157493243|gb|ABV57987.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 286 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 125/289 (43%), Positives = 192/289 (66%), Gaps = 8/289 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED Sbjct: 1 QISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQED 60 Query: 82 LTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-V 139 + +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L Sbjct: 61 ILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSD 120 Query: 140 DAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 +A + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q Sbjct: 121 NAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRT 180 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P L Sbjct: 181 DLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---IL 237 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >gi|258646025|ref|ZP_05733494.1| DNA-directed RNA polymerase, alpha subunit [Dialister invisus DSM 15470] gi|260403397|gb|EEW96944.1| DNA-directed RNA polymerase, alpha subunit [Dialister invisus DSM 15470] Length = 326 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 124/312 (39%), Positives = 177/312 (56%), Gaps = 14/312 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + PL RG+ TLGN+LRRVL+SSL G AIT++ IDGV HE S++ GV ED Sbjct: 15 SADGRYGKFECGPLERGYGITLGNSLRRVLLSSLDGVAITSINIDGVEHEFSTVPGVRED 74 Query: 82 LTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 +TD+ILN+K I + +V + GV+ AGD+Q ++I+VLN D +C LD Sbjct: 75 VTDMILNLKKIRFIAYEEAEFPIKVRVDVTKEGVLLAGDLQLPSEIDVLNGDLALCTLDT 134 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +A + MELT+ +GHGYVP +R E+DPIG I ID++YSP+ K +Y V R G +DYD Sbjct: 135 EAHLGMELTIDRGHGYVPFTKNRREDDPIGSIPIDSIYSPVVKCNYNVSDTRVGNEMDYD 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFIN---------FEEPKKEVKEDINVKSL 250 KL++ ++TDGSI D+VA A+ IL + +F + + Sbjct: 195 KLTLELETDGSIKASDAVATAATILMNCFELFRPLATGPILEARDGSDMARQSSDQQAEE 254 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +EELELSVR+ NCL+ I + L ++TE ++ R+ N G+KS+ EI L Sbjct: 255 EKIDLSGIPIEELELSVRAFNCLKRAEINTLDQLAEKTEEELGRVRNLGKKSIDEIIEKL 314 Query: 311 GT---MGLFLGM 319 +GL L Sbjct: 315 AQFRGLGLHLKD 326 >gi|145577855|gb|ABP87378.1| RpoA [Vibrio sp. MSSRF10] Length = 286 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 128/287 (44%), Positives = 192/287 (66%), Gaps = 8/287 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 3 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 62 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 63 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDGNA 122 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Q D Sbjct: 123 EVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDL 182 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 183 DKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 239 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 240 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >gi|145577841|gb|ABP87371.1| RpoA [Vibrio rhizosphaerae] gi|162955840|gb|ABY25295.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF6] Length = 286 Score = 301 bits (771), Expect = 1e-79, Method: Composition-based stats. Identities = 130/289 (44%), Positives = 194/289 (67%), Gaps = 8/289 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED Sbjct: 1 QISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQED 60 Query: 82 LTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L+ D Sbjct: 61 ILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLNDD 120 Query: 141 -AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Q Sbjct: 121 NAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRT 180 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P L Sbjct: 181 DLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---IL 237 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >gi|328814021|gb|AEB52126.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 262 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 117/262 (44%), Positives = 173/262 (66%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T II Sbjct: 1 YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A Sbjct: 61 LNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHAR 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I Sbjct: 121 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDGSI +++++LA++I+ + L +F+N + K + + + L +EEL+LS Sbjct: 181 TDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLS 240 Query: 267 VRSTNCLRGENIVYMGDLIQRT 288 VRS NCL+ I + +L ++ Sbjct: 241 VRSYNCLKRAGINTVQELTNKS 262 >gi|157493231|gb|ABV57981.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493233|gb|ABV57982.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493239|gb|ABV57985.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493241|gb|ABV57986.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493245|gb|ABV57988.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493249|gb|ABV57990.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493251|gb|ABV57991.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493253|gb|ABV57992.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493257|gb|ABV57994.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493259|gb|ABV57995.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493261|gb|ABV57996.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493265|gb|ABV57998.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493269|gb|ABV58000.1| RNA polymerase alpha subunit [Vibrio mimicus VM603] gi|157493271|gb|ABV58001.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493289|gb|ABV58010.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493291|gb|ABV58011.1| RNA polymerase alpha subunit [Vibrio mimicus] gi|157493293|gb|ABV58012.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 285 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 124/287 (43%), Positives = 191/287 (66%), Gaps = 8/287 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|151400011|gb|ABS11121.1| RpoA [Vibrio cholerae] gi|151400013|gb|ABS11122.1| RpoA [Vibrio cholerae] gi|151400015|gb|ABS11123.1| RpoA [Vibrio cholerae] gi|151400017|gb|ABS11124.1| RpoA [Vibrio cholerae] gi|151400019|gb|ABS11125.1| RpoA [Vibrio cholerae] gi|151400021|gb|ABS11126.1| RpoA [Vibrio cholerae] gi|151400023|gb|ABS11127.1| RpoA [Vibrio mimicus] Length = 283 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 124/285 (43%), Positives = 191/285 (67%), Gaps = 8/285 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I Sbjct: 2 THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEI 61 Query: 86 ILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVV 143 +LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + Sbjct: 62 LLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAI 121 Query: 144 RMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DK Sbjct: 122 AMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDK 181 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V Sbjct: 182 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPV 238 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 283 >gi|163848051|ref|YP_001636095.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus aurantiacus J-10-fl] gi|222525940|ref|YP_002570411.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus sp. Y-400-fl] gi|163669340|gb|ABY35706.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus aurantiacus J-10-fl] gi|222449819|gb|ACM54085.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus sp. Y-400-fl] Length = 335 Score = 301 bits (770), Expect = 1e-79, Method: Composition-based stats. Identities = 118/320 (36%), Positives = 174/320 (54%), Gaps = 10/320 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 I P I L EN PL RG +LGNALRRVL+SS+ GAA+T +++ GV Sbjct: 8 FITPR----ITLVAAAENYGRFAIAPLQRGHGSSLGNALRRVLLSSIPGAAVTRIKVSGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE SSI GV ED T ++LNIKGI L+ D + + K+GPG V A DI + +E++ Sbjct: 64 IHEFSSIPGVVEDGTQLVLNIKGIRLRSYSDRAVALQLIKQGPGPVFARDIDAPSTVEIV 123 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NP H IC +D + M+LTV +G G A PIG I +DAL+SPI +V++ V Sbjct: 124 NPQHYICTIDDEHTTFEMQLTVERGRGVQLADTVS--GMPIGEIAVDALFSPIPRVNFLV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E + + YD+L + I TDG+I D+++ A++IL G +N +P+ E + ++ Sbjct: 182 EEMGDDPLTGYDRLILEIWTDGTIKPGDALSHAAQILAQYFGRIVNLNQPE-EPEPSAHL 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + ++EL LS R+ N LR I +G L++ + ++ + N G K + EI Sbjct: 241 PPPIPEEIASRTIDELGLSTRTYNSLRRAEIHTIGQLLRLDDRGLMSIRNLGAKGIEEIH 300 Query: 308 GVLGTMGLFLG--MNLPDWP 325 L +G G LP P Sbjct: 301 QRLEALGYRSGSSSRLPAAP 320 >gi|124112107|ref|YP_001019081.1| alpha subunit of RNA polymerase [Chlorokybus atmophyticus] gi|158512761|sp|A2CI44|RPOA_CHLAT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|124012216|gb|ABM87965.1| alpha subunit of RNA polymerase [Chlorokybus atmophyticus] Length = 318 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 99/305 (32%), Positives = 156/305 (51%), Gaps = 9/305 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL G T+GN RRVL+ L GA IT+VQI GV HE S+I GV Sbjct: 17 RIESRRNHYGRFVIAPLEIGQGITVGNVFRRVLLGDLEGACITSVQIPGVNHEFSTIHGV 76 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI+LN+K I LK +R + +GP V A D+Q + IE+++PD I + Sbjct: 77 REAVLDILLNLKEIVLKTQSQETQRGHLSVQGPSTVLARDLQLPSSIELVDPDQYIATIS 136 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME TV G GY + + + + ++ IDA++ P+ KV+YTVE G Sbjct: 137 GRVSLNMEFTVEVGKGYQLPDYEKKKTFQVDVLPIDAVFMPVTKVNYTVEENYGGDRS-Q 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++ + + T+GSI ++ L+ + + N + E + + Sbjct: 196 ERVIIEVWTNGSINSRQAIDLSVNKIINLFSPLQNVRSIEHEP-----LVKEKDSKMTEV 250 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 VEEL+LSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E+ L LG Sbjct: 251 LVEELDLSVRAYNCLKRAQIHTVSDLLSYSQEDLLEIKNFGRRSAEEVIEGL---QKRLG 307 Query: 319 MNLPD 323 ++LP Sbjct: 308 IHLPK 312 >gi|298253052|ref|ZP_06976844.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis 5-1] gi|297532447|gb|EFH71333.1| DNA-directed RNA polymerase, alpha subunit [Gardnerella vaginalis 5-1] Length = 290 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 108/280 (38%), Positives = 162/280 (57%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 ++SS+ GAA+T+V+I G LHE +++ GV ED+T+I+LNIKGI L D + + K G Sbjct: 1 MLSSIPGAAVTSVRISGALHEFTTLPGVEEDVTEILLNIKGIVLTSEYDEPVVMYLRKNG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 G TAGDI + + NPD I L D + +E TV +G GYVPA+ ++ EN IG Sbjct: 61 KGEATAGDITPPAGVTIANPDLHIATLAEDGELEIEFTVERGRGYVPAQMNKQENSEIGR 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +D++YSP+ KVSY VE+ R Q D+DKL + ++T +IT D+VA A L + G+ Sbjct: 121 IPVDSIYSPVLKVSYKVEATRVEQRTDFDKLILDVETKPAITPRDAVASAGSTLVELFGL 180 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + V+ + L +E++ + RS NCL+ E I +G+L+ TE Sbjct: 181 CRELNVDAEGVEVGPAPTHDEADSQLAIPIEDMNFTQRSYNCLKREGIHTVGELVVHTEQ 240 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIE 330 D+L + NFG KS+ E+K L MGL L + + ++E Sbjct: 241 DLLDIRNFGMKSIDEVKEKLQAMGLSLKASPIGFDANNLE 280 >gi|325479152|gb|EGC82249.1| DNA-directed RNA polymerase, alpha subunit [Anaerococcus prevotii ACS-065-V-Col13] Length = 318 Score = 300 bits (769), Expect = 2e-79, Method: Composition-based stats. Identities = 113/313 (36%), Positives = 197/313 (62%), Gaps = 6/313 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NI+ + + +E EN PL RG+ T+GN++RRVL+SSL G++++ + I+GVLHE Sbjct: 7 TNIQILDIVEE-ENYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIEGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I GV ED+ +I+LNIKG+++ D + + GP +VTA DI+ + +++ NPDH Sbjct: 66 STIDGVVEDVPEIVLNIKGLDVTKHTDEDVTLFLDVEGPKIVTAKDIKADSLVDIANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + + + + V+ G GY +++++ E+DPIG I ID+ ++P++KV+YTVE+ R Sbjct: 126 YIATVNEKSRLFIAMDVTDGKGYRISENNKDESDPIGTIAIDSSFTPVEKVNYTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G+ DYDKL + + T+G+I+ +++++L S IL + + +F N + K +E+I + Sbjct: 186 GESTDYDKLILEVWTNGTISPQEALSLGSNILIEDVSLFNNLPDMKFPPEEEIIEEEENN 245 Query: 253 NPALL-----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+LS+RS NCL+ + D+++ +E+++ + NFG+KSL E+ Sbjct: 246 EEEALSEDLSMTIEELDLSLRSFNCLKRAGFDKVADIVEVSESELKSIKNFGKKSLTEVM 305 Query: 308 GVLGTMGLFLGMN 320 L +GL L Sbjct: 306 DKLDELGLSLKDE 318 >gi|218961406|ref|YP_001741181.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Candidatus Cloacamonas acidaminovorans] gi|167730063|emb|CAO80975.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Candidatus Cloacamonas acidaminovorans] Length = 391 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 110/324 (33%), Positives = 178/324 (54%), Gaps = 4/324 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ + L PN ++Y PL G+ T+GN LRR+L+SS++GAA+ Sbjct: 1 MMY--LEPLQMPNEVDYDKA-SYSRTYGKFEIGPLEPGYGTTIGNTLRRILLSSIQGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+G+ HE I G + D D+IL +K + + S + + +G GV+TA IQ Sbjct: 58 RFVRIEGLHHEFCPIPGTNSDYIDLILRLKQLVISSSSVEEVPLVLEHKGKGVITASMIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 ++++N D + + D R+E+ V G GYV A E +G I +D++YSP+ Sbjct: 118 ETAYVKIINKDLYLLEVVDDIDFRLEMIVGIGRGYVSADRQNPEGKAVGFIPVDSIYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKK 239 KV+++V R + +++D+L M I T+G++ ++ LA++IL+D FE EP+ Sbjct: 178 LKVNFSVSHQRVKERMNFDRLIMEIYTNGAVEPSIALFLAAKILKDMAAKISLFEIEPQY 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 +++ + L V+E+ELSVR+ NCL I +GDL+ +TEA+ML+ NFG Sbjct: 238 IRDIELDPELEEKERILKTSVKEIELSVRAANCLAQAKIETIGDLVSKTEAEMLKFRNFG 297 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPD 323 +KSL EI L L LGM++ Sbjct: 298 KKSLEEIVQKLKKYDLHLGMDVEG 321 >gi|260891349|ref|ZP_05902612.1| DNA-directed RNA polymerase, alpha subunit [Leptotrichia hofstadii F0254] gi|260858732|gb|EEX73232.1| DNA-directed RNA polymerase, alpha subunit [Leptotrichia hofstadii F0254] Length = 324 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 115/310 (37%), Positives = 181/310 (58%), Gaps = 4/310 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + +E+ EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+G Sbjct: 13 LTEEKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +TDIILN+K I ++ K++T+ +GP V+TA DI + ++NP+ VI + Sbjct: 73 VKEAVTDIILNVKEIVVEADEPGEKKMTLSVKGPAVITAADIHVEPGLRIINPEQVIMTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V + Sbjct: 133 TTDRQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTN 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFN 253 YDKL + I TDGSI +D+++ A +L L F N + + E + N Sbjct: 193 YDKLILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELAEADAENEN 252 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + + Sbjct: 253 NIEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKEL 312 Query: 314 GLFLGMNLPD 323 G LG N + Sbjct: 313 GYDLGDNQSN 322 >gi|219848267|ref|YP_002462700.1| DNA-directed RNA polymerase subunit alpha [Chloroflexus aggregans DSM 9485] gi|219542526|gb|ACL24264.1| DNA-directed RNA polymerase, alpha subunit [Chloroflexus aggregans DSM 9485] Length = 337 Score = 300 bits (768), Expect = 2e-79, Method: Composition-based stats. Identities = 112/320 (35%), Positives = 176/320 (55%), Gaps = 8/320 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 LI P + L EN PL RG +LGNALRRVL+SS+ GAA+T ++I GV Sbjct: 8 LITPR----VTLLAAAENYGRFAIAPLQRGHGTSLGNALRRVLLSSIPGAAVTRIKITGV 63 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +HE ++I GV ED T ++LN+KGI L+ D + + K+GPG V AGDI + +E++ Sbjct: 64 IHEFTAIPGVVEDGTQLVLNVKGIRLRSYSDRAVALQLVKQGPGPVFAGDIDAPSTVEIV 123 Query: 129 NPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 NP H +C +D + + M+LTV +G G A PIG I +DAL+SPI +V++ V Sbjct: 124 NPQHYLCTIDDEHTTLEMQLTVERGRGVQLADTVS--GMPIGEIAVDALFSPIPRVNFLV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E + YD+L + I TDG+I D+++ A++IL ++ +P+ E ++ + Sbjct: 182 EEIGGDPLTGYDRLIIEIWTDGTIKPGDALSHAAQILTQYFSRIVSLNQPE-ESEQQPTL 240 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + ++EL LS R+ N LR +I +G L++ + ++ + N G K + EI Sbjct: 241 PPPIPDEIANRTIDELGLSTRTYNSLRRADIQTIGQLLRLDDRGLMSIRNLGAKGIEEIH 300 Query: 308 GVLGTMGLFLGMNLPDWPPE 327 L +G G P+ Sbjct: 301 QRLAALGYRSGETTSGHLPD 320 >gi|269122553|ref|YP_003310730.1| DNA-directed RNA polymerase, subunit alpha [Sebaldella termitidis ATCC 33386] gi|268616431|gb|ACZ10799.1| DNA-directed RNA polymerase, alpha subunit [Sebaldella termitidis ATCC 33386] Length = 321 Score = 299 bits (767), Expect = 3e-79, Method: Composition-based stats. Identities = 123/308 (39%), Positives = 189/308 (61%), Gaps = 4/308 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + ++ + EPL RG+ T+GNALRRVL+SS+ G+AI V+IDGVL+E S+I+ Sbjct: 12 KLKEDKTDDFHAIYTLEPLYRGYGATIGNALRRVLLSSIPGSAIKGVKIDGVLNEFSTIE 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +TDIILNIK I ++ K++++ +GP +TA DI ++++NPD VI Sbjct: 72 GVKEAVTDIILNIKEIVVESDEPGEKKMSLSVKGPREITARDIILEPGLKIINPDQVIAT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + ME V G G+V ++ TEN PIG I +DA+Y+PIKK+SY+VE G+ Sbjct: 132 ITTKREINMEFLVDSGEGFVVSEEIETENWPIGYIAVDAIYTPIKKISYSVEDTMVGRAT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPF 252 DYDKL++ I TDGSI D+++ A ++ L F N E+ + E + + +++ + Sbjct: 192 DYDKLTLDITTDGSIEIRDALSYAVELISFHLNPFTNIGNSMEKFRSEDEVESSIEVISE 251 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 N K+EEL+ +VRS NCL+ + +GDL + T A++L++ N GRKSL EI + Sbjct: 252 NNMDDMKIEELDFTVRSYNCLKKAGVNTIGDLGKMTYAELLKIKNLGRKSLNEIIDKMKE 311 Query: 313 MGLFLGMN 320 +G L N Sbjct: 312 LGFDLNDN 319 >gi|328814007|gb|AEB52119.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 258 Score = 299 bits (766), Expect = 3e-79, Method: Composition-based stats. Identities = 114/258 (44%), Positives = 172/258 (66%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNIK Sbjct: 1 VVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 61 KLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GS Sbjct: 121 KGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVRS Sbjct: 181 ISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSY 240 Query: 271 NCLRGENIVYMGDLIQRT 288 NCL+ I + +L +T Sbjct: 241 NCLKRAGINTVQELTNKT 258 >gi|221632951|ref|YP_002522174.1| DNA-directed RNA polymerase subunit alpha [Thermomicrobium roseum DSM 5159] gi|221156271|gb|ACM05398.1| DNA-directed RNA polymerase, alpha subunit [Thermomicrobium roseum DSM 5159] Length = 326 Score = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 117/313 (37%), Positives = 173/313 (55%), Gaps = 11/313 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +P I+ + EPL G+ TLGNALRR+L+ SL GAAIT ++I G Sbjct: 3 DFARPRVIQT----HAGPTYGRFVVEPLEPGYGTTLGNALRRILLRSLPGAAITRIRIAG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 V HE S+I+GV ED+T+I+LN+KG+ L+ + + R T+F +G GVV AGD+ ++E Sbjct: 59 VWHEFSTIEGVREDVTEIVLNLKGVRLRAVTEFRETRATLFAQGEGVVRAGDVDWPAEVE 118 Query: 127 VLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 V+NPDHVI LD D A + M+L + +G GY+PA E IG I IDA+++P KV+Y Sbjct: 119 VVNPDHVIATLDNDQARLEMDLWIGRGRGYLPA--EAQEIRSIGEIPIDAIFTPTLKVNY 176 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R G DYD+L + I TDG++ ++ A+RIL FE E + Sbjct: 177 VVEHTRVGGATDYDRLILEIVTDGTVEPAKALVEAARILVQHARWIAEFESEGAEEPVEE 236 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + + E+ LS R N LR I +G ++ +L + NFG ++L E Sbjct: 237 WSVA---HVDDTRLLSEIGLSQRVLNALRARGIERVGQVLAMRPDQLLGIRNFGPRALQE 293 Query: 306 IKGVLGTMGLFLG 318 ++ L G G Sbjct: 294 LRERLQENGYTEG 306 >gi|303231259|ref|ZP_07317997.1| DNA-directed RNA polymerase, alpha subunit [Veillonella atypica ACS-049-V-Sch6] gi|302514166|gb|EFL56170.1| DNA-directed RNA polymerase, alpha subunit [Veillonella atypica ACS-049-V-Sch6] Length = 332 Score = 299 bits (766), Expect = 4e-79, Method: Composition-based stats. Identities = 120/326 (36%), Positives = 183/326 (56%), Gaps = 18/326 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIAEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ D+ V + GV+TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKLEEDAEWPLEVHFDFQKDGVLTAADLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----- 242 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V+ Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQN 244 Query: 243 ------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 245 LEGDVVDPTPQDVQEDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 304 Query: 297 NFGRKSLVEIKGVLGTM--GLFLGMN 320 N G+KS+ EI L G L Sbjct: 305 NLGKKSIDEIAEKLSNHPGGFSLKQK 330 >gi|328813969|gb|AEB52100.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 275 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 119/270 (44%), Positives = 178/270 (65%), Gaps = 2/270 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED Sbjct: 6 EETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + LK+ + K + I +GP VTA DIQ D+ +LN D I + A Sbjct: 66 VTQIILNLKQVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGA 125 Query: 142 VVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYD Sbjct: 126 ELHVKMTADKGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYD 185 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GS+T ++++LA++IL + L MF+N E + + + + L K Sbjct: 186 KLTLDVWTNGSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKT 245 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +EEL+LSVRS NCL+ +I + DL +RTE Sbjct: 246 IEELDLSVRSYNCLKRADIQTVKDLTERTE 275 >gi|300521220|gb|ADK25829.1| RpoA [Vibrio vulnificus] gi|300521222|gb|ADK25830.1| RpoA [Vibrio vulnificus] gi|300521224|gb|ADK25831.1| RpoA [Vibrio vulnificus] gi|300521226|gb|ADK25832.1| RpoA [Vibrio vulnificus] gi|300521228|gb|ADK25833.1| RpoA [Vibrio vulnificus] gi|300521230|gb|ADK25834.1| RpoA [Vibrio vulnificus] gi|300521232|gb|ADK25835.1| RpoA [Vibrio vulnificus] gi|300521234|gb|ADK25836.1| RpoA [Vibrio vulnificus] gi|300521236|gb|ADK25837.1| RpoA [Vibrio vulnificus] gi|300521238|gb|ADK25838.1| RpoA [Vibrio vulnificus] gi|300521240|gb|ADK25839.1| RpoA [Vibrio vulnificus] Length = 286 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 127/289 (43%), Positives = 190/289 (65%), Gaps = 8/289 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED Sbjct: 1 QISSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQED 60 Query: 82 LTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D Sbjct: 61 ILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDD 120 Query: 141 -AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q Sbjct: 121 NAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRT 180 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P L Sbjct: 181 DLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---IL 237 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 286 >gi|319789266|ref|YP_004150899.1| DNA-directed RNA polymerase, alpha subunit [Thermovibrio ammonificans HB-1] gi|317113768|gb|ADU96258.1| DNA-directed RNA polymerase, alpha subunit [Thermovibrio ammonificans HB-1] Length = 316 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 111/314 (35%), Positives = 170/314 (54%), Gaps = 6/314 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E I P + + + EPL +G+ T+GNALRRVL+SS+ GAA TAV+ +G Sbjct: 3 EFITPERFTW---EEHTNTYGRFVVEPLEKGYGVTIGNALRRVLLSSIEGAAPTAVKFEG 59 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE +++ GV EDLT+I+LNIK + + G+ + + K+GPG V A D + + +E+ Sbjct: 60 AYHEFTTLPGVVEDLTEIVLNIKKLRFVLHGEGPVFIELKKKGPGKVYAKDFELPSQLEL 119 Query: 128 LNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVS 184 L PD I LD + + + L V KG G+V ++ + +G I +DA +SPIKKV+ Sbjct: 120 LTPDQEIATLDNESSEIEIHLRVDKGKGFVLSEDIQEIFDISTLGWIPLDADFSPIKKVT 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + VE R G+ DY+KL+ I TDGSIT +D+V AS IL D + E+ Sbjct: 180 FKVEDTRVGRRTDYNKLTFEIWTDGSITPKDAVVRASNILIDHFSQIRDRLVEALFAVEE 239 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + L + +EE LS R+ L+ I + DL+ ++ + G+KS+ Sbjct: 240 AQEPKEEVSEVLNQTLEEAGLSGRALKVLKEHGIETVKDLVALDRKELESLKGLGKKSIA 299 Query: 305 EIKGVLGTMGLFLG 318 +I+ L +GL LG Sbjct: 300 DIEAFLSQLGLELG 313 >gi|237736198|ref|ZP_04566679.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium mortiferum ATCC 9817] gi|229421751|gb|EEO36798.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium mortiferum ATCC 9817] Length = 325 Score = 299 bits (765), Expect = 5e-79, Method: Composition-based stats. Identities = 121/309 (39%), Positives = 186/309 (60%), Gaps = 6/309 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+I+GVL E S ++G Sbjct: 13 ITEVKENEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRINGVLSEFSVMEG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILNIK I +K +++T+ +GP VTA DI IE++NP+ VIC + Sbjct: 73 VKEAVTEIILNIKEIVVKAETSGERKMTLSVKGPKTVTAADIIPDVGIEIVNPEQVICTI 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSYT++ G++ D Sbjct: 133 TTDRELDMEFLVDTGEGFVVSEDIERKDWPVDYIAVDAIYTPIRKVSYTIQDTMVGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------KKEVKEDINVKSLP 251 +DKL++ I+TDGSI D+++ A +L+ F+ + E +E+ + Sbjct: 193 FDKLTLEIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRAEVEDEEEDSTTHSK 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + Sbjct: 253 DDNILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMK 312 Query: 312 TMGLFLGMN 320 +G L N Sbjct: 313 ELGYDLTQN 321 >gi|298372561|ref|ZP_06982551.1| DNA-directed RNA polymerase, alpha subunit [Bacteroidetes oral taxon 274 str. F0058] gi|298275465|gb|EFI17016.1| DNA-directed RNA polymerase, alpha subunit [Bacteroidetes oral taxon 274 str. F0058] Length = 331 Score = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 113/323 (34%), Positives = 188/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +PN + + + E + PL G+ T+GNALRRVL+SSL G AIT+++I V Sbjct: 6 FQRPNQVYMV---EATEFKGRFEFAPLEPGYGITIGNALRRVLLSSLEGYAITSLKISEV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTV-NDI 125 +HE +I V +D+T+IILN+K + K ++ + ++I V+ A D++ + Sbjct: 63 VHEFDTIPNVIDDVTNIILNLKQVRFKHIAGAETSESISITVSNKEVLKAKDLEEGMANF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +VLNPDHVIC++D A MEL + KG GY+PA ++ + IG I IDA+++PI V Y Sbjct: 123 KVLNPDHVICSMDKSAEFTMELKIEKGRGYLPADENKNVSKEIGWIGIDAIFTPIVNVMY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF----EEPKKEV 241 +VE R Q DY+KL + I TDGS+ + ++ A++IL +F + E + Sbjct: 183 SVEDERVEQKTDYNKLILEIQTDGSVHPKQALKEAAKILIQHFMLFTDEKITLEIEDIDD 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 ++ + L L ++ +L+LSVR+ NCL+ N+ +GDL + + ++L+ NFG+K Sbjct: 243 NDEFDEDFLKKRQLLKTQLTDLDLSVRALNCLKSANLETLGDLARIPKPELLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ L ++ L G+++ + Sbjct: 303 SLTELEQKLESLNLHFGIDIAKY 325 >gi|328813997|gb|AEB52114.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 270 Score = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 125/274 (45%), Positives = 176/274 (64%), Gaps = 6/274 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KPN I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVL Sbjct: 1 EKPN----IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVL 56 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EVLN Sbjct: 57 HEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTV 187 PD IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y V Sbjct: 117 PDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQV 176 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + Sbjct: 177 ENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEK 236 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 + L +EEL+LSVRS NCL+ I + Sbjct: 237 EETHKEKMLEMTIEELDLSVRSYNCLKRAGINTV 270 >gi|328814017|gb|AEB52124.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 298 bits (764), Expect = 6e-79, Method: Composition-based stats. Identities = 120/263 (45%), Positives = 172/263 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T II Sbjct: 1 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A Sbjct: 61 LNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHAR 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I Sbjct: 121 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDGSI ++++L+++I+ + L +F+N + K + + + L +EEL+LS Sbjct: 181 TDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLS 240 Query: 267 VRSTNCLRGENIVYMGDLIQRTE 289 VRS NCL+ I + +L ++E Sbjct: 241 VRSYNCLKRAGINTVQELTNKSE 263 >gi|157493267|gb|ABV57999.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 283 Score = 298 bits (764), Expect = 7e-79, Method: Composition-based stats. Identities = 123/285 (43%), Positives = 190/285 (66%), Gaps = 8/285 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 283 >gi|300089409|gb|ADJ67856.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 274 Score = 298 bits (763), Expect = 7e-79, Method: Composition-based stats. Identities = 124/277 (44%), Positives = 186/277 (67%), Gaps = 7/277 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 1 VTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELT 148 KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + Sbjct: 61 KGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + Sbjct: 121 VERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL Sbjct: 181 QTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLEL 237 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 TVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 274 >gi|270307868|ref|YP_003329926.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit [Dehalococcoides sp. VS] gi|270153760|gb|ACZ61598.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit [Dehalococcoides sp. VS] Length = 330 Score = 298 bits (763), Expect = 8e-79, Method: Composition-based stats. Identities = 119/322 (36%), Positives = 178/322 (55%), Gaps = 5/322 (1%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I I + + + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE S+ Sbjct: 6 IPTISCTESDGKYGCFVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFSA 65 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + ED D +LN+K I ++ + + G VVTA DI+ ND V+NP+ + Sbjct: 66 LPKAKEDTLDFLLNLKNIRVESLSGLEGILYLRASGSKVVTAADIEPSNDFAVVNPELYL 125 Query: 135 CNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 LD DAV+ +EL V G GY P TEN PIG I +DA+++PI+KV++T E G Sbjct: 126 LTLDSDDAVLNVELEVELGRGYRP--PESTENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 183 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + ++L + + TDG++ +V+ ++ IL Q ++ + EV+ VK Sbjct: 184 RETSLERLVLEVWTDGTVEPATAVSRSADILVKQFAALVSHSKVVAEVEASEPVKYAIPE 243 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L+LSVR+ NCLR I +G++I R ++L + NFG KSL E++ L T+ Sbjct: 244 EKYNMPIEQLDLSVRAVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTI 303 Query: 314 GLFLGMNLPDWPPESIEELAKK 335 GL L N D E E KK Sbjct: 304 GLSL--NPEDELFEDAENTKKK 323 >gi|303230143|ref|ZP_07316912.1| DNA-directed RNA polymerase, alpha subunit [Veillonella atypica ACS-134-V-Col7a] gi|302515204|gb|EFL57177.1| DNA-directed RNA polymerase, alpha subunit [Veillonella atypica ACS-134-V-Col7a] Length = 332 Score = 298 bits (763), Expect = 9e-79, Method: Composition-based stats. Identities = 120/326 (36%), Positives = 183/326 (56%), Gaps = 18/326 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIAEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ D+ V + GV+TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKLEEDAEWPLEVHFDFQKDGVLTAADLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK----- 242 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V+ Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSTSVVELDDQN 244 Query: 243 ------EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + ++ELELSVR+ NCL+ I + DL+ +T D+ ++ Sbjct: 245 LEGDVVDPTPQDVQEDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGKVR 304 Query: 297 NFGRKSLVEIKGVLGTM--GLFLGMN 320 N G+KS+ EI L G L Sbjct: 305 NLGKKSIDEIAEKLSNHPGGFNLKQK 330 >gi|328814009|gb|AEB52120.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 257 Score = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 113/257 (43%), Positives = 171/257 (66%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNIK Sbjct: 1 VVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 61 KLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GS Sbjct: 121 KGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I+ ++++LA++IL + L +F+N + K + + + L +EEL+LSVRS Sbjct: 181 ISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSY 240 Query: 271 NCLRGENIVYMGDLIQR 287 NCL+ I + +L + Sbjct: 241 NCLKRAGINTVQELTNK 257 >gi|58415828|emb|CAH57328.1| RNA polymerase alpha-subunit [Vibrio diazotrophicus] Length = 285 Score = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 123/285 (43%), Positives = 190/285 (66%), Gaps = 8/285 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I Sbjct: 4 THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEI 63 Query: 86 ILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVV 143 +LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L +A + Sbjct: 64 LLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDSNAEI 123 Query: 144 RMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M + V +G GYVPA H + PIG + +DA +SP+ K++Y+V++AR Q D DK Sbjct: 124 AMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDK 183 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V Sbjct: 184 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPV 240 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 241 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|290968216|ref|ZP_06559759.1| DNA-directed RNA polymerase, alpha subunit [Megasphaera genomosp. type_1 str. 28L] gi|290781698|gb|EFD94283.1| DNA-directed RNA polymerase, alpha subunit [Megasphaera genomosp. type_1 str. 28L] Length = 325 Score = 298 bits (762), Expect = 1e-78, Method: Composition-based stats. Identities = 118/319 (36%), Positives = 186/319 (58%), Gaps = 11/319 (3%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 N + + ++ + EPL RG+ TLGN+LRRVL+SSL G AIT+++IDGVLHE Sbjct: 5 NKFKVKTVERSDDGTYGKFVCEPLDRGYGITLGNSLRRVLLSSLDGVAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 S+I+GV ED+++IILN+K + L+ + D + +++ G TA D+ +DIE+LN Sbjct: 65 FSTIQGVREDVSEIILNLKQLRLRFTRDDVNELDISVDVNGECEFTAKDLDVNSDIEILN 124 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + LD DA + M + +G GY+P+ ++ E D IG+I ID+++SP+ + Y V + Sbjct: 125 PELHLATLDADAHIYMTCHIERGKGYIPSTKNKKETDMIGVIPIDSIFSPVMRTKYEVGN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK------- 242 R G +DYD L++ + TDGSI E++VA A+ I+ L F + Sbjct: 185 IRVGNEMDYDSLTLEVKTDGSIAAENAVAKAASIMVSYLDYFQKIASDPVANEALAPFTT 244 Query: 243 -EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E + K++ L+LSVR++NCL+ NI +GDL++RTE D+ ++ N G+K Sbjct: 245 PEGEEPEVEEGPELSQVKIDVLDLSVRASNCLKRANIYTLGDLVERTEEDLSKIRNLGKK 304 Query: 302 SLVEIKGVLGTMGLFLGMN 320 S+ EI L G L + Sbjct: 305 SVDEIIEKLKDYGFDLKSD 323 >gi|157493255|gb|ABV57993.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 285 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 123/287 (42%), Positives = 190/287 (66%), Gaps = 8/287 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G +T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCVVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 285 >gi|325280941|ref|YP_004253483.1| DNA-directed RNA polymerase subunit alpha [Odoribacter splanchnicus DSM 20712] gi|324312750|gb|ADY33303.1| DNA-directed RNA polymerase subunit alpha [Odoribacter splanchnicus DSM 20712] Length = 330 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 115/323 (35%), Positives = 184/323 (56%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL G+ T+GN LRR+L+SSL G AIT ++I GV Sbjct: 6 FQKPDKV---IMLESTDKFGKFEFRPLEPGYGITIGNPLRRILLSSLEGFAITGIKIHGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE ++I GV ED+T+IILN+K + K + +++T+ G AGDI + + Sbjct: 63 EHEFATIPGVIEDVTEIILNLKQVRFKRKVEDVEDEKLTVLINGQEAFKAGDINKFLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLN + VIC++D +ME+T+ KG GYVP+ + G I IDA+Y+PI+ V Y Sbjct: 123 EVLNTELVICHMDPSVNFQMEITIQKGRGYVPSTENMPAEAEAGFIPIDAIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +E+ R DY+KL I+TDGSI D++ A++IL +F I+ E K Sbjct: 183 EIENYRVEGKTDYEKLLFEIETDGSIAPTDALKEAAKILIHHFMLFSDEKISLESEDKYG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ + +G+L + + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAAEVETLGELCRFNKNDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E++ +L L GM++ + Sbjct: 303 SLTELEALLENNNLEFGMDVTKY 325 >gi|57234751|ref|YP_181246.1| DNA-directed RNA polymerase subunit alpha [Dehalococcoides ethenogenes 195] gi|90110837|sp|Q3Z953|RPOA_DEHE1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|57225199|gb|AAW40256.1| DNA-directed RNA polymerase, alpha subunit [Dehalococcoides ethenogenes 195] Length = 330 Score = 297 bits (761), Expect = 1e-78, Method: Composition-based stats. Identities = 119/322 (36%), Positives = 178/322 (55%), Gaps = 5/322 (1%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I I + + + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE S+ Sbjct: 6 IPTISCTESDGKYGRFVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFSA 65 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + ED D +LN+K I ++ + + G VVTA DI+ ND EV+NP+ + Sbjct: 66 LPKAKEDTLDFLLNLKNIRVESLSGLEGILYLKASGAKVVTAADIEPSNDFEVVNPELYL 125 Query: 135 CNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 LD DAV+ +EL V G GY TEN PIG I +DA+++PI+KV++T E G Sbjct: 126 LTLDSDDAVLNVELEVELGRGYRA--PESTENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 183 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + ++L + + TDG+I +V+ ++ IL Q ++ + EV+ VK Sbjct: 184 RETSLERLVLEVWTDGTIEPATAVSRSADILVKQFAALVSHNKVVAEVEASEPVKYAIPE 243 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L+LSVR+ NCLR I +G++I R ++L + NFG KSL E++ L T+ Sbjct: 244 EKYNMPIEQLDLSVRAVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTI 303 Query: 314 GLFLGMNLPDWPPESIEELAKK 335 GL L N + E E KK Sbjct: 304 GLSL--NPEEELFEDAENSKKK 323 >gi|297180261|gb|ADI16480.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 362 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 113/320 (35%), Positives = 182/320 (56%), Gaps = 11/320 (3%) Query: 11 KPNNIEY-IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P + I + + EE +AEPL RG+ TLGN +RR L+++L G AIT V+IDG+ Sbjct: 18 TPEVPDLSITIQENEETYGRFVAEPLERGWGVTLGNPIRRSLLNALSGTAITWVRIDGIH 77 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++K + E++ + +LN+KGI L+ D R+ + G G V AGDI D E++N Sbjct: 78 HEYSTVKHMREEVVEFLLNVKGIRLRSLADRPGRLRLEVDGEGEVRAGDIMATADFEIVN 137 Query: 130 PDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 P+H + LD + +E V +G GY PA H E PIG++ +DA+++P++K ++ VE Sbjct: 138 PEHHLATLDNGGARLSVEFNVEQGVGYEPANH--EEGLPIGVLPVDAIFTPVRKANFAVE 195 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R GQ D ++L + + TD +IT D+V A +L ++ +F ++P+ + + Sbjct: 196 ATRVGQRSDLERLVVEVWTDRTITPLDAVRAAGNLLMERFFLFKRLDKPQDDEEVLGVPG 255 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 LP L VE L LS R+ NCL+ I +G+++ + ++L++ NFG+KSL E+ Sbjct: 256 VLPEVFNTL--VETLSLSARTLNCLKRAGINRVGEVLMMPKGELLKIRNFGQKSLDELYD 313 Query: 309 VLGTMGLFLGMNLPDWPPES 328 L LP+ PE Sbjct: 314 KLAEKNY-----LPEENPEG 328 >gi|257126748|ref|YP_003164862.1| DNA-directed RNA polymerase subunit alpha [Leptotrichia buccalis C-1013-b] gi|257050687|gb|ACV39871.1| DNA-directed RNA polymerase, alpha subunit [Leptotrichia buccalis C-1013-b] Length = 324 Score = 297 bits (760), Expect = 2e-78, Method: Composition-based stats. Identities = 114/310 (36%), Positives = 180/310 (58%), Gaps = 4/310 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + +E+ EPL RG+ +T+GNALRR+L+SS+ G AI ++I+GVL+E S+I+G Sbjct: 13 LTEEKEDNYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGTAIKGIKIEGVLNEFSTIEG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +TDIILN+K I ++ K++T+ +GP V+TA DI ++++NP+ VI + Sbjct: 73 VKEAVTDIILNVKEIVVESDEPGEKKMTLSVKGPAVITAADIHVEPGLKIINPEQVIMTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + +E V G G+V + T+ PIG + +DA+Y+PIK+V+Y+VE G+V + Sbjct: 133 TTDKQIDIEFLVDSGEGFVVSDEINTDGWPIGYLAVDAIYTPIKRVNYSVEDTMVGRVTN 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPFN 253 YDKL + I TDGSI +D+++ A +L L F N + + E N Sbjct: 193 YDKLILEIATDGSIEIKDALSYAVELLTWHLEPFTNIGNSMSKYRDSEDELTVTAEENEN 252 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K+EEL+ +VRS NCL+ + + DL T ++L++ N G+KSL EI + + Sbjct: 253 NIEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYNELLKIKNLGKKSLNEIIDKMKEL 312 Query: 314 GLFLGMNLPD 323 G LG + Sbjct: 313 GYDLGDTSSN 322 >gi|90994483|ref|YP_536973.1| RNA polymerase alpha subunit [Porphyra yezoensis] gi|109900623|sp|Q1XDJ5|RPOA_PORYE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|90819047|dbj|BAE92416.1| DNA directed RNA polymerase alpha subunit [Porphyra yezoensis] gi|116266126|gb|ABJ91301.1| DNA-directed RNA polymerase alpha subunit [Porphyra yezoensis] Length = 311 Score = 296 bits (759), Expect = 2e-78, Method: Composition-based stats. Identities = 100/312 (32%), Positives = 163/312 (52%), Gaps = 13/312 (4%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + EPL +G TLGNALRR ++S L G AI AV+I GV HE Sbjct: 5 QIECIESRTDGARGQYGSFVIEPLNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I GV ED+ +I+LN+K + K + I +GP +VTAG + +DIEV++P Sbjct: 65 FSTIPGVREDVLEILLNLKEVVFKSYNKESQIGRIRVQGPAIVTAGLFELSSDIEVVDPR 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I + + + ME + K GY A+ E + + +D+++ P+ KV+Y VE R Sbjct: 125 QYIATICNNTIFEMEFKIEKNCGYRLAEKAVDE-LSVDFLQVDSVFMPVNKVNYKVEEVR 183 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G D+L + I T+GSI+ +++++ + +L + + K N +S Sbjct: 184 IGSNSIKDRLIIQIWTNGSISPQEAISQGATVLTNLF-----CSLRNLDFKSADNYRSKE 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL+LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L Sbjct: 239 DKKISQVLIEELQLSVRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEEVIYAL- 297 Query: 312 TMGLFLGMNLPD 323 LG++LP Sbjct: 298 --QKKLGISLPK 307 >gi|308522660|dbj|BAJ22941.1| RNA polymerase alpha subunit [Vibrio sagamiensis] gi|308522662|dbj|BAJ22942.1| RNA polymerase alpha subunit [Vibrio sagamiensis] Length = 282 Score = 296 bits (759), Expect = 2e-78, Method: Composition-based stats. Identities = 125/285 (43%), Positives = 189/285 (66%), Gaps = 8/285 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 1 SSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 60 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-A 141 +I+LN+KG+++++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A Sbjct: 61 EILLNLKGLSVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDSA 120 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D Sbjct: 121 DIAMRIKVERGRGYVPASARIHTDEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDL 180 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 181 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 237 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 PVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 282 >gi|320335496|ref|YP_004172207.1| DNA-directed RNA polymerase subunit alpha [Deinococcus maricopensis DSM 21211] gi|319756785|gb|ADV68542.1| DNA-directed RNA polymerase subunit alpha [Deinococcus maricopensis DSM 21211] Length = 321 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 118/310 (38%), Positives = 173/310 (55%), Gaps = 15/310 (4%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + N EPL RG+ T+GN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 13 DGNYGEFTLEPLKRGYGVTIGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVI 72 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +ILN+K + +K K +T+ +G GVVTAG + +D E++NPD VI NL D + Sbjct: 73 QLILNLKELVVKFHAPGPKTLTLRAQGQGVVTAGAFEVPSDAEIVNPDLVIANLAEDGKL 132 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA H T++ I I +DA+YSP+++V+Y VE+ R GQ D D+L + Sbjct: 133 VMEVRVEEGEGYVPADKHATKDR-INSIPVDAVYSPVRRVAYHVENTRVGQQTDLDRLII 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----- 258 I TDGS + ++ +A L+D+L +F N E + E LP AL Sbjct: 192 RIWTDGSADPQSALDMAVDTLRDELSVFGNVETIQAETVVTPAAYDLPQPSALSINPQPY 251 Query: 259 ---------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 +E L L+ R + L+ E I + L ++ D+ ++ G +SL EIK Sbjct: 252 PADLDSPKVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIGERSLDEIKAQ 311 Query: 310 LGTMGLFLGM 319 L GL L Sbjct: 312 LAQFGLSLKD 321 >gi|313892870|ref|ZP_07826447.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. oral taxon 158 str. F0412] gi|313442223|gb|EFR60638.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. oral taxon 158 str. F0412] Length = 334 Score = 296 bits (759), Expect = 3e-78, Method: Composition-based stats. Identities = 118/319 (36%), Positives = 183/319 (57%), Gaps = 18/319 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIADGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ D+ V + GV+TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKVEEDAQLPLEVHFDFQKDGVLTAADLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGE 244 Query: 245 ----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ + Sbjct: 245 GGIVVDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGK 304 Query: 295 MANFGRKSLVEIKGVLGTM 313 + N G+KS+ EI+ L Sbjct: 305 VRNLGKKSIDEIEEKLNNH 323 >gi|328813987|gb|AEB52109.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 262 Score = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 120/259 (46%), Positives = 170/259 (65%), Gaps = 2/259 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T Sbjct: 4 NDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVT 63 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 64 AIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHF 123 Query: 144 RMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL Sbjct: 124 HMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKL 183 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + T+GSIT ++++L+++IL D L +F+N + K + + L +E Sbjct: 184 TLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIE 243 Query: 262 ELELSVRSTNCLRGENIVY 280 EL+LSVRS NCL+ I Sbjct: 244 ELDLSVRSYNCLKRAGINT 262 >gi|328813967|gb|AEB52099.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 271 Score = 296 bits (758), Expect = 3e-78, Method: Composition-based stats. Identities = 117/268 (43%), Positives = 176/268 (65%), Gaps = 2/268 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E +N + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED Sbjct: 4 EETDNYGKFVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTED 63 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILN+K + LK+ + K + I +GP VTA DIQ D+ +LN D I + A Sbjct: 64 VTQIILNLKQVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGA 123 Query: 142 VVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++T KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYD Sbjct: 124 ELHVKMTADKGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYD 183 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL++ + T+GS+T ++++LA++IL + L MF+N E + + + + L K Sbjct: 184 KLTLDVWTNGSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKT 243 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQR 287 +EEL+LSVRS NCL+ +I + DL +R Sbjct: 244 IEELDLSVRSYNCLKRADIQTVKDLTER 271 >gi|313891534|ref|ZP_07825144.1| DNA-directed RNA polymerase, alpha subunit [Dialister microaerophilus UPII 345-E] gi|329121855|ref|ZP_08250470.1| DNA-directed RNA polymerase subunit alpha [Dialister micraerophilus DSM 19965] gi|313119993|gb|EFR43175.1| DNA-directed RNA polymerase, alpha subunit [Dialister microaerophilus UPII 345-E] gi|327467793|gb|EGF13285.1| DNA-directed RNA polymerase subunit alpha [Dialister micraerophilus DSM 19965] Length = 324 Score = 296 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 131/314 (41%), Positives = 186/314 (59%), Gaps = 11/314 (3%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 IV +++ EPL RGF TLGN+LRRVL+SSL G AIT+++IDGVLHE ++I+ Sbjct: 10 KIVELSDDKRYGKFECEPLERGFGITLGNSLRRVLLSSLDGVAITSIKIDGVLHEFTTIE 69 Query: 77 GVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+TD+ILN+K I + +V I G+ AGD+Q ++I+VLN D I Sbjct: 70 GVREDVTDMILNLKKIRFIAHDEAVFPIQVRIDIDKEGIFHAGDMQLPSEIDVLNTDLEI 129 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 C LD DA + MELT+ +GHGYVP ++ +ND IG+I ID++++P+ K +Y V R G Sbjct: 130 CTLDADAHLGMELTIDRGHGYVPFNKNK-KNDEIGIIPIDSIFTPVVKCNYKVSDTRVGN 188 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI-----NFEEPKKEVKEDINVKS 249 +DYDKL++ ++TDGS+ ED+VA A+ IL F E + E + Sbjct: 189 EMDYDKLTLELETDGSVKVEDAVAQAATILIKYFENFRRLATKQIPEIDVDEIEPEIEEK 248 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + +EELELSVR+ NCL+ I + L +TE ++ R+ N G+KS+ EIK Sbjct: 249 DDSPDLSVIPIEELELSVRAFNCLKRAEINMLDQLTDKTEDELTRVRNLGKKSVDEIKEK 308 Query: 310 LGTM---GLFLGMN 320 L GL L N Sbjct: 309 LAAYKGWGLHLKDN 322 >gi|253581360|ref|ZP_04858586.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium varium ATCC 27725] gi|251836724|gb|EES65258.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium varium ATCC 27725] Length = 325 Score = 296 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 118/309 (38%), Positives = 185/309 (59%), Gaps = 6/309 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+IDGVL E S ++G Sbjct: 13 ITEVKESEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRIDGVLSEFSVMEG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E +T+I+LNIK I +K +++T+ +GP +VTA DI IE++NP+ VIC + Sbjct: 73 IKEAVTEIVLNIKEIVVKAESTGERKMTLSVKGPKIVTAADIIPDVGIEIVNPEQVICTI 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ + I +DA+Y+PI+KVSY+V+ G++ D Sbjct: 133 TTDRELDMEFLVDTGEGFVVSEEIERKDWAVDYIAVDAIYTPIRKVSYSVQDTMVGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI------NVKSLP 251 +DKL++ I+TDGSI D+++ A +L+ F+ + ++ + V Sbjct: 193 FDKLTLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRVEAEEEEENPVSHAK 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + Sbjct: 253 DDNILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMK 312 Query: 312 TMGLFLGMN 320 +G L N Sbjct: 313 ELGYDLSQN 321 >gi|257470860|ref|ZP_05634950.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium ulcerans ATCC 49185] gi|317065063|ref|ZP_07929548.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium ulcerans ATCC 49185] gi|313690739|gb|EFS27574.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium ulcerans ATCC 49185] Length = 325 Score = 296 bits (757), Expect = 4e-78, Method: Composition-based stats. Identities = 119/309 (38%), Positives = 184/309 (59%), Gaps = 6/309 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E E + I EPL RG+ HT+GNALRRVL+SS+ GAAI V+IDGVL E S + G Sbjct: 13 ITEVKESEFKGQYIVEPLYRGYGHTVGNALRRVLLSSIPGAAIKGVRIDGVLSEFSVMDG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 + E +T+IILNIK I +K +++T+ +GP +VTA DI IE++NP+ VIC + Sbjct: 73 IKEAVTEIILNIKEIVVKAESTGERKMTLSVKGPKIVTAADIIPDVGIEIVNPEQVICTI 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ + I +DA+Y+PI+KVSY+V+ G++ D Sbjct: 133 TTDRELDMEFLVDTGEGFVVSEEIERKDWAVDYIAVDAIYTPIRKVSYSVQDTMVGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI------NVKSLP 251 +DKL++ I+TDGSI D+++ A +L+ F+ + ++ + V Sbjct: 193 FDKLTLDIETDGSIEIRDALSYAVELLKLHFDPFLELGNKMENLRVEAEEEEENPVSHAK 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + L K+EEL+L+VRS NCL+ I + L + + ++L++ N GRKSL EI + Sbjct: 253 DDNILNTKIEELDLTVRSFNCLKKAGIEEVSQLAKLSLNELLKIKNLGRKSLDEILEKMK 312 Query: 312 TMGLFLGMN 320 +G L N Sbjct: 313 ELGYDLSQN 321 >gi|262038698|ref|ZP_06012058.1| DNA-directed RNA polymerase, alpha subunit [Leptotrichia goodfellowii F0264] gi|261747250|gb|EEY34729.1| DNA-directed RNA polymerase, alpha subunit [Leptotrichia goodfellowii F0264] Length = 322 Score = 296 bits (757), Expect = 5e-78, Method: Composition-based stats. Identities = 116/305 (38%), Positives = 181/305 (59%), Gaps = 4/305 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + +E EPL RG+ +T+GNALRR+L+SS+ G+AI ++IDGVL+E S+I Sbjct: 12 KLTEEKESRYTAKYTLEPLYRGYGNTIGNALRRILLSSIPGSAIKGLRIDGVLNEFSTIP 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +TDIILN+K I +++ K++ + +GP V+TA DI+ I+++NP+ VI Sbjct: 72 GVKEAVTDIILNVKEIVVELDEPGEKKMVLSVKGPKVITAADIKPDPGIKIINPEQVIAT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V + TE PIG + +DA+Y+PIK+V+Y+VE G+V Sbjct: 132 VTTDKEINMEFLVDSGEGFVVSDEIDTEGWPIGYLAVDAIYTPIKRVTYSVEDTMVGRVT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN----FEEPKKEVKEDINVKSLPF 252 +YDKL + I TDGSI D+++ A +L + F N + + E+ ++ S Sbjct: 192 NYDKLILEISTDGSIEIHDALSYAVELLILHVKPFTNIGNSMSKFRGNEDENSSLNSETE 251 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + K+EEL+ +VRS NCL+ + + DL T ++L++ N GRKSL EI + Sbjct: 252 SNIEDMKIEELDFTVRSYNCLKKAGVNTISDLTSMTYVELLKIKNLGRKSLNEIIDKMKE 311 Query: 313 MGLFL 317 +G L Sbjct: 312 LGYDL 316 >gi|15644221|ref|NP_229272.1| DNA-directed RNA polymerase subunit alpha [Thermotoga maritima MSB8] gi|7388097|sp|Q9X1I2|RPOA_THEMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|4982038|gb|AAD36540.1|AE001798_5 DNA-directed RNA polymerase, alpha subunit [Thermotoga maritima MSB8] Length = 336 Score = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 179/331 (54%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVLGQEEENR-TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 E + P ++ +E + + PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREERDYYYSRFSLSPLERGYAITIGNALRRVLLSSIPSLAIVGVRFI 62 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTV 122 HE I+GV ED+ DIILN+K + +++ ++ + K+GPG + AGDI+T Sbjct: 63 KPEKYHEYDYIEGVKEDILDIILNLKKVQFRINVTVKGTIKMEVEKKGPGELVAGDIKTP 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IEV+NPD I L+ A + E+ G G+VP R E +G I ID ++SP+ K Sbjct: 123 AGIEVVNPDLHIATLNSKADLFFEVYAEVGKGFVPVSE-REERPDVGWIPIDGVFSPVIK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM------------ 230 V++ E+ R G+ DYDKL + I T SI E+++ A+ IL + + Sbjct: 182 VNFLTENVRVGKRTDYDKLILEIWTKKSIRPEEALRKAADILINHFKIVTEGLPELKISE 241 Query: 231 ---FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + EE + + + + +K++ELELSVRS NCL+ I +GDL+ + Sbjct: 242 EYIITSEEEEAEVPASEHEEEHRENSDVYNRKIDELELSVRSLNCLKRAKIETIGDLLSK 301 Query: 288 TEADMLRMANFGRKSLVEIKGVLGT-MGLFL 317 TE ++L++ NFG+KSL E+K L GL L Sbjct: 302 TEEELLKIKNFGQKSLDEVKEKLKEKFGLEL 332 >gi|300089407|gb|ADJ67855.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 270 Score = 295 bits (756), Expect = 5e-78, Method: Composition-based stats. Identities = 123/273 (45%), Positives = 184/273 (67%), Gaps = 7/273 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKG 152 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G Sbjct: 61 VKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKVERG 120 Query: 153 HGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + T+G Sbjct: 121 RGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDMQTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 ++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS Sbjct: 181 TLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRS 237 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 NCL+ E I Y+GDL+QRTE ++L+ N G+KS Sbjct: 238 ANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKS 270 >gi|238018650|ref|ZP_04599076.1| hypothetical protein VEIDISOL_00485 [Veillonella dispar ATCC 17748] gi|237865121|gb|EEP66411.1| hypothetical protein VEIDISOL_00485 [Veillonella dispar ATCC 17748] Length = 337 Score = 295 bits (756), Expect = 6e-78, Method: Composition-based stats. Identities = 119/319 (37%), Positives = 181/319 (56%), Gaps = 18/319 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + E + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 8 KKLKIEKVDIAEGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ D V + GV+TA D+ Q ++EV Sbjct: 68 FSTIPGIREDVTDIILNLKQLCIKVEEDVQLPLEVHFDFQKDGVLTAADLAEQFPPEVEV 127 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 128 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 187 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 188 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGE 247 Query: 245 ----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N + ++ELELSVR+ NCL+ I + DL+ +T D+ + Sbjct: 248 GGIVVDPVGSDNEEPAVDEGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGK 307 Query: 295 MANFGRKSLVEIKGVLGTM 313 + N G+KS+ EI+ L Sbjct: 308 VRNLGKKSIDEIEEKLNNH 326 >gi|311990454|gb|ADQ26357.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 260 Score = 295 bits (755), Expect = 6e-78, Method: Composition-based stats. Identities = 113/260 (43%), Positives = 163/260 (62%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 61 KKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 121 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI D+++ A++IL + +F + + K + + + L +EEL+LSVRS Sbjct: 181 SIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRS 240 Query: 270 TNCLRGENIVYMGDLIQRTE 289 NCL+ I + +L TE Sbjct: 241 YNCLKRAGINTLQELTDMTE 260 >gi|297623302|ref|YP_003704736.1| DNA-directed RNA polymerase subunit alpha [Truepera radiovictrix DSM 17093] gi|297164482|gb|ADI14193.1| DNA-directed RNA polymerase, alpha subunit [Truepera radiovictrix DSM 17093] Length = 310 Score = 294 bits (754), Expect = 9e-78, Method: Composition-based stats. Identities = 111/298 (37%), Positives = 170/298 (57%), Gaps = 5/298 (1%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + I EPLPRG+ TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 12 TDQYGEFIVEPLPRGYGVTLGNPLRRILLSSVAGTAVTSVYIEDVLHEFSTIPGVKEDVM 71 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K + +K+ D +T+ PG VTA D + ++NP+ + L+ + Sbjct: 72 QIILNLKELVVKLHDDEPVTLTLRAENPGRVTAADFEVPMGATLINPELYLATLNEGGKL 131 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V G GYVPA+ H T++ I I +DA+++P+++V+Y VE R GQ D D+L + Sbjct: 132 VMEVRVEPGIGYVPAEVHATKDR-INSIPVDAVFTPVRRVAYRVEDTRVGQKTDLDRLVL 190 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEVKEDINVKSLPFNPALLKK 259 + TDGS++ +++ A IL++QL +F I+ P + + L Sbjct: 191 RVWTDGSVSPREALDSAVEILRNQLSVFSGGVIDEPLPVMAIPPRSADEPLSRAEPARIS 250 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E LELS R + L+ E I + L+ +E D+ ++ G KSL EIK L GL+L Sbjct: 251 LESLELSSRVLHSLQEEGIDSVDALLALSERDLKKVGGVGDKSLEEIKERLQAQGLYL 308 >gi|73748344|ref|YP_307583.1| DNA-directed RNA polymerase subunit alpha [Dehalococcoides sp. CBDB1] gi|147669124|ref|YP_001213942.1| DNA-directed RNA polymerase subunit alpha [Dehalococcoides sp. BAV1] gi|289432392|ref|YP_003462265.1| DNA-directed RNA polymerase subunit alpha [Dehalococcoides sp. GT] gi|90110838|sp|Q3ZZP6|RPOA_DEHSC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|73660060|emb|CAI82667.1| DNA-directed RNA polymerase, alpha subunit [Dehalococcoides sp. CBDB1] gi|146270072|gb|ABQ17064.1| DNA-directed RNA polymerase subunit alpha [Dehalococcoides sp. BAV1] gi|288946112|gb|ADC73809.1| DNA-directed RNA polymerase, alpha subunit [Dehalococcoides sp. GT] Length = 330 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 117/322 (36%), Positives = 178/322 (55%), Gaps = 5/322 (1%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 I I + + + EPL +GF T+GN+LRR+L+S L G AIT V+IDG+ HE + Sbjct: 6 IPTISCTESDGKYGRFVVEPLEKGFGTTMGNSLRRILLSYLDGVAITRVRIDGIQHEFCA 65 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + ED D +LN+K I ++ + + G VVTA DI+ ND EV+NP+ + Sbjct: 66 LPKAKEDTLDFLLNLKNIRVESLSGLEGILYLRASGSKVVTAADIEPSNDFEVVNPELYL 125 Query: 135 CNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 LD DAV+ +EL V G GY P + EN PIG I +DA+++PI+KV++T E G Sbjct: 126 LTLDSDDAVLNVELEVELGRGYRPPESA--ENTPIGTIPVDAIFTPIRKVNFTTEPMHVG 183 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + ++L + + TDG++ +V+ ++ IL Q ++ + E++ VK Sbjct: 184 RETSLERLVLEVWTDGTVEPATAVSRSADILVKQFASLVSHSKVVAEIEASEPVKYTIPE 243 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +E+L+LSVR+ NCLR I +G++I R ++L + NFG KSL E++ L T+ Sbjct: 244 EKYNMPIEQLDLSVRAVNCLRHAGITTVGEVINRGTKELLTLRNFGLKSLTELEDRLKTI 303 Query: 314 GLFLGMNLPDWPPESIEELAKK 335 GL L N D E E KK Sbjct: 304 GLSL--NPEDELFEEAENNKKK 323 >gi|46143635|ref|ZP_00134832.2| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Actinobacillus pleuropneumoniae serovar 1 str. 4074] Length = 279 Score = 294 bits (754), Expect = 1e-77, Method: Composition-based stats. Identities = 129/281 (45%), Positives = 192/281 (68%), Gaps = 7/281 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A+T V+IDGVLHE SS +GV ED+ +++LN+KG+ +K+SG +T+ K G G V Sbjct: 1 MPGCAVTEVEIDGVLHEYSSKEGVQEDILEVLLNLKGLAVKVSGKDDIILTLNKSGIGPV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGL 170 TA DI D+E++NP HVIC+L D DA + M + V +G GYVPA H + E+ PIG Sbjct: 61 TAADITHDGDVEIVNPHHVICHLTDKDASISMRIRVQRGRGYVPASARVHSQDEDRPIGR 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA +SP+ +++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL Sbjct: 121 LLVDARFSPVDRIAYNVEAARVEQRTDLDKLIIEMETNGTIDPEEAIRRAATILAEQLDA 180 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 F++ + ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 FVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAETIHYIGDLVQRTEV 237 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 238 ELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 278 >gi|328814013|gb|AEB52122.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 260 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 114/258 (44%), Positives = 169/258 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I G Sbjct: 3 ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 63 VLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTV 122 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 123 ADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 182 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 183 FDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 242 Query: 258 KKVEELELSVRSTNCLRG 275 +EEL+LSVRS NCL+ Sbjct: 243 MTIEELDLSVRSYNCLKR 260 >gi|148270450|ref|YP_001244910.1| DNA-directed RNA polymerase subunit alpha [Thermotoga petrophila RKU-1] gi|170289155|ref|YP_001739393.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga sp. RQ2] gi|172047882|sp|A5IMB1|RPOA_THEP1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|147735994|gb|ABQ47334.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga petrophila RKU-1] gi|170176658|gb|ACB09710.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga sp. RQ2] Length = 336 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 177/331 (53%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 E + P ++ +++ PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREEKDYYYARFSLSPLERGYAITIGNALRRVLLSSIPSLAIVGVRFI 62 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTV 122 HE I+GV ED+ DIILN+K + +++ ++ + K+GPG + AGDI+T Sbjct: 63 KPEKYHEYDYIEGVKEDILDIILNLKKVQFRVNVTVKGTIKMEVEKKGPGELVAGDIKTP 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IEV NPD I L+ A + E+ G G+VP R E +G I ID ++SP+ K Sbjct: 123 AGIEVANPDLHIATLNSKADLFFEVYAEVGKGFVPVSE-REERPDVGWIPIDGVFSPVIK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM------------ 230 V++ E+ R G+ DYDKL + I T SI E+++ A+ IL + + Sbjct: 182 VNFLTENVRVGKRTDYDKLILEIWTKKSIRPEEALRKAADILINHFKIVTEGLPELKISE 241 Query: 231 ---FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + EE + D ++ +K++ELELSVRS NCL+ I +GDL+ + Sbjct: 242 EYIITSEEEEAEIPAVDHEEENRENLDVYNRKIDELELSVRSLNCLKRAKIETIGDLLSK 301 Query: 288 TEADMLRMANFGRKSLVEIKGVLGT-MGLFL 317 TE ++L++ NFG+KSL E+K L GL L Sbjct: 302 TEEELLKIKNFGQKSLDEVKEKLKEKFGLEL 332 >gi|323144989|ref|ZP_08079549.1| DNA-directed RNA polymerase, alpha subunit [Succinatimonas hippei YIT 12066] gi|322415268|gb|EFY06042.1| DNA-directed RNA polymerase, alpha subunit [Succinatimonas hippei YIT 12066] Length = 329 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 124/332 (37%), Positives = 183/332 (55%), Gaps = 9/332 (2%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 + EL+KP + + + N ++ EPL RGF +T+G +L +L+ +L G AI A Sbjct: 1 MSVCELLKPKPVSFTEV---APNCAHIVLEPLERGFGNTIGVSLSGILLKTLPGCAIDAF 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQT 121 QIDGV E S + E + ++I+N+K I + +S +++ K G G V A DI Sbjct: 58 QIDGVSDENSVKADMVETVFELIMNLKTIAVASESPLNSPVWLSLVKSGEGEVKASDIVL 117 Query: 122 VNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAKHH-RTENDPIGLITIDALYSP 179 + I NPD IC L A + M++ VS G GYVPA I IDA +SP Sbjct: 118 ASGISFPNPDAHICTLKGAKAALSMKIRVSYGRGYVPASSDAHIPAQSENEILIDASFSP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++ Y VESAR Q D D+L + I+TDG++ E + + +L+D L ++ EE + Sbjct: 178 VRRFVYEVESARVEQRTDLDRLVINIETDGTVAPEAVLMQGADLLRDHLCELVDQEEVSE 237 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 L V++LEL+VRS NCL+ E+I+Y+GDL+QRTE ++L+ N G Sbjct: 238 RSMAPAAPPMPDPVLMQL--VDDLELTVRSANCLKAESIIYIGDLVQRTEVELLKTPNLG 295 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +KSL EIK VL GL LGM L +WPP ++ Sbjct: 296 KKSLTEIKDVLAQRGLSLGMRLTNWPPPNLRS 327 >gi|222099995|ref|YP_002534563.1| DNA-directed RNA polymerase subunit alpha [Thermotoga neapolitana DSM 4359] gi|221572385|gb|ACM23197.1| DNA-directed RNA polymerase subunit alpha [Thermotoga neapolitana DSM 4359] Length = 340 Score = 294 bits (753), Expect = 1e-77, Method: Composition-based stats. Identities = 120/339 (35%), Positives = 182/339 (53%), Gaps = 25/339 (7%) Query: 1 MIQKNWQELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M++ E + P ++ +++ T PL RG+A T+GNALRRVL+SS+ A Sbjct: 1 MMKM--VEFVMPKKLKVEEEREEKDYYYTRFSLSPLERGYAITIGNALRRVLLSSIPSLA 58 Query: 60 ITAVQI--DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVT 115 I V+ HE I+GV ED+ DIILN+K + +++ ++ + K+GPG + Sbjct: 59 IVGVRFIKPEKYHEYDYIEGVKEDILDIILNLKKVQFRVNVTVKDRIKMEVEKKGPGELV 118 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI+T IEV NPD I L+ A + E+ G G+VP R E +G I ID Sbjct: 119 AGDIKTPAGIEVANPDLHIATLNSKADLFFEIYAEVGKGFVPVSE-RDERPEVGWIPIDG 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-- 233 ++SP+ KV++ E+ R G+ DYDKL + + T SI E+++ A+ IL + + + Sbjct: 178 VFSPVMKVNFLTENVRVGKRTDYDKLILEVWTKKSIRPEEALRKAADILINHFRIVMEGL 237 Query: 234 --------------FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 EE E + +S+ KK++ELELSVRS NCL+ I Sbjct: 238 PEMKISEEYIITEEDEEEALTAVEGEDQESVENLDVYSKKIDELELSVRSLNCLKRAKIE 297 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT-MGLFL 317 +GDL+ +TE ++L++ NFG+KSL E+K L GL L Sbjct: 298 TIGDLMSKTEDELLKIKNFGQKSLDEVKKKLKEKFGLEL 336 >gi|328951208|ref|YP_004368543.1| DNA-directed RNA polymerase subunit alpha [Marinithermus hydrothermalis DSM 14884] gi|328451532|gb|AEB12433.1| DNA-directed RNA polymerase subunit alpha [Marinithermus hydrothermalis DSM 14884] Length = 317 Score = 294 bits (752), Expect = 1e-77, Method: Composition-based stats. Identities = 111/301 (36%), Positives = 166/301 (55%), Gaps = 8/301 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 E N + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ LHE S++ GV ED+ Sbjct: 16 EGNYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDALHEFSTLPGVKEDVV 75 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K + +K K +T+ GP + A D++ D E++NPD I L + Sbjct: 76 QIILNLKELVVKFHAPGSKILTLRAEGPRTIYARDLECPPDAEIINPDLYIATLGEGGKL 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA+ H ++ I I +DALYSP+++V+Y VE R GQ D DKL + Sbjct: 136 VMEVRVDEGVGYVPAEKHGIKDR-INSIPVDALYSPVRRVAYHVEDTRLGQRTDLDKLIL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----- 258 I TDGS++ D++ A IL++ LG F + E + + Sbjct: 195 RIWTDGSVSPLDALQSAVGILREHLGFFDQAAVVAEAEAEPVEAAPEVEAVGAEEAAERP 254 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++L LS R + L+ E I + +L+ TE ++ ++ G +S+ EIK L GL Sbjct: 255 ALTLDDLGLSTRVLHNLKEEGIDSIENLLALTERELKKVPGIGERSVEEIKERLAEHGLS 314 Query: 317 L 317 L Sbjct: 315 L 315 >gi|328813939|gb|AEB52085.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 265 Score = 294 bits (752), Expect = 1e-77, Method: Composition-based stats. Identities = 117/265 (44%), Positives = 173/265 (65%), Gaps = 4/265 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IIL Sbjct: 1 GKFIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIIL 60 Query: 88 NIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 N+K I LK++G D + + I +GP +TAGDI D+++LNPD I + A M Sbjct: 61 NVKKIALKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHM 120 Query: 146 ELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GYV A R + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ Sbjct: 121 RMTADKGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTL 180 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 + T+GSI +++ALA++IL + L MF++ + K + + + L +EEL Sbjct: 181 DVWTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEEL 240 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRT 288 +LSVRS NCL+ I + +L +T Sbjct: 241 DLSVRSYNCLKRAGINTVQELNNKT 265 >gi|282849891|ref|ZP_06259274.1| DNA-directed RNA polymerase, alpha subunit [Veillonella parvula ATCC 17745] gi|282580328|gb|EFB85728.1| DNA-directed RNA polymerase, alpha subunit [Veillonella parvula ATCC 17745] Length = 334 Score = 294 bits (752), Expect = 2e-77, Method: Composition-based stats. Identities = 116/319 (36%), Positives = 183/319 (57%), Gaps = 18/319 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIADGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ ++ V + G++TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTAADLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGE 244 Query: 245 ----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ + Sbjct: 245 GGIVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGK 304 Query: 295 MANFGRKSLVEIKGVLGTM 313 + N G+KS+ EI+ L Sbjct: 305 VRNLGKKSIDEIEEKLNNH 323 >gi|294794575|ref|ZP_06759711.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. 3_1_44] gi|294454905|gb|EFG23278.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. 3_1_44] Length = 334 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 116/319 (36%), Positives = 182/319 (57%), Gaps = 18/319 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIADGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ ++ V + G++TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTAADLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHFVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGE 244 Query: 245 ----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ + Sbjct: 245 GGIVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGK 304 Query: 295 MANFGRKSLVEIKGVLGTM 313 + N G+KS+ EI+ L Sbjct: 305 VRNLGKKSIDEIEEKLNNH 323 >gi|218674111|ref|ZP_03523780.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 237 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 166/239 (69%), Positives = 196/239 (82%), Gaps = 3/239 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +E+ R ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVEF---SSSSRTRATLVAEPLERGFGLTLGNALRRVLLSSLRGAAV 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQIDGVLHE SSI GV ED+TDI+LNIK I +KM GD KR+ + K+GPGVVTAGDIQ Sbjct: 58 TAVQIDGVLHEFSSIPGVREDVTDIVLNIKEIAIKMDGDDAKRMVVRKQGPGVVTAGDIQ 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 TV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP+ Sbjct: 118 TVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERNRAEDAPIGLIPVDSLYSPV 177 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 KKVSY VE+ REGQVLDYDKL+MTI+TDGSITGED+VA A+RILQDQLG+F+NFE + Sbjct: 178 KKVSYKVENTREGQVLDYDKLNMTIETDGSITGEDAVAFAARILQDQLGVFVNFERAAE 236 >gi|320451273|ref|YP_004203369.1| DNA-directed RNA polymerase subunit alpha [Thermus scotoductus SA-01] gi|320151442|gb|ADW22820.1| DNA-directed RNA polymerase, subunit alpha [Thermus scotoductus SA-01] Length = 313 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 112/303 (36%), Positives = 165/303 (54%), Gaps = 3/303 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I Sbjct: 10 VFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIP 69 Query: 77 GVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+ +IILN+K + ++ + + GP VV AGD D E+LNPD I Sbjct: 70 GVKEDVVEIILNLKELVVRFLDPKMQTTTLVLKAEGPKVVRAGDFVVPPDAEILNPDLTI 129 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 LD + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ Sbjct: 130 ATLDKGGKLYMEVRVDRGVGYVPAERHGIKDR-INSIPVDAIFSPVRRVAFQVEDTRLGQ 188 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 D DKL++ I TDGS+T +++ A IL++ L F N + E +V+ Sbjct: 189 RTDLDKLTLRIWTDGSVTPLEALNQAVEILKEHLSYFANPQATALPAPEPASVERAEGEE 248 Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G Sbjct: 249 DLDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIREALAKKG 308 Query: 315 LFL 317 L Sbjct: 309 FAL 311 >gi|328813953|gb|AEB52092.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 293 bits (751), Expect = 2e-77, Method: Composition-based stats. Identities = 112/250 (44%), Positives = 166/250 (66%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T II Sbjct: 1 YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + Sbjct: 61 LNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVR 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + Sbjct: 121 MTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+GSI+ ++++LA++IL + L +F+N + K + + + L +EEL+LS Sbjct: 181 TNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLS 240 Query: 267 VRSTNCLRGE 276 VRS NCL+ Sbjct: 241 VRSYNCLKRA 250 >gi|257467163|ref|ZP_05631474.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium gonidiaformans ATCC 25563] gi|315918294|ref|ZP_07914534.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium gonidiaformans ATCC 25563] gi|313692169|gb|EFS29004.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium gonidiaformans ATCC 25563] Length = 326 Score = 293 bits (750), Expect = 2e-77, Method: Composition-based stats. Identities = 115/304 (37%), Positives = 184/304 (60%), Gaps = 6/304 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E + Sbjct: 18 ESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEAV 77 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+IILN+K I +K +++T+ +GP VVTA DI +E++NPD IC + D Sbjct: 78 TEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPDQEICTITTDRE 137 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL+ Sbjct: 138 LDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMTDFDKLT 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI------NVKSLPFNPAL 256 ++++TDGSI D+++ A +L+ L F+ + ++ ++ S+ + L Sbjct: 198 LSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSIKDDINL 257 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + +G Sbjct: 258 NIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKMKELGYD 317 Query: 317 LGMN 320 L N Sbjct: 318 LAQN 321 >gi|281412757|ref|YP_003346836.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga naphthophila RKU-10] gi|281373860|gb|ADA67422.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga naphthophila RKU-10] Length = 336 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 117/331 (35%), Positives = 178/331 (53%), Gaps = 22/331 (6%) Query: 8 ELIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 E + P ++ +++ + PL RG+A T+GNALRRVL+SS+ AI V+ Sbjct: 3 EFVIPKKLKVEEEREEKDYHYARFSLSPLERGYAITIGNALRRVLLSSIPSLAIIGVRFI 62 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTV 122 HE I+GV ED+ DIILN+K + +++ ++ + K+GPG + AGDI+T Sbjct: 63 KPEKYHEYDYIEGVKEDILDIILNLKKVQFRVNVTVKGTIKMEVEKKGPGELVAGDIKTP 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IEV NPD I L+ A + E+ G G+VP R E +G I ID ++SP+ K Sbjct: 123 AGIEVANPDLHIATLNSKADLFFEVYAEVGKGFVPVSE-REERPDVGWIPIDGVFSPVIK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM------------ 230 V++ E+ R G+ DYDKL + I T SI E+++ A+ IL + + Sbjct: 182 VNFLTENVRVGKRTDYDKLILEIWTKKSIRPEEALRKAADILINHFKIVTEGLPELKISE 241 Query: 231 ---FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + EE + D ++ +K++ELELSVRS NCL+ I +GDL+ + Sbjct: 242 EYIITSEEEEAEIPAVDHEEENRENLDVYNRKIDELELSVRSLNCLKRAKIETIGDLLSK 301 Query: 288 TEADMLRMANFGRKSLVEIKGVLGT-MGLFL 317 TE ++L++ NFG+KSL E+K L GL L Sbjct: 302 TEEELLKIKNFGQKSLDEVKEKLKEKFGLEL 332 >gi|161511763|emb|CAP16892.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 264 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 120/268 (44%), Positives = 173/268 (64%), Gaps = 6/268 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KPN I E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVL Sbjct: 1 EKPN----IHKIDENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVL 56 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LN Sbjct: 57 HEFSTIEGVVEDVTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTV 187 PD IC + LT G GYV A R ++ PIG++ ID++Y+PI++V+Y V Sbjct: 117 PDQYICTVADGVTFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQV 176 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + Sbjct: 177 ENTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEK 236 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRG 275 + L +EEL+LSVRS NCL+ Sbjct: 237 EETHKEKMLEMSIEELDLSVRSYNCLKR 264 >gi|260655357|ref|ZP_05860845.1| DNA-directed RNA polymerase, alpha subunit [Jonquetella anthropi E3_33 E1] gi|260629805|gb|EEX47999.1| DNA-directed RNA polymerase, alpha subunit [Jonquetella anthropi E3_33 E1] Length = 338 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 102/322 (31%), Positives = 174/322 (54%), Gaps = 19/322 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + + + +I PL RG+ T+GNALRRVL+SS++GA +TAV+++G LHE +++ G Sbjct: 5 IRVEECTPTKARLIIGPLERGYGVTIGNALRRVLLSSIKGAGVTAVRVEGALHEFTTLPG 64 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ ++ LN+K I ++ + + + GP VT DIQ ++IE ++P+ IC L Sbjct: 65 VREDIIELQLNLKHIPVRSHSVEVRVLRLEATGPKKVTVADIQPDSEIEFIDPNFYICTL 124 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + MEL + +G GY A R + P+ + +D ++PI +V Y V++ R G D Sbjct: 125 AEGHSISMELYIEQGVGYATADRPRPDYLPVDALMVDPNFAPISRVKYDVQAERVGHKTD 184 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF---------EEPKKEVKEDINVK 248 Y+K+ M I ++G I + +VA A+++L++ + + E V+ + Sbjct: 185 YEKVVMDIYSNGVIAPDMAVAEAAKLLREYFSIVVKEILKRYPASAEMAASPVEMEQEQP 244 Query: 249 SLPFNPALL----------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 SL V +LELS+RS NCL I +G+L+ R++ ++L++ N Sbjct: 245 SLGQAIVHSDDGAENSLLGHGVRDLELSIRSENCLLRGGIHTIGELVSRSKEELLKIRNL 304 Query: 299 GRKSLVEIKGVLGTMGLFLGMN 320 G+ SL EI+ + L L + Sbjct: 305 GKISLREIEEKMAKYNLSLADD 326 >gi|269798523|ref|YP_003312423.1| DNA-directed RNA polymerase, subunit alpha [Veillonella parvula DSM 2008] gi|294792821|ref|ZP_06757968.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. 6_1_27] gi|269095152|gb|ACZ25143.1| DNA-directed RNA polymerase, alpha subunit [Veillonella parvula DSM 2008] gi|294456720|gb|EFG25083.1| DNA-directed RNA polymerase, alpha subunit [Veillonella sp. 6_1_27] Length = 334 Score = 293 bits (750), Expect = 3e-77, Method: Composition-based stats. Identities = 116/319 (36%), Positives = 183/319 (57%), Gaps = 18/319 (5%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDGVLHE Sbjct: 5 KKLKIEKVDIADGGRYGKFVCEPLDRGYGITLGNSLRRILLSSLDGAAITSIKIDGVLHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI--QTVNDIEV 127 S+I G+ ED+TDIILN+K + +K+ ++ V + G++TA D+ Q ++EV Sbjct: 65 FSTIPGIREDVTDIILNLKQLCIKVEEEAQLPLEVHFDFQKDGILTATDLAEQFPPEVEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ VI +D A + M++ + +G GYVP+ ++ + D IG I ID+++SPI + Y V Sbjct: 125 LNPELVIATMDETAHLVMDVVIERGKGYVPSTKNKKDTDVIGCIPIDSIFSPILRAKYEV 184 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--- 244 R G +D+DKL++ + TDGSIT D+VA ++ I+ LG F V + Sbjct: 185 SDVRVGNEMDFDKLTLEVWTDGSITAADAVAKSAAIMIGYLGNFTKLAHSADVVDVNTGE 244 Query: 245 ----------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 N + + ++ELELSVR+ NCL+ I + DL+ +T D+ + Sbjct: 245 GGIVIDPVGSDNEEPAVDDGPAKISIDELELSVRAYNCLKRAGINTIADLLDKTIDDLGK 304 Query: 295 MANFGRKSLVEIKGVLGTM 313 + N G+KS+ EI+ L Sbjct: 305 VRNLGKKSIDEIEEKLNNH 323 >gi|327399495|ref|YP_004340364.1| DNA-directed RNA polymerase subunit alpha [Hippea maritima DSM 10411] gi|327182124|gb|AEA34305.1| DNA-directed RNA polymerase subunit alpha [Hippea maritima DSM 10411] Length = 340 Score = 293 bits (749), Expect = 3e-77, Method: Composition-based stats. Identities = 127/324 (39%), Positives = 194/324 (59%), Gaps = 6/324 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + + EPL G+A T+GNALRRVL+SS+ G A+ V+I+GV HE S+I+G Sbjct: 14 VNVEKNTPTYGRFSLEPLNEGYATTIGNALRRVLLSSIVGIAVVGVEIEGVEHEFSTIEG 73 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V ED+ +IILN+K + K DS K V I K GPG V +GDI+ + +IE++N D I Sbjct: 74 VKEDVLNIILNLKQVRFKALNDSFKEGEVYIHKEGPGSVVSGDIEALGNIEIVNKDIYIA 133 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 L A + ++ + +G GY A + N IG I +DAL+SPI +V+Y + + Sbjct: 134 ELMDGAKLDAKIYLQRGIGYKQANYDAV-NREIGFIPVDALFSPIVRVAYHTKKSTMKDY 192 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D++KL + I+TDG+I +D++ AS IL + + +F + + + + N + N Sbjct: 193 YDFEKLVLEIETDGTIMPQDALKQASYILGNYISIFSADFKETTQKEPEENKIDIQINEN 252 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LLK VEELEL+VR++NCL NI Y+ +L Q+T+ ++L NFG++SL EIK L +GL Sbjct: 253 LLKPVEELELNVRASNCLAAHNIKYIYELTQKTDTELLNTKNFGKQSLKEIKDSLKQLGL 312 Query: 316 FLGMNLPDWPPESIEELAKKYEDK 339 LGM + E +E + + E+K Sbjct: 313 ELGM---KFSQEQLERIQQLIEEK 333 >gi|160947673|ref|ZP_02094840.1| hypothetical protein PEPMIC_01608 [Parvimonas micra ATCC 33270] gi|158446807|gb|EDP23802.1| hypothetical protein PEPMIC_01608 [Parvimonas micra ATCC 33270] Length = 313 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 116/305 (38%), Positives = 181/305 (59%), Gaps = 2/305 (0%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NIE + + E +N PL RG+ TLGN++RRVL+ SL G+AI V+IDGV HE Sbjct: 7 TNIEVLDIDLE-KNYGKFAIMPLDRGYGTTLGNSMRRVLLGSLPGSAIATVKIDGVGHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++IKG D+ +I++NIKGI LK D + + +GP VVTAGDI ++E+ N DH Sbjct: 66 TTIKGSIADVPEILINIKGIALKKFNDEPVILELNVKGPKVVTAGDISENQNVEIANKDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L+ + +RM+L V G GY + E I I +D+ +SP+KKV++ V + R Sbjct: 126 YITTLNEEGEIRMDLLVLNGKGYRVSD-LNKEYCDINSIAVDSSFSPVKKVNFIVGNTRV 184 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 GQ +D+DKL + + T+G+IT +++++ + I D L +F + + + + K L Sbjct: 185 GQSIDFDKLEIEVWTNGTITPQEALSTGAGIFIDYLSLFRSLPDINLDNSSIKDGKILDA 244 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 N L K VEEL+LS+RS NCL+ N+ + D+I + + ++ NFG+KS+ E+ + Sbjct: 245 NGVLSKSVEELDLSLRSFNCLKRANLDTVKDIISQDIEQLKKIKNFGKKSVEEVVDKIHE 304 Query: 313 MGLFL 317 +GL Sbjct: 305 LGLKF 309 >gi|328813965|gb|AEB52098.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 270 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 123/270 (45%), Positives = 177/270 (65%), Gaps = 4/270 (1%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +N ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T Sbjct: 1 KNYGEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQ 60 Query: 85 IILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 IILN+K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A Sbjct: 61 IILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGAT 120 Query: 143 VRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M LT ++G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DK Sbjct: 121 FHMRLTANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDK 180 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L++ + T+GSIT ++V+LA++IL + L MF++ + K + + + L + Sbjct: 181 LTLDVWTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTI 240 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEA 290 EEL+LSVRS NCL+ I + +L ++TEA Sbjct: 241 EELDLSVRSYNCLKRAGINTVQELTEKTEA 270 >gi|11465759|ref|NP_053903.1| RNA polymerase alpha subunit [Porphyra purpurea] gi|1710668|sp|P51293|RPOA_PORPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1276759|gb|AAC08179.1| DNA directed RNA polymerase alpha subunit [Porphyra purpurea] Length = 311 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 97/312 (31%), Positives = 162/312 (51%), Gaps = 13/312 (4%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 + + + + E L +G TLGNALRR ++S L G AI AV+I GV HE Sbjct: 5 QIECVESRTDGARGQYGSFVIEALNQGQGITLGNALRRSILSDLEGTAIVAVRIAGVNHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I GV ED+ +I+LN+K + K + + I +GP +VTAG + +DIEV++P Sbjct: 65 FSTIPGVREDVLEILLNLKEVVFKSNNQESQIGRIKVQGPAIVTAGLFELSSDIEVVDPR 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I + + + ME + K GY A+ E + + +D+++ P+ KV+Y VE R Sbjct: 125 QYIATICNNTIFEMEFKIEKSCGYRLAEKAVDE-LSLDFLQVDSVFMPVNKVNYKVEEVR 183 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G D+L + I T+GSI+ +++++ + +L + + K ++ Sbjct: 184 VGTNSIKDRLILQIWTNGSISPQEAISQGATVLTNLFCSLR-----NLDFKSVDTYRNKE 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL+LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L Sbjct: 239 DKKISQVLIEELQLSVRAYNCLKRAQIHSIADLLDYSQEELLEIKNFGQKSAEEVIYAL- 297 Query: 312 TMGLFLGMNLPD 323 LG++LP Sbjct: 298 --QKTLGISLPK 307 >gi|288929313|ref|ZP_06423158.1| DNA-directed RNA polymerase, alpha subunit [Prevotella sp. oral taxon 317 str. F0108] gi|288329415|gb|EFC68001.1| DNA-directed RNA polymerase, alpha subunit [Prevotella sp. oral taxon 317 str. F0108] Length = 330 Score = 292 bits (748), Expect = 4e-77, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GN+LRR+L+SSL G +I V+I GV Sbjct: 6 FQKPDKV---VMLEANDKFGRFEFRPLEPGFGVTIGNSLRRILLSSLEGFSINTVRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENTTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASLQIDLTINKGRGYVPADENREFCTDVNVIPIDSIYTPIRNVRY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI+ +D++ A++IL +F I E + Sbjct: 183 SVEPYRVEQKTDYDKLVIDVTTDGSISPKDALKEAAKILIYHFMLFSDEKIAVENQDVDT 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLLGLNLSFGTDISKY 325 >gi|257453242|ref|ZP_05618541.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 3_1_5R] gi|317059776|ref|ZP_07924261.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 3_1_5R] gi|313685452|gb|EFS22287.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 3_1_5R] Length = 326 Score = 292 bits (748), Expect = 5e-77, Method: Composition-based stats. Identities = 113/304 (37%), Positives = 183/304 (60%), Gaps = 6/304 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E + Sbjct: 18 ESEFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEAV 77 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+IILN+K I +K +++T+ +GP VVTA DI +E++NP+ IC + D Sbjct: 78 TEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICTITTDRE 137 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL+ Sbjct: 138 LDIEFLVDTGEGFVVSEEIERDGWAVDYIAVDAIYTPIRKVSYDIQDTMVGRMTDFDKLT 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF------NPAL 256 ++++TDGSI D+++ A +L+ L F+ + ++ ++ + + L Sbjct: 198 LSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRVEVEEEVENQSSSIRDDINL 257 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + +G Sbjct: 258 NIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKMKELGYD 317 Query: 317 LGMN 320 L N Sbjct: 318 LAQN 321 >gi|11466357|ref|NP_038360.1| RNA polymerase alpha subunit [Mesostigma viride] gi|12230597|sp|Q9MUV0|RPOA_MESVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|7259500|gb|AAF43801.1|AF166114_13 alpha subunit of RNA polymerase [Mesostigma viride] Length = 316 Score = 292 bits (747), Expect = 5e-77, Method: Composition-based stats. Identities = 97/314 (30%), Positives = 158/314 (50%), Gaps = 10/314 (3%) Query: 12 PNNIEYIV--LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P+ I I + + EPL G T+GN LRR+L+ + GAAIT+V+I G Sbjct: 8 PSTIYCIESKIESPRNLYGRFLIEPLAIGQGITVGNTLRRILLGDIEGAAITSVKIPGAN 67 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 +E S + G+ E + +I+LN+K I + ++ + +GP VV A ++Q IEV++ Sbjct: 68 NEFSILPGIRESVLEILLNLKEIVFRTKSLDVQKGYLSIQGPCVVKAANLQLPTSIEVVD 127 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L +A + ME ++ G GY A + +N I + +DA++ PI KV+Y VE Sbjct: 128 GGQYIATLSGNANLDMEFVINTGKGYQMADYAIKKNSYISSLPVDAIFMPIHKVNYMVEQ 187 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + L +++ + I T+GSI+ D++ + + + D + K D Sbjct: 188 DHTSKFLT-ERVILEIWTNGSISPRDALDIGIKKVIDLFNPLHHCSSEYSTNKND----F 242 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + VEELELSVR+ NCL+ I + DL+ ++ D+L + NFGR+S E+ Sbjct: 243 STESKINDILVEELELSVRAYNCLKRAQIHTISDLLAYSQEDLLEIKNFGRRSAEEVIEA 302 Query: 310 LGTMGLFLGMNLPD 323 L L + LP Sbjct: 303 LE---KKLNIYLPK 313 >gi|312899071|ref|ZP_07758455.1| DNA-directed RNA polymerase, alpha subunit [Megasphaera micronuciformis F0359] gi|310619856|gb|EFQ03432.1| DNA-directed RNA polymerase, alpha subunit [Megasphaera micronuciformis F0359] Length = 334 Score = 292 bits (747), Expect = 6e-77, Method: Composition-based stats. Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 20/314 (6%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + + +PL RG+ TLGN+LRR+L+SSL G AIT+++IDG+LHE ++I GV ED++ Sbjct: 17 DGTFGKFVCKPLDRGYGITLGNSLRRILLSSLEGVAITSIKIDGILHEFTTIPGVREDVS 76 Query: 84 DIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+K + +K + + + G TA D+ +DIE+LNP I LD DA Sbjct: 77 EIILNLKQVRMKFHKEDQMEADIIVDISGECDFTAADLNVNSDIEILNPTLHIATLDEDA 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 +RM+ + +G GYVP+ ++ + D IG+I ID+++SPI + Y V + R G +DYD L Sbjct: 137 HIRMQCHIERGKGYVPSTKNKKDTDVIGVIPIDSIFSPILRAKYEVGNVRVGNEMDYDSL 196 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK------------------E 243 +M + TDGS+T ED++A ++ IL L P + ++ E Sbjct: 197 TMEVLTDGSLTAEDAMAESASILSSYLEKIKQLAAPGRNLQQGKFTEDELGAGANGANAE 256 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + ++ L+LSVR++NCL+ NI + +LI T++D+ ++ N G KS+ Sbjct: 257 GAGADGTDMGEGGDESIDTLQLSVRASNCLKRANIYTIKELISHTKSDLGKIRNLGSKSV 316 Query: 304 VEIKGVLGTMGLFL 317 EI L G L Sbjct: 317 EEIIEKLSQFGYKL 330 >gi|260909777|ref|ZP_05916471.1| DNA-directed RNA polymerase subunit alpha [Prevotella sp. oral taxon 472 str. F0295] gi|260636202|gb|EEX54198.1| DNA-directed RNA polymerase subunit alpha [Prevotella sp. oral taxon 472 str. F0295] Length = 330 Score = 292 bits (747), Expect = 6e-77, Method: Composition-based stats. Identities = 122/323 (37%), Positives = 192/323 (59%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + V+ + + PL GF T+GN+LRR+L+SSL G +I V+I GV Sbjct: 6 FQKPDKV---VMLEANDKFGRFEFRPLEPGFGVTIGNSLRRILLSSLEGFSINTVRIAGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + +++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFENEKVSITVENTTEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNPD VIC+LD A ++++LT++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPDLVICHLDAKASLQIDLTINKGRGYVPADENREFCTDVNVIPIDSIYTPIRNVRY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 +VE R Q DYDKL + + TDGSI+ +D++ A++IL +F I E + Sbjct: 183 SVEPYRVEQKTDYDKLIIDVTTDGSISPKDALKEAAKILIYHFMLFSDEKIAVENQDVDT 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ ++ LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMNLSVRALNCLKAADVETLGDLVQYNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L + L G ++ + Sbjct: 303 SLTELDDLLLGLNLSFGTDISKY 325 >gi|312271196|gb|ADQ57295.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 253 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 110/253 (43%), Positives = 159/253 (62%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T I Sbjct: 1 SYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKI 60 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + LK D K + + GP VTA D++ D++VLNPD IC + + M Sbjct: 61 ILNLKKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHM 120 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I Sbjct: 121 EIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEI 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 TDGSI D+++ A++IL + +F + + K + + + L +EEL+L Sbjct: 181 WTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDL 240 Query: 266 SVRSTNCLRGENI 278 SVRS NCL+ I Sbjct: 241 SVRSYNCLKRAGI 253 >gi|297180267|gb|ADI16486.1| DNA-directed RNA polymerase, alpha subunit/40 kd subunit [uncultured bacterium HF4000_05M23] Length = 328 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 112/317 (35%), Positives = 174/317 (54%), Gaps = 8/317 (2%) Query: 2 IQKNWQELIKPNNIEY----IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 + QEL+ P E I + + EE +AEPL RG TLGNALRR L++SL G Sbjct: 1 MIGTVQELLSPFTPEIPDLSIAIQENEEAYGRFVAEPLERGRGVTLGNALRRTLLNSLPG 60 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AIT V+IDG LHE S+I + E++ + +L +KGI L+ D R+ I G G V AG Sbjct: 61 TAITWVRIDGALHEYSTIPHMPEEVVEFLLKVKGIRLRSLADRPGRLRIEVDGEGEVRAG 120 Query: 118 DIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI D E++NP+H + LD A + +E V +G GY PA E PIG++ +DA+ Sbjct: 121 DIMATADFEIVNPEHHLATLDSAMARLSVEFNVEQGVGYQPAIQ--EEGLPIGVLLVDAI 178 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 ++PI+K +++VE+ R G D ++L + + TD +I +++ AS++L D F E Sbjct: 179 FTPIRKSNFSVEATRAGHRSDLERLIVEVWTDRTIMPLEAMKSASKLLMDCFFPFTQVGE 238 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 P ++D VE L LS R+ NCL+ +G+++ +++++++ Sbjct: 239 PVGG-EDDKPGIDGVTPEVFNTLVETLALSARTHNCLKRAGFNRVGEILLLPKSELMKIR 297 Query: 297 NFGRKSLVEIKGVLGTM 313 FG+KSL E+ L Sbjct: 298 GFGQKSLDELYVKLAEK 314 >gi|730608|sp|Q01569|RPOA_PYRSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|938275|emb|CAA46702.1| DNA-directed RNA polymerase alpha subunit [Pyrenomonas salina] Length = 314 Score = 292 bits (747), Expect = 7e-77, Method: Composition-based stats. Identities = 100/312 (32%), Positives = 168/312 (53%), Gaps = 13/312 (4%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 E + E + + EPL +G TLGNALRR L++ L G AI AV+I GV HE Sbjct: 5 EIECIESTREGLRDHYSKFCLEPLNQGQGTTLGNALRRTLLADLEGTAIVAVRIAGVSHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I G+ ED+ +I+LN+K + LK + + +GP +VT ++ ++IE+++P+ Sbjct: 65 FSTIPGIREDVLEILLNLKEVVLKSQIGTSGVGRLRVQGPAIVTTNHLELPSEIELIDPN 124 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I + + ++ ME + G GY + E I + +DA++ P+KKV+Y + R Sbjct: 125 QYIATICGNNILEMEFRIETGKGYNLVERDSDE-SSIDFLQVDAIFMPVKKVNYLSKDIR 183 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 L ++L++ + T+GSI +D+V+ A +IL + L + K D + + Sbjct: 184 SENNLIQEQLTLEVWTNGSIDPQDAVSQAGKILTELLFPL-----KEINFKPDDSESIIE 238 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +EEL+LSVR+ NCL+ I + DL+ ++ D++ + NFG+KS E+ L Sbjct: 239 DSKINQILIEELQLSVRAYNCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEEVIDAL- 297 Query: 312 TMGLFLGMNLPD 323 LG+NLP Sbjct: 298 --QKRLGINLPK 307 >gi|227485498|ref|ZP_03915814.1| DNA-directed RNA polymerase [Anaerococcus lactolyticus ATCC 51172] gi|227236497|gb|EEI86512.1| DNA-directed RNA polymerase [Anaerococcus lactolyticus ATCC 51172] Length = 316 Score = 291 bits (745), Expect = 9e-77, Method: Composition-based stats. Identities = 112/311 (36%), Positives = 188/311 (60%), Gaps = 4/311 (1%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 NIE + + +E+ + PL RG+ T+GN++RRVL+SSL G++++ + IDGVLHE Sbjct: 7 TNIEILDINEED-HYGKFALYPLERGYGTTIGNSMRRVLLSSLPGSSVSKILIDGVLHEF 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S I GV ED+ +IILNIKG+N+K D + + GP +VTA DI+ +E+ NPDH Sbjct: 66 SIIDGVVEDVPEIILNIKGLNVKKHSDEDVTLFLEIEGPKIVTAKDIKEDALVEIANPDH 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I ++ + + + + V+ G+GY + ++ + DPIG I ID+ ++P++KV+YTVE+ R Sbjct: 126 YIATVNDKSKLLIAMDVTNGNGYRISDDNKDDKDPIGTIAIDSSFTPVEKVNYTVENTRV 185 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G+ D+DKL + + T+G++T ++++A IL ++ F + K +E + L Sbjct: 186 GESTDFDKLIIEVWTNGTVTPQEALAEGLSILMNKFAFFKELPDKKFPPEEIETTEELAA 245 Query: 253 NPAL---LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + +EEL+LS+RS NCL+ + D+I+ EA++ + NFG+KSL E+ Sbjct: 246 DDVNEDLERTIEELDLSLRSFNCLKRAGFNTVADIIKVPEAELKIIKNFGKKSLTEVIDK 305 Query: 310 LGTMGLFLGMN 320 + +G L Sbjct: 306 IHDLGFTLKDE 316 >gi|51209922|ref|YP_063586.1| RNA polymerase alpha subunit [Gracilaria tenuistipitata var. liui] gi|68053119|sp|Q6B8X4|RPOA_GRATL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|50657676|gb|AAT79661.1| RNA polymerase alpha subunit [Gracilaria tenuistipitata var. liui] Length = 314 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 160/305 (52%), Gaps = 9/305 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + I EPL +G TLGN+LRR ++S L+GAAI AV+I G+ HE S+I GV Sbjct: 12 KTESNRQQYGRFILEPLNKGQGITLGNSLRRTILSDLQGAAIVAVRIAGINHEFSTITGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+K + LK D+ + I +GP ++T G + +I +++P I + Sbjct: 72 REDVLEILLNLKKVVLKSHSDTPQIGRIRLQGPAIITTGLFEVPPEILIIDPQQYIATIC 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + ME + KG GY + I + IDA++ P+ K +YTVE + +L Sbjct: 132 NNTIFEMEFRIEKGSGYKLVNKG-FDKKSIDFLQIDAVFMPVTKFNYTVEEKKISPILIQ 190 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +KL + + T+GS++ +++++ +++L + N + Sbjct: 191 EKLFLEVWTNGSLSPQEAISEGAQVLHSLFYPLT-----NLNFQNANNTDNEYEEEINQV 245 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +EEL+LSVR+ NCL+ I + DL+ ++ ++L + NFG+KS E+ L LG Sbjct: 246 LIEELQLSVRAYNCLKRAQINSISDLLDYSQDELLEIKNFGQKSAEEVIEALQNK---LG 302 Query: 319 MNLPD 323 + LP Sbjct: 303 IRLPK 307 >gi|157493285|gb|ABV58008.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 272 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 122/275 (44%), Positives = 188/275 (68%), Gaps = 8/275 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLA 60 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSK 151 +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V + Sbjct: 61 VRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVER 120 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T+ Sbjct: 121 GRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSL 272 >gi|318042541|ref|ZP_07974497.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0101] Length = 312 Score = 291 bits (745), Expect = 1e-76, Method: Composition-based stats. Identities = 101/309 (32%), Positives = 165/309 (53%), Gaps = 14/309 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + +E+ + + + + PL RG A TLGN+LRRVLM +L G+AITAV+I GV HE Sbjct: 7 DRVEHQIADDRSQT-GVFVIGPLERGQAITLGNSLRRVLMGALEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K I + + + GP VTA D+Q + + V++ D Sbjct: 66 ATVPGVREDVLDILLNCKDIAVSSRTRELEIGRLVANGPCTVTASDLQFSSQVSVIDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P + I L+ IDA++ P+++V+Y+V+ Sbjct: 126 PIATVADGYSLELEVHVERGVGYRPVDRRSEDTSAIDLLQIDAVFMPVRRVNYSVDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 G+ ++L + I+TDGS+T +D++A A+ L +EP E + + Sbjct: 186 GEGGSARERLRLEIETDGSVTPDDAMAQAANQLIALFQPLASLTMVDEPGLEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLFL 317 L +G+ L Sbjct: 297 ALERIGISL 305 >gi|212550426|ref|YP_002308743.1| DNA-directed RNA polymerase subunit alpha [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] gi|212548664|dbj|BAG83332.1| DNA-directed RNA polymerase alpha subunit [Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2] Length = 328 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 115/323 (35%), Positives = 188/323 (58%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + + + + PL G+ T+GN+LRRVL+SSL G AIT+++I+GV Sbjct: 6 FQKPDRVIEV---ESGDKYGKFEFHPLESGYGITIGNSLRRVLLSSLEGYAITSIKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDI-QTVNDI 125 +E + + GV ED+T+IIL +K + K + V + A DI + ++ Sbjct: 63 SNEFAVVPGVVEDVTNIILKLKQVRFKRINKDFEYERVVLTISETDKFKADDISKRLSGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EV+N D +I +LD A + +ELT+ KG GYVP++ + ++D + I ID++++PI V Y Sbjct: 123 EVVNSDFIIAHLDKSANLNIELTIRKGRGYVPSEENYRDSDDVNQIAIDSVFTPIVNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VES R Q DY+KL++ I TDGS+ + ++ AS IL L +F I E+ + E Sbjct: 183 NVESFRVEQKTDYEKLTIEIMTDGSVCPKIALKSASDILIQHLELFSEGRIRLEKDEIET 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +D + L L K+ ++ELSVR+ NCL+ E I + DL++ ++D+++ NFG+K Sbjct: 243 VKDFDEDVLRIRQLLKSKLSDMELSVRALNCLKAEAIETLEDLVKYQKSDLMKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SLVE+ +L + L GM++ + Sbjct: 303 SLVELDELLAKLNLTFGMDIEKY 325 >gi|58416042|emb|CAH57435.1| RNA polymerase alpha-subunit [Vibrio sp. R-21432] Length = 287 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 123/293 (41%), Positives = 190/293 (64%), Gaps = 11/293 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +KP ++ + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GV Sbjct: 1 FLKPRLVD---IEQVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGV 57 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 LHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ Sbjct: 58 LHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEI 117 Query: 128 LNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKV 183 NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA YSP+ K+ Sbjct: 118 ANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKI 177 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y+VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + + ++ Sbjct: 178 AYSVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEK 237 Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 238 EEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTP 287 >gi|308522652|dbj|BAJ22937.1| RNA polymerase alpha subunit [Aliivibrio sp. LC2-088] Length = 271 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 125/274 (45%), Positives = 187/274 (68%), Gaps = 7/274 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG Sbjct: 1 LEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 + +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 61 LAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIRVE 120 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP+ H + PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL +F++ + + +++ + P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRAATILAEQLDVFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 RS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >gi|328813979|gb|AEB52105.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 263 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 114/267 (42%), Positives = 167/267 (62%), Gaps = 4/267 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGV Sbjct: 1 FEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGV 56 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VL Sbjct: 57 LHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQVL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + ME+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VE Sbjct: 117 NPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + K + + + Sbjct: 177 STRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKE 236 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 237 DDKKEKKLEMTIEELDLSVRSYNCLKR 263 >gi|46446067|ref|YP_007432.1| DNA-directed RNA polymerase subunit alpha [Candidatus Protochlamydia amoebophila UWE25] gi|81627550|sp|Q6ME42|RPOA_PARUW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|46399708|emb|CAF23157.1| putative DNA-directed RNA polymerase alpha chain [Candidatus Protochlamydia amoebophila UWE25] Length = 371 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 115/355 (32%), Positives = 191/355 (53%), Gaps = 21/355 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + + P+ I E N +AEP RGF HT+GNALRR+++SSL AI Sbjct: 1 MSVKYGKFEMPHKITVDQ-ESPESNFARYVAEPFERGFGHTIGNALRRMMLSSLEAPAII 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTI------------- 106 +V+++G+ HE +I+G+ ED+T+IILN KG L+ + ++ + I Sbjct: 60 SVRVEGIPHEYMAIEGISEDMTNIILNFKGALLRKLPTEETPRDTRILTKVVEVTQDDLD 119 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +G VT D+ + E++NP+ + + +++L ++ G GYVP++ H + Sbjct: 120 RNQGQYCVTLQDVVQEGNFEIVNPELHLFTVTKPMRRQVDLRIAFGRGYVPSERHVVRDK 179 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 I +DA +SP++ ++Y +E+ R GQ D+D+L M + TDG IT ++++ A +I Sbjct: 180 TSDEILVDAAFSPVRLINYFIENTRVGQDTDFDRLIMEVTTDGRITPAEALSFAVQIGLK 239 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGD 283 +F F E ++ + + K ++E+ELSVRS NCL G NI + + Sbjct: 240 HFEVFNQFNNYALSFDEKDGDRNGDQDELMDKLSLGIDEIELSVRSANCLTGANIETLAE 299 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEELAKKY 336 L+ E ML NFG+KSL EIK L M L LGM+L + P+++++ K+Y Sbjct: 300 LVCIPERRMLEFRNFGKKSLNEIKAKLHEMSLHLGMDLSRFGVSPDNVKDKIKQY 354 >gi|328813937|gb|AEB52084.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 263 Score = 291 bits (744), Expect = 1e-76, Method: Composition-based stats. Identities = 117/263 (44%), Positives = 173/263 (65%), Gaps = 4/263 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNV 60 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I LK++G D + + I +GP +TAGDI D+++LNPD I + A M + Sbjct: 61 KKIALKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRM 120 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A R + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + Sbjct: 121 TADKGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSI +++ALA++IL + L MF++ + K + + + L +EEL+L Sbjct: 181 WTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEELDL 240 Query: 266 SVRSTNCLRGENIVYMGDLIQRT 288 SVRS NCL+ I + +L +T Sbjct: 241 SVRSYNCLKRAGINTVQELNNKT 263 >gi|260656834|gb|ACX47807.1| RNA polymerase alpha-subunit [Vibrio litoralis] Length = 276 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 126/279 (45%), Positives = 187/279 (67%), Gaps = 8/279 (2%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLA 60 Query: 94 L-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 + G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V + Sbjct: 61 VSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEIAMRIKVQR 120 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP+ H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+ Sbjct: 121 GRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIK 276 >gi|308522648|dbj|BAJ22935.1| RNA polymerase alpha subunit [Aliivibrio sifiae] gi|308522650|dbj|BAJ22936.1| RNA polymerase alpha subunit [Aliivibrio sifiae] gi|308522654|dbj|BAJ22938.1| RNA polymerase alpha subunit [Aliivibrio sp. ATCC 33715] Length = 271 Score = 290 bits (743), Expect = 2e-76, Method: Composition-based stats. Identities = 125/274 (45%), Positives = 186/274 (67%), Gaps = 7/274 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG Sbjct: 1 LEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 + +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 61 LAVKVEGKDEVIITLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVE 120 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVP+ H + PIG + IDA YSP+ K+SY+VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPSTARIHTEEDERPIGRLLIDATYSPVDKISYSVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 RS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 271 >gi|282891929|ref|ZP_06300408.1| hypothetical protein pah_c200o089 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281498189|gb|EFB40529.1| hypothetical protein pah_c200o089 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 371 Score = 290 bits (742), Expect = 2e-76, Method: Composition-based stats. Identities = 121/358 (33%), Positives = 184/358 (51%), Gaps = 27/358 (7%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P I + IAEP +GF HT+GN+LRR+++SSL AI +V+I+G Sbjct: 7 KFEIPQQISVDE-ETLSQTFGRFIAEPFEKGFGHTVGNSLRRMMLSSLEAPAIVSVRIEG 65 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK---------MSGDSHKRVTIFKR--------G 110 + HE +I+G+ ED+T+IILN+KG ++ D + G Sbjct: 66 ISHEYMAIEGIVEDMTNIILNLKGALIRKLPLDDAPNSRDDRIVTSILEITQDDLDKNHG 125 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 VT GD+ T + EV+NP + + +++L V G GYVP+ Sbjct: 126 KYHVTLGDVFTEGNYEVVNPQLHLFTVTQPMKRQVDLRVVIGRGYVPSDRLDVHGKTSDE 185 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I IDA +SP++ V+Y VE+ R GQ D+D+L + I TDG +T +++A A++I + + Sbjct: 186 ILIDAAFSPVRLVNYAVENTRVGQDTDFDRLLLEITTDGRVTPAEALAFAAQIGVKHMSV 245 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQR 287 F + E + + + K +++E+ELSVRSTNCL G NI + +L+ Sbjct: 246 FTHINPHLLLFDEGQSRDDADQDAIMAKLALRIDEIELSVRSTNCLSGANIDTIAELVSI 305 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP------PESIEELAKKYEDK 339 E ML NFG+KSL EIK L MGL LGM+L + E I + K+ +DK Sbjct: 306 PERRMLEFRNFGKKSLNEIKAKLTEMGLHLGMDLSKYGITADNVKEKIAQYHKEAKDK 363 >gi|254431538|ref|ZP_05045241.1| DNA-directed RNA polymerase, alpha subunit [Cyanobium sp. PCC 7001] gi|197625991|gb|EDY38550.1| DNA-directed RNA polymerase, alpha subunit [Cyanobium sp. PCC 7001] Length = 312 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 105/306 (34%), Positives = 166/306 (54%), Gaps = 8/306 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + + + PL RG A TLGNALRRVL+ L G+AITAV+I GV HE Sbjct: 7 DRIEHHVAEDRAQT-GVFLIGPLDRGQATTLGNALRRVLIGGLEGSAITAVRISGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + + + + GP VTA D+Q + ++V++PD Sbjct: 66 ATVPGVREDVLDILLNCKQVAVSSRSRELEIGRLVVNGPATVTAADLQFSSQVQVIDPDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 +I + + ME+ V +G GY P H + I L+ IDA++ P+K+V+YTV+ Sbjct: 126 LIATVAEGFGLEMEVHVERGVGYRPVDRHSEDTSAIDLLQIDAVFKPVKRVNYTVDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I+T+GSIT +D++A A+ L ++ +E Sbjct: 186 GEGGSARERLRLEIETNGSITPDDAMAQAANQLIALFQPLATLSVVEEPGQEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFL 317 +G+ L Sbjct: 300 RIGITL 305 >gi|310779568|ref|YP_003967901.1| DNA-directed RNA polymerase subunit alpha [Ilyobacter polytropus DSM 2926] gi|309748891|gb|ADO83553.1| DNA-directed RNA polymerase subunit alpha [Ilyobacter polytropus DSM 2926] Length = 325 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 123/309 (39%), Positives = 189/309 (61%), Gaps = 6/309 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + + I EPL RG+ HT+GNALRRVL+SS+ GAAI ++IDGVL+E S I+G Sbjct: 13 ISEVKENDFKAQYIVEPLYRGYGHTIGNALRRVLLSSIPGAAIKGLRIDGVLNEFSIIEG 72 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +TDIILN+K + +K KR+ + +GP +VTA DI +++E++NPD VIC + Sbjct: 73 VKEAVTDIILNVKEVIVKTETSGEKRMNLSVQGPKIVTAADINPDSELEIINPDQVICTV 132 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + ME V G G+V A+ ++ + IT+DA+Y+PIK+VSY+VE G++ D Sbjct: 133 TTEKEINMEFLVDTGEGFVVAEDIERKDWSVDYITVDAIYTPIKRVSYSVEDTMVGRMTD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV------KEDINVKSLP 251 +DKL++ ++TDGSI D+++ A +L+ F++ + + +E V S Sbjct: 193 FDKLTLNVETDGSIVIRDAISYAVELLRLHFDPFLDIGNGMENLRGDLEEEEVEEVDSSK 252 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 L K+EEL+L+VRS NCL+ I +G L + ++L++ N GRKSL EI + Sbjct: 253 DEDVLNLKIEELDLTVRSFNCLKKAGIEEVGQLAILSLNELLKIKNLGRKSLDEILDKMK 312 Query: 312 TMGLFLGMN 320 +G L N Sbjct: 313 ELGFDLSQN 321 >gi|270265495|emb|CBI68384.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 286 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 123/288 (42%), Positives = 187/288 (64%), Gaps = 8/288 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ + Sbjct: 2 LVDIEQVSATHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKE 61 Query: 77 GVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ +I+LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC Sbjct: 62 GVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVIC 121 Query: 136 NLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +L D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Sbjct: 122 HLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAAR 181 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ ++ IL +QL F++ + + +++ + P Sbjct: 182 VEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEKEEKPEFDP 241 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 242 ---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 286 >gi|328813995|gb|AEB52113.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 254 Score = 289 bits (741), Expect = 3e-76, Method: Composition-based stats. Identities = 119/254 (46%), Positives = 169/254 (66%), Gaps = 2/254 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A M +T Sbjct: 61 KKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T Sbjct: 121 NTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +GSIT ++++L+++IL D L +F+N + K + + L +EEL+LSV Sbjct: 181 NGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDLSV 240 Query: 268 RSTNCLRGENIVYM 281 RS NCL+ I + Sbjct: 241 RSYNCLKRAGINTV 254 >gi|13096176|pdb|1HQM|A Chain A, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information gi|13096177|pdb|1HQM|B Chain B, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information Length = 313 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 108/297 (36%), Positives = 164/297 (55%), Gaps = 3/297 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 + ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 16 QGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +IILN+K + ++ + + + GP V A D D+E++NPD I L+ Sbjct: 76 VEIILNLKELVVRFLDPRWRTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEGG 135 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DKL Sbjct: 136 KLYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVKEDINVKSLPFNPALLKKV 260 ++ I TDGS+T +++ A IL++ L F N E + K L + Sbjct: 195 TLRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLPL 254 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 255 EELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 311 >gi|83858542|ref|ZP_00952064.1| DNA-directed RNA polymerase alpha subunit [Oceanicaulis alexandrii HTCC2633] gi|83853365|gb|EAP91217.1| DNA-directed RNA polymerase alpha subunit [Oceanicaulis alexandrii HTCC2633] Length = 274 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 154/255 (60%), Positives = 197/255 (77%), Gaps = 1/255 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +I+KNWQELI+P E I G + + +IAEPL RGF TLGNALRR+L+SSL+GA+I Sbjct: 20 VIEKNWQELIRPMKPE-IQPGFDPVRQAKIIAEPLERGFGMTLGNALRRILLSSLQGASI 78 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TAVQID VLHE SSIKGV ED+TDIILN+K + L+M G+ KR+T+ K+GPG VTAGDI+ Sbjct: 79 TAVQIDSVLHEFSSIKGVREDVTDIILNLKQVALRMHGEGPKRLTLKKQGPGEVTAGDIE 138 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 D+E++N DHVIC LD DA VRM LTV+ G GYVPA +R E+ PIGLI +DALYSP+ Sbjct: 139 ETADVEIINKDHVICTLDEDADVRMVLTVNTGKGYVPADRNRPEDAPIGLIGVDALYSPV 198 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V+Y VE+ REGQVLDYDKL + ++T+G++T ED+VA A+RILQDQ +F+NFEEP + Sbjct: 199 KRVAYRVENTREGQVLDYDKLILEVETNGAVTPEDAVAYAARILQDQFQIFVNFEEPSEA 258 Query: 241 VKEDINVKSLPFNPA 255 + + L FNPA Sbjct: 259 RAAEDDKPELDFNPA 273 >gi|311990466|gb|ADQ26363.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 257 Score = 289 bits (740), Expect = 4e-76, Method: Composition-based stats. Identities = 112/257 (43%), Positives = 161/257 (62%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K Sbjct: 1 VEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 61 LELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQN 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 121 GRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 D+++ A++IL + +F + + K + + + L +EEL+LSVRS N Sbjct: 181 KPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRSYN 240 Query: 272 CLRGENIVYMGDLIQRT 288 CL+ I + +L T Sbjct: 241 CLKRAGINTLQELTDMT 257 >gi|12230594|sp|Q9KWU8|RPOA_THEAQ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|21466003|pdb|1L9U|A Chain A, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466004|pdb|1L9U|B Chain B, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466009|pdb|1L9U|J Chain J, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466010|pdb|1L9U|K Chain K, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution gi|21466016|pdb|1L9Z|A Chain A, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction Promoter Dna Complex At 6.5 A Resolution gi|21466017|pdb|1L9Z|B Chain B, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction Promoter Dna Complex At 6.5 A Resolution gi|62738680|pdb|1YNJ|A Chain A, Taq Rna Polymerase-Sorangicin Complex gi|62738681|pdb|1YNJ|B Chain B, Taq Rna Polymerase-Sorangicin Complex gi|62738686|pdb|1YNN|A Chain A, Taq Rna Polymerase-Rifampicin Complex gi|62738687|pdb|1YNN|B Chain B, Taq Rna Polymerase-Rifampicin Complex gi|109157854|pdb|2GHO|A Chain A, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies gi|109157855|pdb|2GHO|B Chain B, Recombinant Thermus Aquaticus Rna Polymerase For Structural Studies gi|7573271|emb|CAB65464.2| RNA polymerase, alpha subunit [Thermus aquaticus] Length = 314 Score = 289 bits (739), Expect = 4e-76, Method: Composition-based stats. Identities = 109/298 (36%), Positives = 164/298 (55%), Gaps = 4/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 + ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 16 QGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +IILN+K + ++ + + GP V AGD D+E++NPD I L+ Sbjct: 76 VEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEG 135 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DK Sbjct: 136 GKLYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDK 194 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVKEDINVKSLPFNPALLKK 259 L++ I TDGS+T +++ A IL++ L F N E + K L Sbjct: 195 LTLRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLP 254 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 255 LEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 312 >gi|149072030|ref|YP_001293601.1| RNA polymerase alpha subunit [Rhodomonas salina] gi|172048721|sp|A6MW22|RPOA_RHDSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134302981|gb|ABO70785.1| RNA polymerase alpha subunit [Rhodomonas salina] Length = 314 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 98/315 (31%), Positives = 165/315 (52%), Gaps = 13/315 (4%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 E + + + + EPL +G TLGNALRR L+S L G AI AV+I GV Sbjct: 2 TKFEIECVESTTDGARDHYSKFCLEPLEQGQGVTLGNALRRTLLSDLEGTAIVAVRIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ ED+ +I+LN+K + LK + + +GP +VT +++ +++E++ Sbjct: 62 SHEFSTIPGIREDVLEILLNLKEVVLKSQTKNPSVGRLRVQGPAIVTTSNLELPSEVELI 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 +P+ I + + ++ ME + G GY + E I + +DA++ P+KKV+Y + Sbjct: 122 DPNQYIATICGNNILEMEFRIETGKGYHLIERSIDE-TSIDFLQVDAIFMPVKKVNYLTK 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R L ++L + + T+GSI +D+V+ +IL + L + K D Sbjct: 181 DIRSNDNLLQEQLLLEVWTNGSIDPQDAVSQGGKILTELLHPL-----KEINFKSDEEDT 235 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + +EEL+LSVR+ NCL+ I + DL+ ++ D++ + NFG+KS E+ Sbjct: 236 VAEDSKINQILIEELQLSVRAYNCLKRAQIHSVADLLDYSQEDLIEIKNFGQKSAEEVID 295 Query: 309 VLGTMGLFLGMNLPD 323 L LG+NLP Sbjct: 296 AL---QKRLGINLPK 307 >gi|329962293|ref|ZP_08300299.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides fluxus YIT 12057] gi|328530401|gb|EGF57278.1| DNA-directed RNA polymerase, alpha subunit [Bacteroides fluxus YIT 12057] Length = 330 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 120/323 (37%), Positives = 194/323 (60%), Gaps = 10/323 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KP+ + ++ + + PL GF T+GNALRR+L+SSL G AIT ++IDGV Sbjct: 6 FQKPDKV---LMLEADSRFGKFEFRPLEPGFGITVGNALRRILLSSLEGFAITTIKIDGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVNDI 125 HE SS+ GV ED+T+IILN+K + K + ++V+I AGDI + + Sbjct: 63 EHEFSSVPGVKEDVTNIILNLKQVRFKQVVEEFESEKVSITIENSSEFKAGDIGKYLTGF 122 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EVLNP+ VIC+LD + +++++T++KG GYVPA +R + +I ID++Y+PI+ V Y Sbjct: 123 EVLNPELVICHLDSKSTMQIDITINKGRGYVPADENREYCTDVNVIPIDSIYTPIRNVKY 182 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF----INFEEPKKEV 241 VE+ R Q DY+KL + I TDGSI ++++ A++IL +F I E + Sbjct: 183 QVENFRVEQKTDYEKLVLEIATDGSIHPKEALKEAAKILIYHFMLFSDEKITLESNDVDG 242 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + + L L K+ +++LSVR+ NCL+ ++ +GDL+Q + D+L+ NFG+K Sbjct: 243 NEEFDEEVLHMRQLLKTKLVDMDLSVRALNCLKAADVETLGDLVQFNKTDLLKFRNFGKK 302 Query: 302 SLVEIKGVLGTMGLFLGMNLPDW 324 SL E+ +L ++ L G ++ + Sbjct: 303 SLTELDDLLESLSLSFGTDISKY 325 >gi|328814003|gb|AEB52117.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 261 Score = 289 bits (739), Expect = 5e-76, Method: Composition-based stats. Identities = 121/261 (46%), Positives = 171/261 (65%), Gaps = 2/261 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+G Sbjct: 1 IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEG 60 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + Sbjct: 61 VTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTV 120 Query: 138 DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ Sbjct: 121 ADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQR 180 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + + Sbjct: 181 DDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKM 240 Query: 256 LLKKVEELELSVRSTNCLRGE 276 L +EEL+LSVRS NCL+ Sbjct: 241 LEMTIEELDLSVRSYNCLKRA 261 >gi|218294782|ref|ZP_03495636.1| DNA-directed RNA polymerase, alpha subunit [Thermus aquaticus Y51MC23] gi|218244690|gb|EED11214.1| DNA-directed RNA polymerase, alpha subunit [Thermus aquaticus Y51MC23] Length = 314 Score = 289 bits (739), Expect = 6e-76, Method: Composition-based stats. Identities = 109/298 (36%), Positives = 163/298 (54%), Gaps = 4/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 + + + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 16 QGRHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +IILN+K + ++ + + GP V AGD D+E++NPD I L+ Sbjct: 76 VEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAGDFTPSADVEIMNPDLHIATLEEG 135 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DK Sbjct: 136 GKLYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDK 194 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP-KKEVKEDINVKSLPFNPALLKK 259 L++ I TDGS+T +++ A IL++ L F N E + K L Sbjct: 195 LTLRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASLLPTPEVSKGEKRESAEEDLDLP 254 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 255 LEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 312 >gi|269213694|ref|ZP_05982639.2| DNA-directed RNA polymerase, alpha subunit [Neisseria cinerea ATCC 14685] gi|269145516|gb|EEZ71934.1| DNA-directed RNA polymerase, alpha subunit [Neisseria cinerea ATCC 14685] Length = 278 Score = 288 bits (738), Expect = 6e-76, Method: Composition-based stats. Identities = 136/280 (48%), Positives = 188/280 (67%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ GV ED+ DI+LN+KGI K+ G S ++T+ K G GVV Sbjct: 1 MNGFAPTEVAITGVLHEYSTLDGVQEDVVDILLNVKGIVFKLHGRSQVQLTLKKSGSGVV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLI 171 +AGDI+ +D+E+LNPDH+IC+L + + ME+ V +G GY + R EN IG I Sbjct: 61 SAGDIELPHDVEILNPDHIICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGSI 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA +SPI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F Sbjct: 121 QLDASFSPISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 A---DLQGTPVEEVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|114107164|ref|YP_740149.1| RNA polymerase alpha subunit [Daucus carota] gi|122239960|sp|Q0G9T0|RPOA_DAUCA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|113200939|gb|ABI32455.1| RNA polymerase alpha subunit [Daucus carota] Length = 353 Score = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 90/347 (25%), Positives = 165/347 (47%), Gaps = 26/347 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + +N I PL +G A T+G ++RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESKADNKRLYYGRFILSPLMKGQADTIGISMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + DI++N+K I L+ + +I RGPG VTA DI +EV+ Sbjct: 71 PHEYSTLVGIQESVHDILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIELCIGLQIERNRGY--LIKTPNNNSKDGSYPIDAVFMPVRNANHSIH 188 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + ++ Sbjct: 189 SYGNGND-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLANNQHMV 247 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 248 PLPPFTFHDKLDKLRKNKKKRALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +++ +F K ++K +LG + +NL P E LA+ + K Sbjct: 308 MKIEHFRIK---DVKQILGILEKNFSINLGKKPKMGFESLAQLIDSK 351 >gi|262273354|ref|ZP_06051168.1| DNA-directed RNA polymerase alpha subunit [Grimontia hollisae CIP 101886] gi|262222332|gb|EEY73643.1| DNA-directed RNA polymerase alpha subunit [Grimontia hollisae CIP 101886] Length = 279 Score = 288 bits (737), Expect = 9e-76, Method: Composition-based stats. Identities = 122/281 (43%), Positives = 185/281 (65%), Gaps = 7/281 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G V Sbjct: 1 MPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVKVEGKDEVILTLNKSGAGPV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTVSKGHGYVPAK---HHRTENDPIGL 170 AGDI +E+ NP+HVIC+L +A + M + V +G GYVPA H + PIG Sbjct: 61 VAGDITHDGGVEIANPEHVICHLTDSNAEISMRIKVERGRGYVPASARIHTEEDERPIGR 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA +SP+ +++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 LLVDATFSPVDRIAYNVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDA 180 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 FVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEV 237 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 238 ELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 278 >gi|255067433|ref|ZP_05319288.1| DNA-directed RNA polymerase, alpha subunit [Neisseria sicca ATCC 29256] gi|255048228|gb|EET43692.1| DNA-directed RNA polymerase, alpha subunit [Neisseria sicca ATCC 29256] Length = 278 Score = 288 bits (737), Expect = 1e-75, Method: Composition-based stats. Identities = 134/280 (47%), Positives = 186/280 (66%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ GV ED+ DI+LN+KGI K+ G ++T+ K G GVV Sbjct: 1 MNGFAPTEVAISGVLHEYSTVDGVQEDVVDILLNVKGIVFKLHGRGQVQLTLRKSGAGVV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLI 171 AGDI+ +D+E+LNP+H+IC+L + + ME+ V +G GY + R EN IG I Sbjct: 61 VAGDIELPHDVEILNPEHIICHLAENGQIEMEIKVEQGRGYQSVSGRRVVRDENRQIGAI 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA +SPI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F Sbjct: 121 QLDASFSPISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 A---DLQGTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|94985940|ref|YP_605304.1| DNA-directed RNA polymerase subunit alpha [Deinococcus geothermalis DSM 11300] gi|119366678|sp|Q1IX99|RPOA_DEIGD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|94556221|gb|ABF46135.1| DNA-directed RNA polymerase subunit alpha [Deinococcus geothermalis DSM 11300] Length = 331 Score = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 111/315 (35%), Positives = 168/315 (53%), Gaps = 25/315 (7%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ II Sbjct: 16 YGEFVLEPLTRGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVIRII 75 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + +K K +T+ +G GVV A + +D E++NPD I L D + ME Sbjct: 76 LNLKELVVKFHAPGPKTLTLRAQGEGVVKASAFEVPSDAEIVNPDLTIATLAEDGKLVME 135 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + V +G GYVPA H T++ I I +DA++SP+++V+Y VE+ R GQ D D+L + I Sbjct: 136 VRVEEGEGYVPADKHATKDR-INSIPVDAVFSPVRRVAYHVENTRVGQQTDLDRLILRIW 194 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL---------- 256 TDGS+ ++++ A IL+D+L +F N E E +V + Sbjct: 195 TDGSVGPQEALDRAVEILRDELTVFGNVETVSAAAPELPSVYTPAAPIVSGYDLPRQPEL 254 Query: 257 --------------LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +E L L+ R + L+ E I + L ++ D+ ++ G +S Sbjct: 255 SINPQPYPADLDTPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPGIGERS 314 Query: 303 LVEIKGVLGTMGLFL 317 L EIK L GL L Sbjct: 315 LDEIKQQLAQFGLAL 329 >gi|14278481|pdb|1I6V|A Chain A, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex gi|14278482|pdb|1I6V|B Chain B, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 314 Score = 288 bits (736), Expect = 1e-75, Method: Composition-based stats. Identities = 108/298 (36%), Positives = 163/298 (54%), Gaps = 4/298 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 + ++ + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 16 QGDHYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDV 75 Query: 83 TDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +IILN+K + ++ + + GP V A D D+E++NPD I L+ Sbjct: 76 VEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAVDFTPSADVEIMNPDLHIATLEEG 135 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ D DK Sbjct: 136 GKLYMEVRVDRGVGYVPAERHGIKDR-INAIPVDAIFSPVRRVAFQVEDTRLGQRTDLDK 194 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KEVKEDINVKSLPFNPALLKK 259 L++ I TDGS+T +++ A IL++ L F N E + K L Sbjct: 195 LTLRIWTDGSVTPLEALNQAVAILKEHLNYFANPEASSLPTPEVSKGEKRESAEEDLDLP 254 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL LS R + L+ E I + L+ D+ + G +SL EI+ L G L Sbjct: 255 LEELGLSTRVLHSLKEEGIESVRALLALNLKDLRNIPGIGERSLEEIRQALAKKGFTL 312 >gi|237739945|ref|ZP_04570426.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 2_1_31] gi|229421962|gb|EEO37009.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 2_1_31] Length = 342 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 110/307 (35%), Positives = 181/307 (58%), Gaps = 7/307 (2%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E + + G Sbjct: 29 ITEVKESNYKGQFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEFTVMDG 88 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC + Sbjct: 89 VKEAVTEIILNVKEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQVICTV 148 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ D Sbjct: 149 TTDRTLDMEFLVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRITD 208 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDINVKSL 250 +DKL++ ++TDGSI D+++ A +L+ L F+ + + E+ + Sbjct: 209 FDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDEIEEIIEEPIDIQV 268 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI + Sbjct: 269 IDDKSHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDEILEKM 328 Query: 311 GTMGLFL 317 +G L Sbjct: 329 KDLGYDL 335 >gi|294785154|ref|ZP_06750442.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_27] gi|294486868|gb|EFG34230.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_27] Length = 332 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 113/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 18 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 77 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC Sbjct: 78 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICT 137 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 138 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 197 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 198 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQ 257 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 258 VVDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 317 Query: 310 LGTMGLFL 317 + +G L Sbjct: 318 MKDLGYDL 325 >gi|294782963|ref|ZP_06748289.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 1_1_41FAA] gi|294481604|gb|EFG29379.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 1_1_41FAA] Length = 342 Score = 287 bits (735), Expect = 1e-75, Method: Composition-based stats. Identities = 110/312 (35%), Positives = 182/312 (58%), Gaps = 8/312 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I + +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E Sbjct: 25 KQINITEV-KESNYKGQFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEF 83 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 + + GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ Sbjct: 84 TVMDGVKEAVTEIILNVKEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQ 143 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VIC + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ Sbjct: 144 VICTVTTDRTLDMEFLVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMF 203 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDI 245 G++ D+DKL++ ++TDGSI D+++ A +L+ L F+ + + E+ Sbjct: 204 GRITDFDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDEIEEIIEEP 263 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL E Sbjct: 264 IDIQVIDDKSHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDE 323 Query: 306 IKGVLGTMGLFL 317 I + +G L Sbjct: 324 ILEKMKDLGYDL 335 >gi|34763720|ref|ZP_00144641.1| DNA-directed RNA polymerase alpha chain [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|237742278|ref|ZP_04572759.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 4_1_13] gi|27886499|gb|EAA23753.1| DNA-directed RNA polymerase alpha chain [Fusobacterium nucleatum subsp. vincentii ATCC 49256] gi|229429926|gb|EEO40138.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 4_1_13] Length = 342 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 113/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 28 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 87 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC Sbjct: 88 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 148 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 207 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 208 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQ 267 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 268 VVDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 327 Query: 310 LGTMGLFL 317 + +G L Sbjct: 328 MKDLGYDL 335 >gi|296840731|ref|ZP_06863331.2| DNA-directed RNA polymerase, alpha subunit [Neisseria polysaccharea ATCC 43768] gi|296840100|gb|EFH24038.1| DNA-directed RNA polymerase, alpha subunit [Neisseria polysaccharea ATCC 43768] Length = 278 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 137/280 (48%), Positives = 186/280 (66%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ GV ED+ DI+LNIKGI K+ G S ++ + K G GVV Sbjct: 1 MNGFAPTEVAIAGVLHEYSTVDGVQEDVVDILLNIKGIVFKLHGRSQVQLVLKKSGSGVV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLI 171 +AGDI+ +D+E+LNP HVIC+L + + ME+ V +G GY + R EN IG I Sbjct: 61 SAGDIELPHDVEILNPGHVICHLADNGQIEMEIKVEQGRGYQSVSGRQVVRDENRQIGAI 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA +SPI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F Sbjct: 121 QLDASFSPISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 N + E ++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 ANLQGTPVE---EVEEKAPPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|291296963|ref|YP_003508361.1| DNA-directed RNA polymerase subunit alpha [Meiothermus ruber DSM 1279] gi|290471922|gb|ADD29341.1| DNA-directed RNA polymerase, alpha subunit [Meiothermus ruber DSM 1279] Length = 321 Score = 287 bits (735), Expect = 2e-75, Method: Composition-based stats. Identities = 112/303 (36%), Positives = 168/303 (55%), Gaps = 12/303 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + N + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I GV ED Sbjct: 16 DGNYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIPGVKEDAI 75 Query: 84 DIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +ILN+K + ++ G K +T+ GP V+ A D++ D EV+NPD I L+ Sbjct: 76 QLILNLKELVVRFANPGTGPKTLTLRASGPKVIYARDLECPPDAEVVNPDQYIATLEEKG 135 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ME+ V +G GYVPA+ H ++ I I +DALYSP+++V+Y VE R GQ D DKL Sbjct: 136 KLVMEIRVDEGVGYVPAEKHGIKDR-ISSIPVDALYSPVRRVAYQVEDTRLGQRTDLDKL 194 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK--- 258 ++ I T+G+++ D++ A IL++QLG F + E K Sbjct: 195 TLRIWTNGAVSPMDALQQAVAILREQLGYFDQSPVMRVEPKSTPAPAPAAPATTAPAAPA 254 Query: 259 ------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +++L L+ R + L+ E I + L+ +E ++ R+ G +SL EIK L Sbjct: 255 SPGVGLTLDDLGLTTRVLHNLKEEGIESVESLLALSEKELRRVPGIGDRSLQEIKDCLAQ 314 Query: 313 MGL 315 GL Sbjct: 315 HGL 317 >gi|148243238|ref|YP_001228395.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. RCC307] gi|172047891|sp|A5GVY3|RPOA_SYNR3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|147851548|emb|CAK29042.1| DNA-directed RNA polymerase alpha chain [Synechococcus sp. RCC307] Length = 312 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 100/306 (32%), Positives = 165/306 (53%), Gaps = 8/306 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + ++Y + + ++ + + PL RG A TLG ALRRVLMS L G A+TAV+I GV HE Sbjct: 7 DRVDYQIADDQSQS-GVFVIGPLDRGQATTLGTALRRVLMSGLEGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + L + + GP VTAGD+Q + + V+N D Sbjct: 66 ATVPGVREDVLDILLNCKELVLSSRSRDTEIGRLVVNGPASVTAGDLQFSSQVSVVNADC 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P + + + L+ IDA++ P+++V++TV+ Sbjct: 126 PIATVADGHALELEVHVERGVGYRPVERTSEDAAALDLLQIDAVFMPVRRVNFTVDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I+T+GSIT +D++A A+ L ++ +E Sbjct: 186 GEGGSARERLRLEINTNGSITPDDALAYAANQLIALFQPLATVTLAEEPGQEPEPSAESQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGAKSADEVIEALE 299 Query: 312 TMGLFL 317 +G+ L Sbjct: 300 RIGISL 305 >gi|328813993|gb|AEB52112.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 253 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 119/253 (47%), Positives = 169/253 (66%), Gaps = 2/253 (0%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T Sbjct: 1 DNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTA 60 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + A Sbjct: 61 IILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFH 120 Query: 145 MELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL+ Sbjct: 121 MRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLT 180 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + + T+GSIT ++++L+++IL D L +F+N + K + + L +EE Sbjct: 181 LDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEE 240 Query: 263 LELSVRSTNCLRG 275 L+LSVRS NCL+ Sbjct: 241 LDLSVRSYNCLKR 253 >gi|256845557|ref|ZP_05551015.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_36A2] gi|256719116|gb|EEU32671.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_36A2] Length = 332 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 113/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 18 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 77 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ VIC Sbjct: 78 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQVICT 137 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 138 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 197 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 198 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIIEEPMDIQ 257 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 258 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 317 Query: 310 LGTMGLFL 317 + +G L Sbjct: 318 MKDLGYDL 325 >gi|291461038|ref|ZP_06026582.2| DNA-directed RNA polymerase, alpha subunit [Fusobacterium periodonticum ATCC 33693] gi|291379318|gb|EFE86836.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium periodonticum ATCC 33693] Length = 342 Score = 287 bits (734), Expect = 2e-75, Method: Composition-based stats. Identities = 110/312 (35%), Positives = 182/312 (58%), Gaps = 8/312 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I + +E + + EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GV+ E Sbjct: 25 KQINITEV-KESNYKGHFVVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVMSEF 83 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 + + GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ Sbjct: 84 TVMDGVKEAVTEIILNVKEIVVKAESSGERRMTLSVKGPKVVKAADIVADIGLEIVNPEQ 143 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VIC + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ Sbjct: 144 VICTVTTDRTLDMEFLVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMF 203 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV-------KEDI 245 G++ D+DKL++ ++TDGSI D+++ A +L+ L F+ + + E+ Sbjct: 204 GRITDFDKLTLNVETDGSIEIRDAISYAVELLRLHLDPFLEIGNKMENLRDEIEEIIEEP 263 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL E Sbjct: 264 IDIQVIDDKSHDMKIEELDLTVRSFNCLKKAGIEDVSQLASLSLNELLKIKNLGKKSLDE 323 Query: 306 IKGVLGTMGLFL 317 I + +G L Sbjct: 324 ILEKMKDLGYDL 335 >gi|291460345|ref|ZP_06599735.1| DNA-directed RNA polymerase, alpha subunit [Oribacterium sp. oral taxon 078 str. F0262] gi|291417100|gb|EFE90819.1| DNA-directed RNA polymerase, alpha subunit [Oribacterium sp. oral taxon 078 str. F0262] Length = 313 Score = 286 bits (733), Expect = 2e-75, Method: Composition-based stats. Identities = 116/314 (36%), Positives = 184/314 (58%), Gaps = 9/314 (2%) Query: 13 NNIEYIVLG-QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 E V+ E++ PL +G A LGN+LRR+L+SS+ GAAI+ V+++ V HE Sbjct: 5 RKPELEVIELSEDKRFGRFSCAPLVKGEATVLGNSLRRILLSSMPGAAISEVKVESVYHE 64 Query: 72 ISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 SSI GV ED+++II+N+K + ++ S D I G GV+ A DI+ ++IE++N Sbjct: 65 FSSIAGVKEDVSEIIMNLKKLAVRNTSSSDEAVMAYIDYAGEGVIRAADIRVSSEIEIVN 124 Query: 130 PDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 P+ VI L DA + ME+ ++KG GY A PIG+I +DA+Y+P+ KV+ +V+ Sbjct: 125 PEQVIATLSGKDAKLYMEMKITKGRGYDGANTRDHSELPIGVIAVDAVYTPVTKVNVSVK 184 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 ++L + + T+G++ +D+V+LA++I+Q L +FI+ + KE N Sbjct: 185 DLGRS-----ERLVLDVMTNGTLAPDDAVSLAAKIMQTHLQLFIDMDNTVKEPFLPGNTA 239 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + K ++ELELSVRS NCL+ I + DL ++T D++++ N GRKSL EI Sbjct: 240 VEDVQDEMNKSIDELELSVRSYNCLKRAGINTVEDLCEKTMDDLMKVRNMGRKSLDEILN 299 Query: 309 VLGTMGLFLGMNLP 322 L +MGL L + Sbjct: 300 KLESMGLSLASKVE 313 >gi|288575869|ref|ZP_05977763.2| DNA-directed RNA polymerase, alpha subunit [Neisseria mucosa ATCC 25996] gi|288566928|gb|EFC88488.1| DNA-directed RNA polymerase, alpha subunit [Neisseria mucosa ATCC 25996] Length = 278 Score = 286 bits (733), Expect = 2e-75, Method: Composition-based stats. Identities = 133/280 (47%), Positives = 185/280 (66%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ GV ED+ DI+LN+KGI K+ G ++T+ K G G V Sbjct: 1 MNGFAPTEVAISGVLHEYSTVDGVQEDVVDILLNVKGIVFKLHGRGQVQLTLKKSGAGAV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLI 171 AGDI+ +D+E+LNP+H+IC+L + + ME+ V +G GY + R EN IG I Sbjct: 61 VAGDIELPHDVEILNPEHIICHLAENGQIEMEIKVEQGRGYQSVSGRRVVRDENRQIGAI 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +DA +SPI +VS+ VE AR Q D DKL + I+TDGSI E++V A+RIL DQ+ +F Sbjct: 121 QLDASFSPISRVSFEVEPARVEQRTDLDKLVLDIETDGSIDPEEAVRSAARILIDQMSIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 A---DLQGTPVEEVEEKAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVGLEK 277 >gi|157363470|ref|YP_001470237.1| DNA-directed RNA polymerase subunit alpha [Thermotoga lettingae TMO] gi|172045986|sp|A8F4T9|RPOA_THELT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157314074|gb|ABV33173.1| DNA-directed RNA polymerase, alpha subunit [Thermotoga lettingae TMO] Length = 332 Score = 286 bits (733), Expect = 3e-75, Method: Composition-based stats. Identities = 117/327 (35%), Positives = 173/327 (52%), Gaps = 18/327 (5%) Query: 8 ELIKPNNIEYIVLGQEEENR-TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI- 65 E + P ++ E E + P+ +G+ T+GNALRRVL+SS+ AI ++ Sbjct: 3 EYVIPKKLKIEEERSETEYYYARYVLSPMEKGYGTTIGNALRRVLLSSIPSVAIVGIRFI 62 Query: 66 -DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQTV 122 HE ++ GV ED+ +IILN+K I L+ +RV T+ KRGPG +TA DI+ Sbjct: 63 KPEKYHEFDTLPGVKEDILEIILNLKRIQLRADVPVRERVKMTVEKRGPGNLTAADIKVP 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 E+ NP I LD +A + EL G G+VPA ++ IG I ID ++SP+ K Sbjct: 123 AGFEIANPSLKIATLDEEADLFFELYAQAGKGFVPA-QEMDDHPEIGWIPIDGVFSPVMK 181 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG-----------MF 231 V++ VESAR + DYDK+ + I T +I +++ A IL + L Sbjct: 182 VNFRVESARVEKRTDYDKMILEIWTKKTIFPNEALKRAVDILMNHLQIITDSLPEGMPPL 241 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 P + + + KK++ELEL++RS NCLR + I +GDL++RTE D Sbjct: 242 TTEFVPISQEEVKVEQTVSEEEAVYSKKIDELELTIRSLNCLRRDKIETIGDLLKRTEED 301 Query: 292 MLRMANFGRKSLVEIKGV-LGTMGLFL 317 +L++ NFG KSL E+K L GL L Sbjct: 302 LLKIKNFGPKSLDEVKQKLLEKFGLSL 328 >gi|297567256|ref|YP_003686228.1| DNA-directed RNA polymerase subunit alpha [Meiothermus silvanus DSM 9946] gi|296851705|gb|ADH64720.1| DNA-directed RNA polymerase, alpha subunit [Meiothermus silvanus DSM 9946] Length = 319 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 108/302 (35%), Positives = 171/302 (56%), Gaps = 10/302 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + N + EPL RGF TLGN +RR+L+SS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 16 DGNYGEFVLEPLERGFGVTLGNPIRRILLSSIPGTAVTSVYIEDVLHEFSTINGVKEDVV 75 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +ILN+K + +K K +T+ +GP V A D++ D EV+NPD + L A + Sbjct: 76 QLILNLKELVVKFHTPGSKTLTLRAQGPRSVYARDLEVPADAEVVNPDLYLATLGEGARL 135 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA+ H ++ I I +DAL+SP+++V++ VE R GQ D DKL++ Sbjct: 136 VMEVRVDEGVGYVPAEKHGIKDR-ISSIPVDALFSPVRRVAFQVEDTRLGQRTDLDKLTL 194 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK----- 258 I TDGS++ + + + IL++QL F + E ++ V + P Sbjct: 195 RIWTDGSVSPMEVLQRSVAILREQLSFFDQSPVIRVEKEKPAPVAAAPAPSPATPAAAAV 254 Query: 259 ----KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 +++L L+ R + L+ E I + L+ +E ++ ++ G +SL EIK +L G Sbjct: 255 STGLTLDDLGLTTRVLHNLKEEGIESVESLLALSERELKKVPGIGERSLQEIKDILAQHG 314 Query: 315 LF 316 L Sbjct: 315 LE 316 >gi|11467738|ref|NP_050790.1| RNA polymerase alpha subunit [Guillardia theta] gi|3914811|sp|O46914|RPOA_GUITH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|3603063|gb|AAC35724.1| RNA polymerase a subunit [Guillardia theta] Length = 318 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 89/307 (28%), Positives = 163/307 (53%), Gaps = 11/307 (3%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + ++ + + +PL G TLGNALRR L+S L G AITAV+I GV HE S+I G+ Sbjct: 12 KVYNARDHWSRFVIDPLKPGQGTTLGNALRRTLLSELEGLAITAVRIAGVSHEFSTINGI 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +I+LN+K I + +GP +VTA + +I++++P+ I + Sbjct: 72 REDVLEILLNLKEIVFSGQLQESTIGRLTVQGPAIVTARSFELPPEIKLIDPEQYIATIC 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + ME + G GY + + + +D+++ P+KKV++ +E R + Sbjct: 132 GNNTLEMEFKIEVGSGYKIVEKDNSTE-HFEFLQVDSVFMPVKKVNFRIEETRGENNILN 190 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++L + I T+GSI+ +++++ A+ L + + + + + ++ + Sbjct: 191 EQLILDIWTNGSISAKEAISNAADNLINLFSPL-----KTIDGESETDYETNETSHINQI 245 Query: 259 KVEELELSVRSTNCLRG--ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL+LSVR+ NCL+ +I + DL+ ++ D++ + NFG+KS E+ L Sbjct: 246 LIEELQLSVRAYNCLKRGCAHIHSVADLLDYSQEDLIEIKNFGQKSAEEVIDAL---QKR 302 Query: 317 LGMNLPD 323 LG+NLP Sbjct: 303 LGINLPK 309 >gi|22257019|sp|Q8RE44|RPOA_FUSNN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 326 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 111/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 12 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC Sbjct: 72 GVKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 VTTDRTLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 192 DFDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQ 251 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 252 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 311 Query: 310 LGTMGLFL 317 + +G L Sbjct: 312 MKDLGYDL 319 >gi|19704618|ref|NP_604180.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gi|19714918|gb|AAL95479.1| DNA-directed RNA polymerase alpha chain [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] Length = 342 Score = 286 bits (732), Expect = 3e-75, Method: Composition-based stats. Identities = 111/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 28 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 87 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC Sbjct: 88 GVKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 148 VTTDRTLDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 207 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 208 DFDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQ 267 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 268 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 327 Query: 310 LGTMGLFL 317 + +G L Sbjct: 328 MKDLGYDL 335 >gi|296329035|ref|ZP_06871541.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|296153839|gb|EFG94651.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 342 Score = 286 bits (732), Expect = 4e-75, Method: Composition-based stats. Identities = 111/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 28 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 87 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ VIC Sbjct: 88 GVKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQVICT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + +E V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 148 VTTDRALDIEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 207 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 208 DFDKLTLNVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQ 267 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 268 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 327 Query: 310 LGTMGLFL 317 + +G L Sbjct: 328 MKDLGYDL 335 >gi|254302866|ref|ZP_04970224.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] gi|148323058|gb|EDK88308.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium nucleatum subsp. polymorphum ATCC 10953] Length = 326 Score = 286 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 111/308 (36%), Positives = 182/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E + I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 12 KITEVKESNYKGQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+++ +GP VV A DI +E++NP+ +IC Sbjct: 72 GVKEAVTEIILNVKEIVVKAESSGERRMSLSIKGPKVVKAADIVADIGLEIVNPEQIICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 192 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMIEEPMDIQ 251 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 252 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 311 Query: 310 LGTMGLFL 317 + +G L Sbjct: 312 MKDLGYDL 319 >gi|34849417|gb|AAP58916.1| DNA-directed RNA polymerase alpha subunit [Spiroplasma kunkelii CR2-3x] Length = 317 Score = 286 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 106/316 (33%), Positives = 173/316 (54%), Gaps = 8/316 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ I+P + + N + EPL RGF TLGNA+RR L+S+ GAA+ AV+I Sbjct: 2 KQFIRPEF--KLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVRIK 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQT 121 G HE ++I GV E +T IILNIK + LK++ D + +F G + A D+ Sbjct: 60 GSSHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVFSSKEGEIYARDLVV 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EV+N D ++ + + +EL GY ++ E LI ID+ Y PI+ Sbjct: 120 PTGVEVINGDLLLATIAKGGELDLELHARNSRGYKSFTDNKKEKKYADLIVIDSNYCPIQ 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E + Sbjct: 180 RVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNE-AIKA 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G+K Sbjct: 239 TQIISSEAEAEEDELDRSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLGKK 298 Query: 302 SLVEIKGVLGTMGLFL 317 SL EIK + +GL Sbjct: 299 SLTEIKDKVAQLGLHF 314 >gi|324985144|gb|ADY69170.1| RNA polymerase subunit A [Photobacterium halotolerans] Length = 270 Score = 286 bits (731), Expect = 4e-75, Method: Composition-based stats. Identities = 120/272 (44%), Positives = 182/272 (66%), Gaps = 7/272 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I Sbjct: 2 THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEI 61 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVR 144 +LN+KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + Sbjct: 62 LLNLKGLAVKVEGKDEVILTLSKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADIS 121 Query: 145 MELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M + V +G GYVPA H + PIG + +DA +SP+ +++Y+VE+AR Q D DKL Sbjct: 122 MRIKVERGRGYVPASARIHSDEDERPIGRLLVDATFSPVDRIAYSVEAARVEQRTDLDKL 181 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V+ Sbjct: 182 VIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVD 238 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +LEL+VRS NCL+ E I Y+GDL+QRTE ++L Sbjct: 239 DLELTVRSANCLKAEAIHYIGDLVQRTEVELL 270 >gi|154249789|ref|YP_001410614.1| DNA-directed RNA polymerase subunit alpha [Fervidobacterium nodosum Rt17-B1] gi|171769360|sp|A7HM24|RPOA_FERNB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|154153725|gb|ABS60957.1| DNA-directed RNA polymerase, alpha subunit [Fervidobacterium nodosum Rt17-B1] Length = 328 Score = 286 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 119/329 (36%), Positives = 183/329 (55%), Gaps = 18/329 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQ ++ +E + E+ PL +G+A T+GN LRRVL+SS+ AI Sbjct: 1 MIQITGRKF----KLE-EQVEHEDHYYARYSLSPLEKGYAVTVGNTLRRVLLSSIPSFAI 55 Query: 61 TAVQI--DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTA 116 T V+ HE +I+G ED+ DI+LN+K + L++ +S ++TI K+GPGV+TA Sbjct: 56 TDVRFVKPEKYHEFDTIEGAKEDIMDILLNLKKVQLRVDTYVESPVKLTINKKGPGVLTA 115 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI+ + V+NP H + L+ DA + +EL + G G+VPA R E IG I +D + Sbjct: 116 GDIECPAGVVVVNPGHYLATLNEDADLEIELYATFGKGFVPAA-DRNERPEIGWIVLDGV 174 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ KV++ VE+ R + DY+KL + I T SI +++ + +I+ D Sbjct: 175 YSPVIKVNWLVENVRVDKRTDYEKLILEIWTKKSIKPSEALKHSLKIILDHFMFIEQSLS 234 Query: 237 PKKEVKED-------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +E+ + + + KKVEELELS RS NCL+ + I +GDL+ RTE Sbjct: 235 DVEELPIPIIQETAVVTEEIGSPEDVMSKKVEELELSARSLNCLKRDKIETIGDLLSRTE 294 Query: 290 ADMLRMANFGRKSLVEIKGVL-GTMGLFL 317 +++++ NFG KSL E++ L GL L Sbjct: 295 EELMKIKNFGLKSLEEVREKLRDKFGLSL 323 >gi|226356865|ref|YP_002786605.1| DNA-directed RNA polymerase subunit alpha [Deinococcus deserti VCD115] gi|226318855|gb|ACO46851.1| putative DNA-directed RNA polymerase alpha chain (DNA-dependent RNA polymerase) [Deinococcus deserti VCD115] Length = 333 Score = 286 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 111/320 (34%), Positives = 171/320 (53%), Gaps = 27/320 (8%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + N + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 13 DGNYGEFVLEPLTRGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVKEDVI 72 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +ILN+K + ++ K +T+ +G GVV A + +D E++NPD I L D + Sbjct: 73 QLILNLKELVVRFHTSGPKTLTLRAQGEGVVKASAFEVPSDAEIVNPDLTIATLAEDGKL 132 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA H T++ I I +DA++SP+++V+Y VE+ R GQ D D+L + Sbjct: 133 VMEVRVEEGEGYVPADKHATKDR-INSIPVDAVFSPVRRVAYHVENTRVGQQTDLDRLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL------ 257 + TDGS +D++ + IL+D+L +F N E V + V + PA Sbjct: 192 RVWTDGSTGPQDALDKSVEILRDELTVFGNVEALPALVSDVAPVYTPTPVPAHNVYDLPP 251 Query: 258 --------------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +E L L+ R + L+ E I + L ++ D+ ++ Sbjct: 252 TSGSVNLNPGDYPAELDSPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSDRDLKKVPG 311 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G +SL EIK L GL L Sbjct: 312 IGERSLDEIKQQLAQFGLAL 331 >gi|260494239|ref|ZP_05814370.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_33] gi|260198385|gb|EEW95901.1| DNA-directed RNA polymerase, alpha subunit [Fusobacterium sp. 3_1_33] Length = 332 Score = 286 bits (731), Expect = 5e-75, Method: Composition-based stats. Identities = 112/308 (36%), Positives = 183/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 18 KITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 77 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC Sbjct: 78 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICT 137 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 138 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 197 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 198 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQ 257 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 258 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 317 Query: 310 LGTMGLFL 317 + +G L Sbjct: 318 MKDLGYDL 325 >gi|328813971|gb|AEB52101.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 257 Score = 285 bits (730), Expect = 5e-75, Method: Composition-based stats. Identities = 114/257 (44%), Positives = 170/257 (66%), Gaps = 2/257 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I +GP VTA DIQ D+ +LN D I + A + +++T Sbjct: 61 KQVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T Sbjct: 121 DKGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +GS+T ++++LA++IL + L MF+N E + + + + L K +EEL+LSV Sbjct: 181 NGSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKTIEELDLSV 240 Query: 268 RSTNCLRGENIVYMGDL 284 RS NCL+ +I + DL Sbjct: 241 RSYNCLKRADIQTVKDL 257 >gi|85057775|ref|YP_456691.1| DNA-directed RNA polymerase subunit alpha [Aster yellows witches'-broom phytoplasma AYWB] gi|119366664|sp|Q2NIY1|RPOA_AYWBP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|84789880|gb|ABC65612.1| DNA-directed RNA polymerase alpha chain [Aster yellows witches'-broom phytoplasma AYWB] Length = 330 Score = 285 bits (730), Expect = 5e-75, Method: Composition-based stats. Identities = 114/337 (33%), Positives = 186/337 (55%), Gaps = 12/337 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KN + IKP +E I E +PL RG+ T+GNALRRVL+SSL GAAI V Sbjct: 2 KNLK-FIKPFFVEEI---DENPISGKFTIKPLERGYGITVGNALRRVLLSSLPGAAIVNV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQ 120 +I GV E ++I GV+ED+ IILN+K I + D +++ + +GP +TA + Sbjct: 58 KIQGVEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTAASFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P Sbjct: 118 LPAGVKIINPDHYITTLSDDVCFHMTVTIKKGIGYVGAKENKVHIENQVGVIAIDSLFTP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + VSY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + Sbjct: 178 VVNVSYQVEK----KLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPA 233 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V+ K N L ++E+L+LSVR N L+ I + L++ +E +++++ + G Sbjct: 234 HVEFVSESKKEAHNYVLDLEIEQLDLSVRLFNSLKRAGIDTVASLVKLSEKEVVKLKSLG 293 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 RKS E+K GL L + S+EE K+ Sbjct: 294 RKSFQELKDKFLEYGLEFNDYLKEALHHSVEEDKDKH 330 >gi|237744175|ref|ZP_04574656.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 7_1] gi|229431404|gb|EEO41616.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. 7_1] Length = 342 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 112/308 (36%), Positives = 183/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 28 KITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 87 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC Sbjct: 88 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 148 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 207 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 208 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEMVDEPMDIQ 267 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 268 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 327 Query: 310 LGTMGLFL 317 + +G L Sbjct: 328 MKDLGYDL 335 >gi|157493273|gb|ABV58002.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493275|gb|ABV58003.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 270 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 120/273 (43%), Positives = 185/273 (67%), Gaps = 8/273 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG Sbjct: 1 LEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKG 60 Query: 92 INLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTV 149 + +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V Sbjct: 61 LAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKV 120 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++ Sbjct: 121 ERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDME 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+ Sbjct: 181 TNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELT 237 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 VRS NCL+ E I Y+GDL+QRTE ++L+ N G Sbjct: 238 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNLG 270 >gi|291460745|ref|ZP_06600135.1| DNA-directed RNA polymerase, alpha subunit [Oribacterium sp. oral taxon 078 str. F0262] gi|291416704|gb|EFE90423.1| DNA-directed RNA polymerase, alpha subunit [Oribacterium sp. oral taxon 078 str. F0262] Length = 320 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 108/315 (34%), Positives = 186/315 (59%), Gaps = 9/315 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN I + + E+E + EPL RG+ TLGN+L+R+++S+L G+A++A +I+G Sbjct: 3 DFEKPN-IRVVEI-SEDERFGRFVCEPLERGYGTTLGNSLKRIMLSALPGSALSAAKIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQT---V 122 + S+ GV E L+++I+N+K + ++ DS KR+ + G GVV A IQ Sbjct: 61 ADFQSGSVPGVKESLSELIMNLKSLAIRDLSDSEDAKRLILTAEGSGVVRASSIQAETAD 120 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + + N + I L + +R+EL +S+G GYV A+ E P G+ +D+ Y+P+++ Sbjct: 121 TEFVIANEEQSIATLTGEEALRIELLLSRGRGYVSAE--EQEELPEGMFALDSSYTPVER 178 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+ +VE+ R G + DYDKL++ + TDG++ +D+++L++R+L +L +F++ + Sbjct: 179 VNMSVENTRVGNMTDYDKLTVDVFTDGTLPPDDALSLSARLLSTELCLFVDLSANAAAAE 238 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + AL ++ELELSVRS NCL+ I + +L +T DM+++ N GRKS Sbjct: 239 VMVEKTDDEKGKALEMNIDELELSVRSYNCLKRAGINTVQELCSKTPEDMMKVRNLGRKS 298 Query: 303 LVEIKGVLGTMGLFL 317 L E+ L + L L Sbjct: 299 LEEVLAKLKELNLSL 313 >gi|328813981|gb|AEB52106.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 249 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 109/249 (43%), Positives = 157/249 (63%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T II Sbjct: 1 YGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + LK D K + + GP VTA D++ D++VLNPD IC + + ME Sbjct: 61 LNLKKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHME 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I Sbjct: 121 IAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDGSI D+++ A++IL + +F + + K + + + L +EEL+LS Sbjct: 181 TDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLS 240 Query: 267 VRSTNCLRG 275 VRS NCL+ Sbjct: 241 VRSYNCLKR 249 >gi|256027710|ref|ZP_05441544.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D11] Length = 326 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 112/308 (36%), Positives = 183/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 12 KITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC Sbjct: 72 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 132 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 192 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQ 251 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 252 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 311 Query: 310 LGTMGLFL 317 + +G L Sbjct: 312 MKDLGYDL 319 >gi|37912970|gb|AAR05302.1| DNA-directed RNA polymerase alpha subunit [uncultured marine gamma proteobacterium EB000-45B06] Length = 283 Score = 285 bits (730), Expect = 6e-75, Method: Composition-based stats. Identities = 119/284 (41%), Positives = 183/284 (64%), Gaps = 3/284 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 +GNALRR+L+SS+ GAA+T V IDG+ HE S+I+GV ED+ DI+LNIK + + + + Sbjct: 1 MGNALRRILLSSMPGAAVTDVAIDGISHEYSTIEGVREDVIDILLNIKDMPVNIIEGNTA 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 +T+ GP V A ++E++N D + + ++M LTV G GY PA Sbjct: 61 EITLDVTGPCDVLASSFDVPGNVELVNQDFHVATIVDKVNLKMTLTVQTGRGYEPADTRD 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 E+ +G + +DA YSP+++VSYTV++AR + D DKL + ++TDG++ + ++ ++ Sbjct: 121 DEDRVVGALKVDASYSPVRRVSYTVDNARFEKRTDLDKLVIELETDGTLDPKMAIEHSAT 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG 282 ILQ QL F++ + +++ F+P LL+ +EELEL+VRSTNCL+ E+I +G Sbjct: 181 ILQQQLSSFVDLDAIA---EQEAKKDQNDFDPFLLRSIEELELTVRSTNCLKAESIFLIG 237 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 DLI R+E D+L+ N G+KSL EIK VL + L LGMN+ +WPP Sbjct: 238 DLIHRSEFDLLKTPNLGKKSLNEIKDVLASKELSLGMNVDNWPP 281 >gi|111115331|ref|YP_709949.1| DNA-directed RNA polymerase subunit alpha [Borrelia afzelii PKo] gi|119366667|sp|Q0SN05|RPOA_BORAP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110890605|gb|ABH01773.1| DNA-directed RNA polymerase [Borrelia afzelii PKo] Length = 344 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 118/334 (35%), Positives = 185/334 (55%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++ ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 MERFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLREGEQRKTISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + E ++ G GYV ++ + + + Sbjct: 122 DTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V + + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---SVSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 331 >gi|320538142|ref|ZP_08038037.1| DNA-directed RNA polymerase, alpha subunit [Treponema phagedenis F0421] gi|320144959|gb|EFW36680.1| DNA-directed RNA polymerase, alpha subunit [Treponema phagedenis F0421] Length = 351 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 116/330 (35%), Positives = 183/330 (55%), Gaps = 12/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP ++++ +E+ IA P GF T+GN LRRVL+SS++G A Sbjct: 1 MARKNLLKGFKKPKGVDFVA-EVSDESHGKFIASPFETGFGTTIGNCLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKR 109 IT+V+I DGV H E SI V ED +I+ N+K I L + + + T + Sbjct: 60 ITSVRITTYDADGVGHSISSEFESIPHVREDTLEILNNLKQIRLLLPEEEEEGAFTFEFQ 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +T D++ +++L+ D I + A V E+ V G GYVPA+ + + +G Sbjct: 120 GPCTITGADLEKEYQLQILSKDVHIMEMMEGAHVEFEVNVKFGRGYVPAETNEQYVEVVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +D+++SP+ KV Y ++ R GQ DYDKL + I TDG++ ED++A A++I +D Sbjct: 180 TIPLDSIFSPVLKVRYEIQPCRVGQRNDYDKLVLEIWTDGTVRPEDALAEAAKIAKDHFS 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F+NF+E ++D + L K+ E++ SVR+ NCL + +G+L + +E Sbjct: 240 IFVNFDESVLIGEDDADEDDAKIIDLLNTKISEVDFSVRARNCLANIGVKTLGELTKISE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + N G+KSL EI+G L L LGM Sbjct: 300 QTLASTRNVGKKSLSEIQGKLQEYNLRLGM 329 >gi|261752517|ref|ZP_05996226.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] gi|261742270|gb|EEY30196.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 244 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 163/244 (66%), Positives = 203/244 (83%), Gaps = 1/244 (0%) Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 M G+ KR+ + K GPGVVTAGDIQTV D+E+LNP+HVIC LD A +RME TV+ G GY Sbjct: 1 MEGEGPKRMVVRKEGPGVVTAGDIQTVGDVEILNPEHVICTLDEGAEIRMEFTVNTGKGY 60 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 VPA +R E+ PIGLI +D+LYSP++KVSY +E+ REGQVLDYDKL++ I+T+GS+TGED Sbjct: 61 VPADRNRAEDAPIGLIPVDSLYSPVRKVSYKIENTREGQVLDYDKLTLNIETNGSVTGED 120 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRG 275 +VA A+RILQDQL +F+NFEEP+KE ++ V L FNPALLKKV+ELELSVRS NCL+ Sbjct: 121 AVAYAARILQDQLSIFVNFEEPQKEAPQEQ-VAELAFNPALLKKVDELELSVRSANCLKN 179 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IE+LAK+ Sbjct: 180 DNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMGLHLGMEIPAWPPENIEDLAKR 239 Query: 336 YEDK 339 YED+ Sbjct: 240 YEDQ 243 >gi|257463991|ref|ZP_05628376.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D12] gi|317061513|ref|ZP_07925998.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D12] gi|313687189|gb|EFS24024.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D12] Length = 314 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 111/297 (37%), Positives = 179/297 (60%), Gaps = 6/297 (2%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E + + EPL RG+ HTLGNALRRVL+SS+ GAAI ++I+GVL E S + GV E + Sbjct: 18 ESAFKGQFVVEPLYRGYGHTLGNALRRVLLSSIPGAAIKGIRIEGVLSEFSVMDGVKEAV 77 Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T+IILN+K I +K +++T+ +GP VVTA DI +E++NP+ IC + D Sbjct: 78 TEIILNVKEIVVKSETAGERKMTLSVKGPKVVTAADIIPDIGLEIINPEQEICTITTDRS 137 Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + +E V G G+V ++ + + I +DA+Y+PI+KVSY ++ G++ D+DKL+ Sbjct: 138 LDIEFLVDTGEGFVVSEEIERDGWVVDYIAVDAIYTPIRKVSYEIQDTMVGRMTDFDKLT 197 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEP------KKEVKEDINVKSLPFNPAL 256 ++++TDGSI D+++ A +L+ L F+ + E + + S+ + L Sbjct: 198 LSVETDGSIEIRDALSYAVELLKLHLDPFLEIGNKMENLRLEVEEEMENQSSSMKDDINL 257 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K+EEL+L+VRS NCL+ I +G L + + ++L++ N GRKSL EI + + Sbjct: 258 NIKIEELDLTVRSFNCLKKAGIEEVGQLSKLSMNELLKIKNLGRKSLDEILEKMKEL 314 >gi|307297367|ref|ZP_07577173.1| DNA-directed RNA polymerase, alpha subunit [Thermotogales bacterium mesG1.Ag.4.2] gi|306916627|gb|EFN47009.1| DNA-directed RNA polymerase, alpha subunit [Thermotogales bacterium mesG1.Ag.4.2] Length = 348 Score = 285 bits (729), Expect = 7e-75, Method: Composition-based stats. Identities = 123/328 (37%), Positives = 182/328 (55%), Gaps = 25/328 (7%) Query: 10 IKPNNIEYIVLGQEEENR-TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 I P N+ +++ + T I P+ RG+A T+GN+LRRVL+SS+ AIT ++I G Sbjct: 14 IMPKNLRIEEEREDDNSYFTRFILSPMERGYATTIGNSLRRVLLSSIPSMAITRLKIPGK 73 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 HE I GV ED+ +IILN K + LK + ++T+ GPGV+TAGDI+T +E Sbjct: 74 YHEYDVIDGVKEDILEIILNFKKVQLKPALEFSDAVKLTLETAGPGVITAGDIKTPTGVE 133 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 V+NP I L+ D+V+ +EL G G+VP E+D + +I ID ++SP+ KV++ Sbjct: 134 VVNPSQYIATLNTDSVIYIELFAEIGRGFVPVSEMEIEHD-VEMIYIDGIFSPVLKVNFQ 192 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF--------------- 231 E+ R G+ DYDKL + + T SIT D++ A+ IL +F Sbjct: 193 TENVRVGKRTDYDKLILDVWTKKSITPSDALLRATDILIRHFEVFSNGLGKPGQGLTSSA 252 Query: 232 ------INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 E + E V+ N KKVEEL+LSVRS NCL+ + I +GDL+ Sbjct: 253 LKQEEEEIISEEAEVTVETPQVEEQDSNSLGAKKVEELDLSVRSLNCLKRDKINTIGDLL 312 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTM 313 ++EAD+LR+ NFG KS++E+ L Sbjct: 313 DKSEADLLRIRNFGEKSMLEVVKKLREK 340 >gi|317968839|ref|ZP_07970229.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CB0205] Length = 312 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 96/306 (31%), Positives = 164/306 (53%), Gaps = 8/306 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + +E+ + + + + PL RG A TLGN+LRR+LM +L G+AITAV+I GV HE Sbjct: 7 DRVEHQIADDRSQT-GVFVIGPLERGQATTLGNSLRRMLMGALEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + + + + GP VTAGD+Q + + V++P Sbjct: 66 ATVPGVREDVLDILLNCKDVAVNSRTRELEIGRLVVNGPATVTAGDLQFSSQVSVIDPAR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P + + L+ IDA++ P+++ +YT++ Sbjct: 126 PIATVAEGHSLELEVHVERGVGYRPVDRRVEDTSAVDLLQIDAVFMPVQRANYTIDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I TDGS+T +D++A A+ L + +++ +E Sbjct: 186 GEGGSARERLRLEIQTDGSLTPDDAMAQAANQLITLIQPMATLTMEEEQGQEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFL 317 +G+ L Sbjct: 300 RIGISL 305 >gi|216263341|ref|ZP_03435336.1| DNA-directed RNA polymerase, alpha subunit [Borrelia afzelii ACA-1] gi|215980185|gb|EEC21006.1| DNA-directed RNA polymerase, alpha subunit [Borrelia afzelii ACA-1] Length = 342 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 118/334 (35%), Positives = 185/334 (55%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +++ ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 1 MERFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 59 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 60 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLREGEQRKTISFSVSGK 119 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + E ++ G GYV ++ + + + Sbjct: 120 DTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDFEFQINYGRGYVSSEQNSKYLEEVN 178 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 179 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLF 238 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V + + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 239 PLVDFED---SVSVSFDKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 295 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 296 EELSKARNFGKKSLEEIIEKLGSYQLFLGMSKED 329 >gi|297621699|ref|YP_003709836.1| DNA-directed RNA polymerase, alpha subunit [Waddlia chondrophila WSU 86-1044] gi|297377000|gb|ADI38830.1| DNA-directed RNA polymerase, alpha subunit [Waddlia chondrophila WSU 86-1044] Length = 370 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 126/351 (35%), Positives = 183/351 (52%), Gaps = 23/351 (6%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 P+ I + IAEP RGF HTLGN+LRR++++SL AI V+I+GV Sbjct: 8 FEMPDEI-VVDEETATGTFARFIAEPFERGFGHTLGNSLRRLMLTSLEAPAIIGVRIEGV 66 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSG-----------------DSHKRVTIFKRGP 111 HE +I G+ ED+T+IILNIKG L+ + + +G Sbjct: 67 AHEYMAIDGIVEDMTNIILNIKGAKLRKLPMEDTPNARNQRLLTKVLEITQEDIDNGKGQ 126 Query: 112 GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 V GDI EV+NP+H I + V +++L VS G GYVP++ H + I Sbjct: 127 YEVRLGDIVEGGIFEVVNPNHHIFTVTVPMQKQVDLRVSFGRGYVPSERHVVNDKSTDEI 186 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 IDA ++P+K V+Y VE+ R GQ D+D+L + + TDG +T ++ AS+I +F Sbjct: 187 LIDAAFTPVKLVNYHVENTRVGQDTDFDRLVLEVTTDGRVTPTEAFGFASQIGLKHFEIF 246 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLK---KVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + E + + K +++E+ELSVRSTNCL G NI + +L+ Sbjct: 247 KKVQTQMVSFDEIKEDSDSDDDEIMDKLALRIDEIELSVRSTNCLSGANIETIAELVSIP 306 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYE 337 E ML NFG+KSL EIK L MGL LGM+L + E++ E K+Y+ Sbjct: 307 ERRMLEFRNFGKKSLTEIKAKLQEMGLGLGMDLSRYGITAENVREKIKEYQ 357 >gi|289765669|ref|ZP_06525047.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D11] gi|289717224|gb|EFD81236.1| DNA-directed RNA polymerase subunit alpha [Fusobacterium sp. D11] Length = 342 Score = 285 bits (729), Expect = 8e-75, Method: Composition-based stats. Identities = 112/308 (36%), Positives = 183/308 (59%), Gaps = 7/308 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I +E ++ I EPL RG+ +TLGNALRRVL+SS+ GAAI ++I+GVL E + + Sbjct: 28 KITEVKESNYKSQFIVEPLYRGYGNTLGNALRRVLLSSIPGAAIKGMRIEGVLSEFTVMD 87 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +T+IILN+K I +K +R+T+ +GP VV A DI +E++NP+ +IC Sbjct: 88 GVKEAVTEIILNVKEIVVKAESSGERRMTLSIKGPKVVKAADIVADIGLEIVNPEQIICT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + D + ME V G G+V ++ ++ P+ I +DA+Y+PI+KVSY ++ G++ Sbjct: 148 VTTDRTLDMEFIVDTGEGFVVSEEIDKKDWPVDYIAVDAIYTPIRKVSYEIQDTMFGRMT 207 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF---- 252 D+DKL++ ++TDGSI D+++ A +L+ L F+ + +++DI Sbjct: 208 DFDKLTLNVETDGSIEIRDAISYAVELLKLHLDPFLEIGNKMENLRDDIEEIVDEPMDIQ 267 Query: 253 ---NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + + K+EEL+L+VRS NCL+ I + L + ++L++ N G+KSL EI Sbjct: 268 VIDDKSHDMKIEELDLTVRSFNCLKKAGIEEVSQLASLSLNELLKIKNLGKKSLDEILEK 327 Query: 310 LGTMGLFL 317 + +G L Sbjct: 328 MKDLGYDL 335 >gi|110004254|emb|CAK98592.1| probable dna-directed rna polymerase alpha chain protein [Spiroplasma citri] Length = 317 Score = 284 bits (728), Expect = 9e-75, Method: Composition-based stats. Identities = 105/316 (33%), Positives = 172/316 (54%), Gaps = 8/316 (2%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ I+P + + N + EPL RGF TLGNA+RR L+S+ GAA+ AV+I Sbjct: 2 KQFIRPEF--KLQAEDKANNYGKFLVEPLERGFGVTLGNAIRRTLLSATPGAAVFAVRIK 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQT 121 G HE ++I GV E +T IILNIK + LK++ D + + G + A D+ Sbjct: 60 GASHEFTAIPGVVEHVTKIILNIKNLVLKINQDIIPDGESVILKVVSSKEGEIYARDLVV 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +EV+N D ++ + + +EL GY ++ E LI ID+ Y PI+ Sbjct: 120 PTGVEVINGDLLLATIAKGGELDLELYARNSRGYKSFTDNKKEKKYADLIVIDSNYCPIQ 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+Y VE + G+ D +KL + I TD SIT ++VA+A++++ + L F+N E + Sbjct: 180 RVAYNVEPTKVGKNADLEKLELEIQTDSSITPVNAVAMAAKVITEHLEFFVNLNE-AIKA 238 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + I+ ++ L + ++ELE + RS NCL+ I + DL+ ++E ++ + N G+K Sbjct: 239 TQIISSEAEAEEDELERSIDELEFTQRSQNCLKRAKIDTLRDLVSKSEDEIQEIRNLGKK 298 Query: 302 SLVEIKGVLGTMGLFL 317 SL EIK + +GL Sbjct: 299 SLTEIKDKVAQLGLNF 314 >gi|217077310|ref|YP_002335028.1| DNA-directed RNA polymerase subunit alpha [Thermosipho africanus TCF52B] gi|217037165|gb|ACJ75687.1| DNA-directed RNA polymerase, alpha subunit [Thermosipho africanus TCF52B] Length = 330 Score = 284 bits (728), Expect = 9e-75, Method: Composition-based stats. Identities = 111/327 (33%), Positives = 175/327 (53%), Gaps = 16/327 (4%) Query: 7 QELIKPNNIEYIV-LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E + P ++ E+ + PL +G+A T+GN LRRVL+SS+ AIT V+ Sbjct: 1 MEFVMPKRLKMEEHKESEDYYYARYVLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKF 60 Query: 66 --DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQT 121 HE +I+GV ED+ +I+LN+K + L M + +TI +G G + AGDI Sbjct: 61 VRPEKYHEFDTIEGVKEDILEILLNLKKVQLSMEDYVEDPVELTIQHKGAGEIKAGDIIV 120 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + V NP+ I L+ DA + ++L + G G+VPA R E IG I +D +Y+P+ Sbjct: 121 PAGVSVTNPNLHIATLNEDADLEIKLYATIGKGFVPAAE-RNEKPDIGWIVLDGVYNPVL 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++ E+ R G+ DYDKL + I T +I D++ A +I+ D + E Sbjct: 180 KVNWIAENVRVGKKTDYDKLVLEIWTKKNIKPSDALKKAVKIINDHFRIIEESFGEFDEE 239 Query: 242 KE---------DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + + N L +K++EL+LS+R+ NCL+ + I +GDL+ R E ++ Sbjct: 240 NDIAEVSEVSTVEEEEVVDENDILSRKIDELDLSMRALNCLKRDKIETIGDLLSRGEEEL 299 Query: 293 LRMANFGRKSLVEIKGVL-GTMGLFLG 318 L++ NFG+KSL E+K L GL G Sbjct: 300 LKIKNFGQKSLDEVKEKLMEKFGLSFG 326 >gi|71842332|ref|YP_277420.1| RNA polymerase alpha subunit [Emiliania huxleyi] gi|90110842|sp|Q4G347|RPOA_EMIHU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|60101575|gb|AAX13919.1| RNA polymerase alpha subunit [Emiliania huxleyi] Length = 309 Score = 284 bits (728), Expect = 9e-75, Method: Composition-based stats. Identities = 99/296 (33%), Positives = 166/296 (56%), Gaps = 2/296 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 EN EPL +G T+GNALRR L+S++ G AI +I GV HE S I GV ED Sbjct: 15 TENVAKFCIEPLSKGQGITIGNALRRTLLSNIPGTAIVGTRISGVDHEFSVIPGVKEDAL 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +I+LN+K + K + + + +GP +VTAGDI D+E+++P I + + + Sbjct: 75 EILLNLKQLVFKGNLNEPIITRLNIQGPCIVTAGDIDIPTDLELIDPQQYIATITDFSHL 134 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME + +G YV ++ + N+P G + +DA+++PIKKV++ VE++ + L+ ++L + Sbjct: 135 EMEFILEQGESYVLSEKTAS-NNPRGFLAVDAVFTPIKKVNFFVETSSSKERLEKERLII 193 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I+T+GSI +++ LA+ L + + + + E N+ + +EEL Sbjct: 194 EIETNGSILPLEALNLAAERLSSLFKLVNSADLTAEFPTEVENIVQVSQTDVTGVLIEEL 253 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT-MGLFLG 318 ELSVR+ NCL+ I +G+L++ ++ ++L NFG+KS E+ L L L Sbjct: 254 ELSVRAYNCLKRAQIHTLGELLKYSKENLLEFKNFGQKSANEVCENLHERFNLTLN 309 >gi|218462761|ref|ZP_03502852.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli Kim 5] Length = 247 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 173/246 (70%), Positives = 209/246 (84%), Gaps = 1/246 (0%) Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +KM GD KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G Sbjct: 2 IKMDGDDAKRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGK 61 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVPA+ +R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKL+MTI+TDGSITG Sbjct: 62 GYVPAERNRAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLNMTIETDGSITG 121 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCL 273 ED+VA A+RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL Sbjct: 122 EDAVAFAARILQDQLGVFVNFDEPQKETEE-EAVTELAFNPALLKKVDELELSVRSANCL 180 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELA 333 + +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IE+LA Sbjct: 181 KNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMGLHLGMEVPAWPPENIEDLA 240 Query: 334 KKYEDK 339 K+YED+ Sbjct: 241 KRYEDQ 246 >gi|300088169|ref|YP_003758691.1| DNA-directed RNA polymerase subunit alpha [Dehalogenimonas lykanthroporepellens BL-DC-9] gi|299527902|gb|ADJ26370.1| DNA-directed RNA polymerase, alpha subunit [Dehalogenimonas lykanthroporepellens BL-DC-9] Length = 333 Score = 284 bits (728), Expect = 1e-74, Method: Composition-based stats. Identities = 107/303 (35%), Positives = 169/303 (55%), Gaps = 3/303 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I + + EPL +GF TLGNALRRVL+SSL GAA+ V+I+GV HE S + Sbjct: 8 VIETKESGASFAHFTVEPLEKGFGTTLGNALRRVLLSSLSGAAVAQVRIEGVQHEFSPLP 67 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G ED D +LN+K ++LK R+ + +GP VTA DI+ ++ E+ NPD + Sbjct: 68 GAKEDTMDFLLNLKNLHLKPLFGRPGRLILDVKGPREVTAADIEASSEYEIANPDLYLVT 127 Query: 137 LDV-DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LD ++ + +E+ V G G+V A +N IG I DA+++P++KV+Y +E GQ Sbjct: 128 LDDAESHLYVEMEVEVGRGFVEATSA--DNVAIGTIPQDAIFNPVEKVNYEIEPVHMGQE 185 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 + Y++L + I TDG++ D++A ++ IL + F ++E K + Sbjct: 186 MSYERLHLRIWTDGTLAPTDALAQSAAILVNHFQPFTAIGGSLPIIQEKKQEKLSIPDEK 245 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 +E+L+LSVRS NCLR + +G+L+ + +++ + NFG KSL E++ L GL Sbjct: 246 YNMPIEQLDLSVRSLNCLRHAGLNTVGELLSKGVDELMSLRNFGLKSLNELEERLQANGL 305 Query: 316 FLG 318 Sbjct: 306 SFN 308 >gi|87124986|ref|ZP_01080833.1| Bacterial RNA polymerase, alpha chain [Synechococcus sp. RS9917] gi|86167306|gb|EAQ68566.1| Bacterial RNA polymerase, alpha chain [Synechococcus sp. RS9917] Length = 312 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 165/308 (53%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGNALRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIEH-QISDDRAQTGVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++P+ Sbjct: 66 ATVPGVREDVLDILLNCKQLSVNSRTSELEIGRLVVAGPAEVKARDLQFSSQVQVVDPER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+++V+++++ Sbjct: 126 PIATVSDGHSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVQRVNFSIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L M + TDGSIT +D++A A+ +L + EEP E + + Sbjct: 186 AEGGSARERLRMEVVTDGSITPDDAIAQAANLLIELFQPLATVTMVEEPGLEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|158563962|sp|Q6YQZ5|RPOA_ONYPE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 330 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 114/337 (33%), Positives = 186/337 (55%), Gaps = 12/337 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KN + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V Sbjct: 2 KNIK-FIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQ 120 +I GV E ++I GV+ED+ IILN+K I + D +++ + +GP +TA + Sbjct: 58 KIQGVEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P Sbjct: 118 LPAGVKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + VSY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + Sbjct: 178 VVNVSYQVEK----KLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPA 233 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V+ K N L ++E+L+LSVR N L+ I + L++ +E +++++ + G Sbjct: 234 HVEFVSESKKEAHNSVLDLEIEQLDLSVRLFNSLKRAGIDTVAALVKLSEKEVVKLKSLG 293 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 RKS E+K GL L + S+EE K+ Sbjct: 294 RKSFQELKDKFLEYGLEFNDYLKEVLHHSVEEDKDKH 330 >gi|328813963|gb|AEB52097.1| DNA-directed RNA polymerase alpha chain [Lactobacillus farraginis] Length = 264 Score = 284 bits (727), Expect = 1e-74, Method: Composition-based stats. Identities = 119/264 (45%), Positives = 172/264 (65%), Gaps = 4/264 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IIL Sbjct: 1 GEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIIL 60 Query: 88 NIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 N+K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M Sbjct: 61 NVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHM 120 Query: 146 ELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 LT ++G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ Sbjct: 121 RLTANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTL 180 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 + T+GSIT ++V+LA++IL + L MF++ + K + + + L +EEL Sbjct: 181 DVWTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTIEEL 240 Query: 264 ELSVRSTNCLRGENIVYMGDLIQR 287 +LSVRS NCL+ I + +L ++ Sbjct: 241 DLSVRSYNCLKRAGINTVQELTEK 264 >gi|329118621|ref|ZP_08247325.1| DNA-directed RNA polymerase subunit alpha [Neisseria bacilliformis ATCC BAA-1200] gi|327465356|gb|EGF11637.1| DNA-directed RNA polymerase subunit alpha [Neisseria bacilliformis ATCC BAA-1200] Length = 277 Score = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 127/279 (45%), Positives = 180/279 (64%), Gaps = 5/279 (1%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ GV ED+ DI+LN+KG+ K+ G R+ + K G G V Sbjct: 1 MNGFAPTEVSISGVLHEYSTLDGVQEDVVDILLNLKGVVFKLHGREEIRLKLKKAGNGPV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLIT 172 TA DI +D++V+NP HVICNL + + ME+ V +G GY R + IG+I Sbjct: 61 TAADIDLPHDVDVINPKHVICNLANNGSIEMEIVVEQGRGYQSVSGRRDVRSDTGIGVIQ 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA +SPI +VS+ VE AR Q D D+L + ++T+GS+ E++V A+RIL DQ+ +F Sbjct: 121 LDASFSPISRVSFEVEPARVEQRTDLDRLVLDVETNGSLDPEEAVRSAARILIDQMSVFA 180 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + E++ K+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++ Sbjct: 181 ---DLQGTPVEEVEEKTPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETEL 237 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ N GRKSL EIK VL + GL LG L WPP +E Sbjct: 238 LKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPAGLER 276 >gi|87300890|ref|ZP_01083732.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. WH 5701] gi|87284761|gb|EAQ76713.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. WH 5701] Length = 312 Score = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 164/309 (53%), Gaps = 14/309 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + +E+ + + + + PL RG A TLGNALRRVLM + G+AITAV+I GV HE Sbjct: 7 DRVEHHIADDRSQT-GVFVIGPLDRGQAITLGNALRRVLMGGMEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K + + + + GP VTA D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKEVVVNSRNRDLEIGRLIVNGPASVTAADLQFSSQVQVIDFDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V KG GY P H + I L+ IDA++ P+++V+YTV+ Sbjct: 126 PIATVAEGHSLELEVHVEKGVGYRPVDRHHEDTSAIDLLQIDAVFMPVRRVNYTVDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 G+ ++L + I T GSIT +D++A A+ L EEP E + + Sbjct: 186 GEGGSARERLRLEIVTSGSITPDDAMAQAANQLIQLFQPLASLTMVEEPGLEPEPSAESQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLFL 317 L +G+ L Sbjct: 297 ALERIGISL 305 >gi|157493263|gb|ABV57997.1| RNA polymerase alpha subunit [Vibrio mimicus] Length = 270 Score = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 120/273 (43%), Positives = 186/273 (68%), Gaps = 8/273 (2%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM- 96 GF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ Sbjct: 1 GFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVA 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGY 155 G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V +G GY Sbjct: 61 EGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGY 120 Query: 156 VPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 VPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T+G++ Sbjct: 121 VPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANC 237 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L+ E I Y+GDL+QRTE ++L+ N G+KSL E Sbjct: 238 LKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTE 270 >gi|11467449|ref|NP_043595.1| RNA polymerase alpha subunit [Odontella sinensis] gi|1350842|sp|P49465|RPOA_ODOSI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1185144|emb|CAA91627.1| RNA polymerase alpha-chain [Odontella sinensis] Length = 312 Score = 284 bits (726), Expect = 2e-74, Method: Composition-based stats. Identities = 102/322 (31%), Positives = 170/322 (52%), Gaps = 10/322 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + + +K +E + + + L G T+GN RRVL+S L G AIT Sbjct: 1 MNNFYIKCLKSKKVESGSI------YGQFVIKSLHPGQGITIGNLFRRVLLSDLGGTAIT 54 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+I GV E S+I G+ ED+ +I+LN+KGI LK + K + +GP VVTA IQ Sbjct: 55 GVRIAGVRDEFSTIPGIREDILEILLNLKGIVLKSKTNDLKFGRLKIKGPAVVTANCIQL 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 +++E++NP+H I + V+ +E + G GY A + + IDA++ P++ Sbjct: 115 PSEVEIVNPNHYIATITTSNVLEIEFKIESGTGYKLAGQTFCKKSQ-DYLQIDAIFMPVQ 173 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV + +E+ + ++L + I T+GS++ E++V+ ASR + + + P++ Sbjct: 174 KVDFKIENIYDNSNDLTERLFLDIWTNGSMSPEEAVSSASRFIISFFSSLLENKLPQETK 233 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + S P NP +EEL LSVR+ NCL+ I +GDL++ + + + NFGRK Sbjct: 234 ESENKTLSAPKNPHTNIAIEELHLSVRAYNCLKRAQINTIGDLLKYSPEKLQELKNFGRK 293 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S E+ L LG+ L + Sbjct: 294 SADEVFTTLKNK---LGIVLSN 312 >gi|52220841|ref|YP_086997.1| RNA polymerase alpha subunit [Panax ginseng] gi|68053096|sp|Q68RX5|RPOA_PANGI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|51235344|gb|AAT98540.1| RNA polymerase alpha subunit [Panax ginseng] Length = 353 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 88/359 (24%), Positives = 168/359 (46%), Gaps = 28/359 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLG----QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+Q+ + + +++ + + I PL +G A T+G A+RR L+ + Sbjct: 1 MVQEKVR--VSTRTLQWKCVEARADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIE 58 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S++ G+ E + +I++N+K I LK + +I RGPG VTA Sbjct: 59 GTCITRAKSEKIPHEYSTLVGIQESVHEILMNLKEIILKSNLYGTCDASICIRGPGYVTA 118 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI + +E+++ I +L + + L + + GY N G IDA+ Sbjct: 119 QDIISPPYVEIVDNTQHIASLAEPIDLCIGLQIERNRGY--LIKTPNNNFQDGSYPIDAV 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S G + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 177 FMPVRNANHSIHSYGNGNE-KQEILFLEIWTNGSLTPKEALHQASRNLIDLFIPFLHTEE 235 Query: 237 PKKEVKEDINVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVY 280 + ++ + LP K +++ EL R NCL NI Sbjct: 236 ENLHLADNQHTVPLPPFTFHEKLTKLRKNKKKIALKSIFIDQSELPPRIYNCLIRSNIYT 295 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 + DL+ ++ D++++ +F + ++K +LG + ++LP E LA+ + Sbjct: 296 LLDLLNNSQEDLMKIEHF---RIEDVKAILGILEKHFAIDLPKKLKIGFESLAQSIYSE 351 >gi|219685166|ref|ZP_03539986.1| DNA-directed RNA polymerase, alpha subunit [Borrelia garinii Far04] gi|219673262|gb|EED30281.1| DNA-directed RNA polymerase, alpha subunit [Borrelia garinii Far04] Length = 344 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 119/334 (35%), Positives = 183/334 (54%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A++I V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQRKTISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 DTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFLY 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >gi|219684168|ref|ZP_03539112.1| DNA-directed RNA polymerase, alpha subunit [Borrelia garinii PBr] gi|219672157|gb|EED29210.1| DNA-directed RNA polymerase, alpha subunit [Borrelia garinii PBr] Length = 344 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 119/334 (35%), Positives = 183/334 (54%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A++I V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQRKTISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 DTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---NVNTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >gi|157325562|ref|YP_001468340.1| RNA polymerase alpha subunit [Ipomoea purpurea] gi|171769953|sp|A7Y3I1|RPOA_IPOPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|157056790|gb|ABV02380.1| RNA polymerase alpha subunit [Ipomoea purpurea] Length = 337 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKA 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASICVKGPGCVTAEDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + L + + GY+ HH E+ G IDA++ P++ ++++ Sbjct: 131 DNTQHIAWLTEPIDFCIGLQIERNRGYILKTHHNFED---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDGEHTI 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LE + NCL+ NI + DL+ +++ D+ Sbjct: 247 PLSPLSFHDKVAKLRKNKKKLALKSIFIDQLEFPPKIYNCLKKSNISTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHF---HIEDVKQILGILEKHFAIDLPK 334 >gi|15639205|ref|NP_218652.1| DNA-directed RNA polymerase subunit alpha [Treponema pallidum subsp. pallidum str. Nichols] gi|189025446|ref|YP_001933218.1| DNA-directed RNA polymerase subunit alpha [Treponema pallidum subsp. pallidum SS14] gi|6094122|sp|O83242|RPOA_TREPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|3322481|gb|AAC65201.1| DNA-directed RNA polymerase, alpha subunit (rpoA) [Treponema pallidum subsp. pallidum str. Nichols] gi|189018021|gb|ACD70639.1| DNA-directed RNA polymerase, alpha subunit [Treponema pallidum subsp. pallidum SS14] gi|291059617|gb|ADD72352.1| DNA-directed RNA polymerase, alpha subunit [Treponema pallidum subsp. pallidum str. Chicago] Length = 351 Score = 283 bits (725), Expect = 2e-74, Method: Composition-based stats. Identities = 114/330 (34%), Positives = 179/330 (54%), Gaps = 12/330 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M ++N + +P +E++ E A P GF T+GN LRRVL+SS++G A Sbjct: 1 MPRRNLLKGFKRPKVLEFLS-ENSSECYGKFTASPFETGFGTTVGNCLRRVLLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKR 109 +T V+I DGV H E I V ED +I+ N K + + G T R Sbjct: 60 VTGVRITSFDADGVAHFISSEFEQIPHVREDTLEILNNFKRLRFLLPQGAESSTFTYEFR 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 G +T D +EVL+ D +I + A V +EL V G GYVPA+ H D +G Sbjct: 120 GAVSLTGKDFAKKFQLEVLSQDLLIMEMMDGAHVEVELHVEFGRGYVPAESHDRYADLVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +DA++SP+ +V Y ++S R GQ DYD+LS+ + TDG++ ED++A A++I+++ Sbjct: 180 VIPVDAIFSPVLRVRYDIQSCRVGQRGDYDQLSLEVWTDGTVRPEDAIAEAAKIIKEHFT 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F+NF+E +++++ L K+ +++ SVR+ NCL I +G+L + +E Sbjct: 240 VFVNFDETALDLEDEPEEDDPAVLELLNTKIADVDFSVRARNCLLTMGIKTLGELTRISE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + N G+KSL EI+G L L LGM Sbjct: 300 QTLANTRNVGKKSLSEIQGKLQEYNLRLGM 329 >gi|194477035|ref|YP_002049214.1| DNA-directed RNA polymerase alpha subunit [Paulinella chromatophora] gi|171192042|gb|ACB43004.1| DNA-directed RNA polymerase alpha subunit [Paulinella chromatophora] Length = 308 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 105/306 (34%), Positives = 163/306 (53%), Gaps = 8/306 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + PL RG A TLGN+LRRVLM SL G+AITAV+I GV HE Sbjct: 7 DRIEHNTADNRSQT-GVFLIGPLDRGHAITLGNSLRRVLMGSLEGSAITAVRIAGVSHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP VTA D Q + ++V+ Sbjct: 66 ATIPGVREDVLDILLNCKQVSISSRNQELEIGRLVVSGPANVTAADFQFSSQVQVVYGSS 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + ME+ V +G GY P H + I L+ IDA++ P+++V+YT++ Sbjct: 126 PIVTIAEGHSIEMEVHVERGVGYRPVNRHNEDTSAIDLLQIDAVFMPVRRVNYTIDETAV 185 Query: 193 GQ-VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G+ ++L + I+T+GSIT ED++A A+ L N ++ + E Sbjct: 186 GEGGSARERLRLEIETNGSITPEDAMAEAANQLISMFQPLANLTMVEEPIPEPEPPTEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLFL 317 +GL L Sbjct: 300 RIGLSL 305 >gi|312148520|gb|ADQ31179.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi JD1] Length = 344 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 118/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 61 TAMRVQSNNKDASLKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|225548741|ref|ZP_03769788.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 94a] gi|225370771|gb|EEH00207.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 94a] Length = 344 Score = 283 bits (724), Expect = 3e-74, Method: Composition-based stats. Identities = 118/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 61 TAMRVQSNNKDASSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|312386519|gb|ADQ74778.1| RNA polymerase alpha subunit [Lactobacillus sp. MWBPC 1-3-1] Length = 248 Score = 283 bits (723), Expect = 3e-74, Method: Composition-based stats. Identities = 109/248 (43%), Positives = 157/248 (63%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T II Sbjct: 1 YGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + LK D K + + GP VTA D++ D++VLNPD IC + + ME Sbjct: 61 LNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHME 120 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I Sbjct: 121 LAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDGSI D+++ A++IL + +F + + + + + + L +EEL+LS Sbjct: 181 TDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKEDDKKEKKLEMTIEELDLS 240 Query: 267 VRSTNCLR 274 VRS NCL+ Sbjct: 241 VRSYNCLK 248 >gi|224531785|ref|ZP_03672417.1| DNA-directed RNA polymerase, alpha subunit [Borrelia valaisiana VS116] gi|224511250|gb|EEF81656.1| DNA-directed RNA polymerase, alpha subunit [Borrelia valaisiana VS116] Length = 344 Score = 283 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 121/334 (36%), Positives = 185/334 (55%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRVQSNNKDSSSKIVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQRKTISFSISGK 121 Query: 112 G--VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI NL DA + E ++ G GYV ++ + + + Sbjct: 122 DTSVLKASHFERD-GVEVFNKDLVIANLSHDANLDFEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---NVNISFEKSKSESYNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLGSYRLFLGMSKED 331 >gi|328813957|gb|AEB52094.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 255 Score = 283 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 112/253 (44%), Positives = 165/253 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I G Sbjct: 3 ITKVDESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDG 62 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 63 VLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTV 122 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 123 ADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 182 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 183 FDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 242 Query: 258 KKVEELELSVRST 270 +EEL+LSVRS Sbjct: 243 MTIEELDLSVRSY 255 >gi|328814005|gb|AEB52118.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 250 Score = 283 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 110/249 (44%), Positives = 164/249 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED Sbjct: 2 DESTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLED 61 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIK + LKM+ D K + I GP VTA DI D+EVLNP+ IC + Sbjct: 62 VTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGG 121 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + +TV KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL Sbjct: 122 HFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKL 181 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + T+GSI+ ++++LA++IL + L +F+N + K + + + L +E Sbjct: 182 TLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIE 241 Query: 262 ELELSVRST 270 EL+LSVRS Sbjct: 242 ELDLSVRSY 250 >gi|203287946|ref|YP_002222961.1| DNA-directed RNA polymerase [Borrelia recurrentis A1] gi|201085166|gb|ACH94740.1| DNA-directed RNA polymerase [Borrelia recurrentis A1] Length = 343 Score = 283 bits (723), Expect = 4e-74, Method: Composition-based stats. Identities = 115/328 (35%), Positives = 186/328 (56%), Gaps = 16/328 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 K ++ P+ IE++ G+++ + + P +GF T+GN LRRVL+SS+ G AI+A+ Sbjct: 5 KLLKDFTIPDRIEFVR-GEDDGSYGKFVIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAM 63 Query: 64 QIDG--------VLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPG 112 +I V E I GV ED ++I NIK ++LK+ ++ +++ + Sbjct: 64 RIQSNQEESLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNN 123 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 V+ AG ++ +EV N D VI L DA + E V+ G GYV ++ + + + I Sbjct: 124 VLKAGHLER-EGVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIA 182 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D+++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L + Sbjct: 183 LDSIFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLV 242 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 NFE+ ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ Sbjct: 243 NFEDKVIH---SVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVEL 299 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + NFG+KSL EI L GLFLGM+ Sbjct: 300 SKARNFGKKSLEEIVEKLNAYGLFLGMS 327 >gi|51598757|ref|YP_072945.1| DNA-directed RNA polymerase subunit alpha [Borrelia garinii PBi] gi|61215870|sp|Q661B8|RPOA_BORGA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|51573328|gb|AAU07353.1| DNA-directed RNA polymerase [Borrelia garinii PBi] Length = 344 Score = 282 bits (722), Expect = 4e-74, Method: Composition-based stats. Identities = 119/334 (35%), Positives = 184/334 (55%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A++I V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRIQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQRKIISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 DTKVLKASHFERD-GVEVFNRDLVIATLSQDVNLDLEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIIREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 I+FE+ + + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLIDFED---NINTSFEKSKSESSNLLDMSIEKLDLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI L + LFLGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLSSYQLFLGMSKED 331 >gi|157493277|gb|ABV58004.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 119/272 (43%), Positives = 184/272 (67%), Gaps = 8/272 (2%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG Sbjct: 1 LEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKG 60 Query: 92 INLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTV 149 + +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V Sbjct: 61 LAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKV 120 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++ Sbjct: 121 ERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDME 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+ Sbjct: 181 TNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELT 237 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 VRSANCLKAEAIHYIGDLVQRTEVELLKTPNL 269 >gi|330444134|ref|YP_004377120.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila pecorum E58] gi|328807244|gb|AEB41417.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila pecorum E58] Length = 374 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 121/366 (33%), Positives = 194/366 (53%), Gaps = 28/366 (7%) Query: 2 IQKNWQ-----ELIKPNNIEYIVLGQ-EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 + +N Q + P +++ + + + +AEPL +G HTLGNALRR L+ L Sbjct: 1 MSENLQNLLYDKFELPESVKMLSMEGFSTDTHARFVAEPLEKGMGHTLGNALRRALLIGL 60 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFK 108 AI + + GVLHE +I+G+ ED+T+IILN+K LK G S + + Sbjct: 61 EAPAIISFSMTGVLHEYMAIEGIIEDVTNIILNLKSALLKKHPMQGSEEGRSTQLLKSSI 120 Query: 109 R----------GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 G VT GD+ E +NP+ VI + + + L V+ G GY + Sbjct: 121 SIDASDLAAVGGQKEVTLGDLLQEGGFEAVNPEQVIFTVTQPMQLDITLRVAFGRGYTTS 180 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + E+ + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG IT ++++A Sbjct: 181 ERIVLEDKGVNEIVLDAAFSPVCLVNYYVEDTRVGQDTDFDRLILQVETDGRITPKEALA 240 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRG 275 +++IL +F +E + +E ++++ + L K + E+ELSVRSTNCL Sbjct: 241 FSTQILTKHFSIFEKMDEKRIVFEEAVSIEKENKDDILHKLILGINEIELSVRSTNCLSN 300 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELA 333 NI +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E Sbjct: 301 ANIETIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGIGLDNVKEKM 360 Query: 334 KKYEDK 339 K Y +K Sbjct: 361 KWYAEK 366 >gi|238021616|ref|ZP_04602042.1| hypothetical protein GCWU000324_01516 [Kingella oralis ATCC 51147] gi|237866230|gb|EEP67272.1| hypothetical protein GCWU000324_01516 [Kingella oralis ATCC 51147] Length = 278 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 131/280 (46%), Positives = 183/280 (65%), Gaps = 6/280 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-TIFKRGPGV 113 + G A T V I GVLHE S++ GV ED+ DI+LNIKG+ K+ G S + V T+ K G GV Sbjct: 1 MNGFAPTEVTIAGVLHEYSTLDGVQEDIVDILLNIKGVVFKLHGGSTEAVITLKKEGSGV 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLI 171 VTA D + +D+E++NP+ VIC+L + + ME+ V +G GY + E IG I Sbjct: 61 VTAADFELPHDVEIINPEQVICHLAANGNIDMEVKVEQGRGYQSVAGRKAAKEQTKIGSI 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +D+ +SPI +VS+ VE+AR Q D D L + I+T+GSI E++V A+RIL DQ+ +F Sbjct: 121 QLDSSFSPISRVSFEVEAARVEQRTDLDSLVLDIETNGSIEPEEAVRAAARILIDQMSIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + E EV+E+ P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE + Sbjct: 181 ADLEGTPIEVEEEKA---PPIDPVLLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETE 237 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +L+ N GRKSL EIK VL + GL LG L WPP +E+ Sbjct: 238 LLKTPNLGRKSLNEIKEVLASKGLTLGSKLESWPPAGLEK 277 >gi|328814019|gb|AEB52125.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 263 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 121/267 (45%), Positives = 172/267 (64%), Gaps = 4/267 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KP + EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVL Sbjct: 1 EKPRIAKI----DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVL 56 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+IKGV ED+T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN Sbjct: 57 HEFSTIKGVREDVTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D IC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ Sbjct: 117 KDMYICSVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVEN 176 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G D+DKL+M I TDGSI ++++L+++I+ + L +F+N + K + + + Sbjct: 177 TRVGHREDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEE 236 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGE 276 L +EEL+LSVRS NCL+ Sbjct: 237 TQKEKMLEMTIEELDLSVRSYNCLKRA 263 >gi|313292064|gb|ADR51221.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292066|gb|ADR51222.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292068|gb|ADR51223.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292070|gb|ADR51224.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292072|gb|ADR51225.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292074|gb|ADR51226.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] gi|313292076|gb|ADR51227.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 258 Score = 282 bits (722), Expect = 5e-74, Method: Composition-based stats. Identities = 117/253 (46%), Positives = 169/253 (66%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED Sbjct: 6 DEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 66 VAQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 126 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI ++++L+++I+ + L +F+N + K + + + L +E Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 245 Query: 262 ELELSVRSTNCLR 274 EL+LSVRS NCL+ Sbjct: 246 ELDLSVRSYNCLK 258 >gi|203284412|ref|YP_002222152.1| DNA-directed RNA polymerase [Borrelia duttonii Ly] gi|201083855|gb|ACH93446.1| DNA-directed RNA polymerase [Borrelia duttonii Ly] Length = 343 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 116/328 (35%), Positives = 186/328 (56%), Gaps = 16/328 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 K ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G AI+A+ Sbjct: 5 KLLKDFTIPDRIEFVR-GEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGYAISAM 63 Query: 64 QIDG--------VLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPG 112 +I V E I GV ED ++I NIK ++LK+ ++ +++ + Sbjct: 64 RIQSNQEESLKIVSSEFDLIPGVMEDTLEVIANIKNVHLKLDEGVTNTTINLSVNGKDNN 123 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 V+ AG ++ +EV N D VI L DA + E V+ G GYV ++ + + + I Sbjct: 124 VLKAGHLER-EGVEVFNKDLVIATLSSDANLDFEFQVNYGRGYVSSEQNAKYLEEVNTIA 182 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D+++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ ++++ L + Sbjct: 183 LDSIFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASVVREFLLPLV 242 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 NFE+ ++ + L VE+L LSVRS NCL EN+ +G+LI ++ ++ Sbjct: 243 NFEDKVIH---SVDYAEFRDSDILSMNVEKLNLSVRSLNCLIKENVKTLGELISKSPVEL 299 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + NFG+KSL EI L GLFLGM+ Sbjct: 300 SKARNFGKKSLEEIVEKLNAYGLFLGMS 327 >gi|116075744|ref|ZP_01473003.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. RS9916] gi|116067059|gb|EAU72814.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. RS9916] Length = 312 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 164/308 (53%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRAQT-GVFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++P+ Sbjct: 66 ATVPGVREDVLDILLNCKQLSVNSRSSELEIGRLVVAGPSEVKARDLQFSSQVQVVDPER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +EL V +G GY P H + + I L+ IDA++ P+ +V+++++ Sbjct: 126 TIATVSDGHSLELELHVERGIGYRPVDRHSEDTNAIDLLQIDAVFMPVHRVNFSIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L M + TDGSIT +D++A A+ L + EEP E + + Sbjct: 186 AEGGSARERLRMEVVTDGSITPDDAIAEAANQLIELFQPLATVTMVEEPGLEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|262341038|ref|YP_003283893.1| DNA-directed RNA polymerase subunit alpha [Blattabacterium sp. (Blattella germanica) str. Bge] gi|262272375|gb|ACY40283.1| DNA-directed RNA polymerase subunit alpha [Blattabacterium sp. (Blattella germanica) str. Bge] Length = 337 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 117/336 (34%), Positives = 194/336 (57%), Gaps = 12/336 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +KP+ I + + +N+ + +PL G+ TLGNALRRVL+ SL+G A+T+++I G Sbjct: 5 DFVKPDRI---AMSEFSDNKGIFHLKPLEPGYGITLGNALRRVLLGSLKGFAVTSIRIKG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDI-QTVND 124 V +E S+I+GV ED+T+I+LN K I LK + V VT G + + ++ Sbjct: 62 VKYEFSTIEGVVEDVTEIVLNFKKIRLKQKISGIHKETVNASIHHGKQVTGGYLNKFISG 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKV 183 +LN + VICN D + + T+ +G GYVPA+ ++ ND IG I ID++Y+PI+ V Sbjct: 122 FHILNENLVICNKDESIPLEISFTIEEGRGYVPAEENKKNNDHLIGTIPIDSIYTPIRNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-----FEEPK 238 YT+E+ R GQ D++ LS+ I TDGSI + ++ AS+IL +F + ++ + Sbjct: 182 KYTIENCRVGQKTDFENLSLEIQTDGSICPKSALMEASKILIQYFSIFSHEKIGKKKQEE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + L L K+ +++LSVR+ NCL+ +I + DL+ +ML+M NF Sbjct: 242 INKDKKYDEEFLRMRTLLKSKLSDMDLSVRTKNCLKSASIESIADLVSCNRNNMLKMRNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 G+KSL E++ + GL GM + ++ + E + Sbjct: 302 GKKSLDELESKMKEKGLCFGMEISEYRLNNKENNKE 337 >gi|323149114|ref|YP_004222678.1| RNA polymerase alpha subunit [Anthriscus cerefolium] gi|289645607|gb|ADD13670.1| RNA polymerase alpha subunit [Anthriscus cerefolium] Length = 338 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 89/334 (26%), Positives = 161/334 (48%), Gaps = 23/334 (6%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + +N I PL +G A T+G A+RR L+ + G IT + D + Sbjct: 11 RTLQWKCVESKADNKRLYYGRFIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFDKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + DI++N+K I L+ + +I RGPG VTA DI +EV+ Sbjct: 71 PHEYSTLMGIQESVHDILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIELCIGLQIERNRGY--LIKTPNNNSQDGSYPIDAVFMPVRNANHSIH 188 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + ++ ++ Sbjct: 189 SYGNGND-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFITFLHTEEENLHLADNQHMV 247 Query: 249 SLPFNPALLK-------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 LP K +++ EL R NCL+ NI + DL+ ++ D++++ Sbjct: 248 PLPPFTFHDKLRKKQKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQKDLMKI 307 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESI 329 F K ++K +LG + L ++LP P Sbjct: 308 DRFRIK---DVKHILGILEKHLSIDLPKKPKMGF 338 >gi|15618536|ref|NP_224822.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila pneumoniae CWL029] gi|33241983|ref|NP_876924.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila pneumoniae TW-183] gi|4376924|gb|AAD18765.1| RNA Polymerase Alpha [Chlamydophila pneumoniae CWL029] gi|33236493|gb|AAP98581.1| DNA-directed RNA polymerase alpha chain [Chlamydophila pneumoniae TW-183] Length = 374 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 125/355 (35%), Positives = 192/355 (54%), Gaps = 23/355 (6%) Query: 8 ELIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P ++ + + + IAEPL RG HTLGNALRR L+ L AI + + Sbjct: 12 KFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMT 71 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR---------- 109 GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 72 GVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAAN 131 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 G VT D+ D E +NPD VI + + + L ++ G GY P++ E+ + Sbjct: 132 GQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVY 191 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A +++IL Sbjct: 192 EIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFS 251 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDLIQ 286 +F N +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 252 IFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSNANIETIGELVI 311 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 312 MPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >gi|16752414|ref|NP_444673.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila pneumoniae AR39] gi|7189055|gb|AAF38004.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila pneumoniae AR39] Length = 391 Score = 282 bits (721), Expect = 6e-74, Method: Composition-based stats. Identities = 125/355 (35%), Positives = 192/355 (54%), Gaps = 23/355 (6%) Query: 8 ELIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P ++ + + + IAEPL RG HTLGNALRR L+ L AI + + Sbjct: 29 KFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMT 88 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR---------- 109 GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 89 GVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAAN 148 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 G VT D+ D E +NPD VI + + + L ++ G GY P++ E+ + Sbjct: 149 GQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVY 208 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A +++IL Sbjct: 209 EIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFS 268 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDLIQ 286 +F N +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 269 IFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSNANIETIGELVI 328 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 329 MPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 383 >gi|15836158|ref|NP_300682.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila pneumoniae J138] gi|12644496|sp|Q9Z7S8|RPOA_CHLPN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|8978998|dbj|BAA98833.1| RNA polymerase alpha [Chlamydophila pneumoniae J138] Length = 374 Score = 281 bits (720), Expect = 8e-74, Method: Composition-based stats. Identities = 125/355 (35%), Positives = 192/355 (54%), Gaps = 23/355 (6%) Query: 8 ELIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P ++ + + + IAEPL RG HTLGNALRR L+ L AI + + Sbjct: 12 KFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMT 71 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR---------- 109 GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 72 GVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAAN 131 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 G VT D+ D E +NPD VI + + + L ++ G GY P++ E+ + Sbjct: 132 GQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVY 191 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A +++IL Sbjct: 192 EIVLDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFS 251 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDLIQ 286 +F N +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 252 IFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSNANIETIGELVI 311 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 312 MPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >gi|313292052|gb|ADR51215.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|313292054|gb|ADR51216.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|313292056|gb|ADR51217.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|313292058|gb|ADR51218.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|313292060|gb|ADR51219.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|313292062|gb|ADR51220.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 258 Score = 281 bits (720), Expect = 8e-74, Method: Composition-based stats. Identities = 120/253 (47%), Positives = 170/253 (67%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED Sbjct: 6 DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 66 VAQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 126 SFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI ++++LA++I+ + L +F+N + K + + + L +E Sbjct: 186 TMEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 245 Query: 262 ELELSVRSTNCLR 274 EL+LSVRS NCL+ Sbjct: 246 ELDLSVRSYNCLK 258 >gi|153812445|ref|ZP_01965113.1| hypothetical protein RUMOBE_02844 [Ruminococcus obeum ATCC 29174] gi|149831370|gb|EDM86458.1| hypothetical protein RUMOBE_02844 [Ruminococcus obeum ATCC 29174] Length = 276 Score = 281 bits (720), Expect = 8e-74, Method: Composition-based stats. Identities = 114/271 (42%), Positives = 178/271 (65%), Gaps = 4/271 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFK 108 ++SSL GAA++ V+IDGVLHE SSI GV ED+++II+N+K + +K + + K I Sbjct: 1 MLSSLPGAAVSQVKIDGVLHEFSSIPGVKEDVSEIIMNLKSLAIKNNSADNEPKTAYIEC 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTEND 166 G GVVTA DIQ DIE++NPD VI L+ D + MELT+++G GYV A +T++ Sbjct: 61 EGKGVVTAADIQADQDIEIMNPDQVIATLNGGKDCRLAMELTITRGRGYVSADKGKTDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++ +DA+Y+P+ +V+ V++ R GQ+ DYDKL++ + T+G++ +++V+LA+++L + Sbjct: 121 PIGVLAVDAIYTPVDRVNMIVQNTRVGQITDYDKLTLDVYTNGTLDPDEAVSLAAKVLSE 180 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 L +FI+ E K + I + L ++ELELSVRS NCL+ I + +L Sbjct: 181 HLSLFIDLSENAKTAEVMIEKEDNEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELCN 240 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +T DM+++ N GRKSL E+ L +GL L Sbjct: 241 KTSDDMMKVRNLGRKSLEEVLAKLKELGLQL 271 >gi|78211905|ref|YP_380684.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CC9605] gi|119366745|sp|Q3AMQ3|RPOA_SYNSC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78196364|gb|ABB34129.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. CC9605] Length = 312 Score = 281 bits (720), Expect = 9e-74, Method: Composition-based stats. Identities = 99/305 (32%), Positives = 160/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V ++ + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQVADDRAQS-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + + + + GP V AGD+Q + ++V++ D Sbjct: 66 ATVPGVREDVLDILLNCKELTVNSRSAELEIGRLVVAGPAEVKAGDLQFSSQVQVVDTDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +EL V +G GY P H E I L+ IDA++ P+ +V++T++ Sbjct: 126 PIATVADGHSLELELHVERGVGYRPVDRHNEETSAIDLLQIDAVFMPVTRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M I TDGSIT ++++A ++ L + ++ E Sbjct: 186 AEGGSARERLRMEIVTDGSITPDEALAQSANQLIELFQPLATVTLVEEVPAEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|269302410|gb|ACZ32510.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila pneumoniae LPCoLN] Length = 374 Score = 281 bits (719), Expect = 9e-74, Method: Composition-based stats. Identities = 125/355 (35%), Positives = 192/355 (54%), Gaps = 23/355 (6%) Query: 8 ELIKPNNIEYIVLGQEE-ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + P ++ + + + IAEPL RG HTLGNALRR L+ L AI + + Sbjct: 12 KFELPEAVKMLPVEGLPIDKHARFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFAMT 71 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR---------- 109 GVLHE +I+GV ED+T+IILN+KG LK G + + + Sbjct: 72 GVLHEYMAIEGVIEDVTNIILNLKGALLKKYPMQDSSLGRTTQVLKASISIDASDLAAAN 131 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 G VT D+ D E +NPD VI + + + L ++ G GY P++ E+ + Sbjct: 132 GQKEVTLQDLLQEGDFEAVNPDQVIFTVTQPIQLEVVLRIAFGRGYTPSERIVLEDKGVY 191 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG +T ++++A +++IL Sbjct: 192 EIILDAAFSPVTLVNYFVEDTRVGQDTDFDRLVLIVETDGRVTPKEALAFSTQILTKHFS 251 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDLIQ 286 +F N +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L+ Sbjct: 252 IFENMDEKKIVFEEAISIEKENKDDILHKLILGINEIELSVRSTNCLSNANIETIGELVI 311 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 312 MPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLTQFGVGLDNVKEKMKWYAEK 366 >gi|157493279|gb|ABV58005.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|157493281|gb|ABV58006.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 268 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 119/271 (43%), Positives = 184/271 (67%), Gaps = 8/271 (2%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 60 Query: 93 NLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVS 150 +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V Sbjct: 61 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 120 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 RS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 238 RSANCLKAEAIHYIGDLVQRTEVELLKTPNL 268 >gi|110589176|gb|ABG77097.1| DNA-directed RNA polymerase alpha subunit [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 303 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 118/271 (43%), Positives = 177/271 (65%), Gaps = 4/271 (1%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + VLHE ++I+GV ED+ +I+LN+K + L M + + K+GPGVV+AGDI + Sbjct: 30 RFQDVLHEYTAIEGVQEDVLEILLNLKQVALVMHSRDEAVLRLQKKGPGVVSAGDITLDH 89 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPI 180 DIE+ NPD I L + M LTV +G GY P+ ++ E+ PIG++ +DA +SP+ Sbjct: 90 DIEIANPDLHIATLTKSGEINMTLTVKRGRGYQPSTARQSSAGEDRPIGMLQLDASFSPV 149 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y++ESAR Q + D+L + + TDG+I E+++ ++ IL+DQL +F++ E Sbjct: 150 RRVAYSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDL-EGGGA 208 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +P LL+ V++LEL+VRS NCL+ ENI +GDLIQRTE ++L+ N G+ Sbjct: 209 AEATAEPEEPMIDPILLRPVDDLELTVRSANCLKAENIFLIGDLIQRTEVELLKTPNLGK 268 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL GL LGM L WPPESI+E Sbjct: 269 KSLTEIKDVLARRGLSLGMRLEHWPPESIDE 299 >gi|328813989|gb|AEB52110.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 264 Score = 281 bits (719), Expect = 1e-73, Method: Composition-based stats. Identities = 123/266 (46%), Positives = 172/266 (64%), Gaps = 6/266 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN----IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EV Sbjct: 59 VLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y Sbjct: 119 LNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + Sbjct: 179 QVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMV 238 Query: 246 NVKSLPFNPALLKKVEELELSVRSTN 271 + L +EEL+LSVRS N Sbjct: 239 EKEETHKEKMLEMTIEELDLSVRSYN 264 >gi|283794999|ref|YP_003359390.1| RNA polymerase alpha subunit [Olea europaea] gi|330850774|ref|YP_004376452.1| RNA polymerase alpha subunit [Olea europaea subsp. europaea] gi|281428718|gb|ADA69957.1| RNA polymerase alpha subunit [Olea europaea] gi|291059284|gb|ADD72120.1| RNA polymerase alpha subunit [Olea europaea] gi|328795464|emb|CBR30346.1| RNA polymerase alpha subunit [Olea europaea subsp. europaea] Length = 337 Score = 281 bits (718), Expect = 1e-73, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 157/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + E+ I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESREDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSENV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 PHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY+ H N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIKRNRGYLIKMPH---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ A R L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEENLPLEDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ E S R NCL+ NI + DL+ + D+ Sbjct: 247 PLSPLTFHDKLDKLRKNKKKIALKSIFIDQSEFSPRVYNCLKRSNIYTLLDLLNNSPEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ + L +IK +L + ++LP Sbjct: 307 MKIEHL---RLEDIKQILVILEKHFAIDLPK 334 >gi|161511759|emb|CAP16890.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 265 Score = 281 bits (718), Expect = 1e-73, Method: Composition-based stats. Identities = 114/269 (42%), Positives = 170/269 (63%), Gaps = 6/269 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KP + E+ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVL Sbjct: 1 EKPKIHKV----DEKSNYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVL 56 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LN Sbjct: 57 HEFSTIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTV 187 P+ IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y V Sbjct: 117 PELPICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQV 176 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + Sbjct: 177 ENTRVGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEK 236 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGE 276 + L +EEL+LSVRS NCL+ Sbjct: 237 EETHKEKMLEMTIEELDLSVRSYNCLKRA 265 >gi|224532905|ref|ZP_03673517.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi WI91-23] gi|224512181|gb|EEF82570.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi WI91-23] Length = 344 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED +II NIK I+LK+ G+ K ++ G Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKLGEGEQRKTISFSVSG 120 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|325282668|ref|YP_004255209.1| DNA-directed RNA polymerase subunit alpha [Deinococcus proteolyticus MRP] gi|324314477|gb|ADY25592.1| DNA-directed RNA polymerase subunit alpha [Deinococcus proteolyticus MRP] Length = 328 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 112/315 (35%), Positives = 174/315 (55%), Gaps = 22/315 (6%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 E N + EPL RG+ T+GN +RR+LMSS++G A+T+V I+ VLHE S+I GV ED+ Sbjct: 13 EGNYGEFVLEPLKRGYGVTIGNPIRRILMSSIQGTAVTSVYIEDVLHEFSTIPGVKEDVI 72 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +ILN+K + +K K +T+ +G GV+ A D + +D E++NPD I NL + Sbjct: 73 RLILNLKELVVKFHAPGPKTLTLRAQGQGVIRASDFEVPSDAEIVNPDLEIANLADGGQL 132 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYVPA H T++ I I +DA+++P+++V+Y VE+ R G+ D DKL + Sbjct: 133 VMEVRVEEGEGYVPADKHATKDR-INSIPVDAMFNPVRRVAYHVENTRVGRQTDLDKLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEE-------------------PKKEVKED 244 I TDGS + +D + A IL+++L +F + EE P+ EV + Sbjct: 192 RIWTDGSASPQDVLDQAIDILREELLVFGSVEELEDSESSALDYTISAETVQPEAEVAPE 251 Query: 245 INVKSLPFNPALLKKV--EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + V E L L+ R + L+ E I + L ++ D+ ++ G +S Sbjct: 252 SAAPAEESVSSGEPSVSLEGLGLTTRVLHSLKEEGIDNVDALCALSDRDLKKVPGIGERS 311 Query: 303 LVEIKGVLGTMGLFL 317 L EIK L G L Sbjct: 312 LDEIKQQLAQFGKAL 326 >gi|46199602|ref|YP_005269.1| DNA-directed RNA polymerase subunit alpha [Thermus thermophilus HB27] gi|55981633|ref|YP_144930.1| DNA-directed RNA polymerase subunit alpha [Thermus thermophilus HB8] gi|7388103|sp|Q9Z9H6|RPOA_THETH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|61215969|sp|Q72I32|RPOA_THET2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|66773873|sp|Q5SHR6|RPOA_THET8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|7434691|pir||JE0397 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - Thermus aquaticus (strain HB8) gi|21730337|pdb|1IW7|A Chain A, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|21730338|pdb|1IW7|B Chain B, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|21730343|pdb|1IW7|K Chain K, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|21730344|pdb|1IW7|L Chain L, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution gi|49259055|pdb|1SMY|A Chain A, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|49259056|pdb|1SMY|B Chain B, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|49259061|pdb|1SMY|K Chain K, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|49259062|pdb|1SMY|L Chain L, Structural Basis For Transcription Regulation By Alarmone Ppgpp gi|78101157|pdb|1ZYR|A Chain A, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101158|pdb|1ZYR|B Chain B, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101163|pdb|1ZYR|K Chain K, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101164|pdb|1ZYR|L Chain L, Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Streptolydigin gi|78101219|pdb|2A68|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101220|pdb|2A68|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101225|pdb|2A68|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101226|pdb|2A68|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifabutin gi|78101231|pdb|2A69|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101232|pdb|2A69|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101237|pdb|2A69|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101238|pdb|2A69|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Rifapentin gi|78101243|pdb|2A6E|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101244|pdb|2A6E|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101249|pdb|2A6E|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101250|pdb|2A6E|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme gi|78101255|pdb|2A6H|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101256|pdb|2A6H|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101261|pdb|2A6H|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101262|pdb|2A6H|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Sterptolydigin gi|78101757|pdb|2CW0|A Chain A, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|78101758|pdb|2CW0|B Chain B, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|78101763|pdb|2CW0|K Chain K, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|78101764|pdb|2CW0|L Chain L, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme At 3.3 Angstroms Resolution gi|83754372|pdb|2BE5|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|83754373|pdb|2BE5|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|83754378|pdb|2BE5|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|83754379|pdb|2BE5|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Inhibitor Tagetitoxin gi|151567769|pdb|2O5I|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Elongation Complex gi|151567770|pdb|2O5I|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Elongation Complex gi|151567774|pdb|2O5I|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Elongation Complex gi|151567775|pdb|2O5I|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Elongation Complex gi|151567785|pdb|2O5J|A Chain A, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog gi|151567786|pdb|2O5J|B Chain B, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog gi|151567790|pdb|2O5J|K Chain K, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog gi|151567791|pdb|2O5J|L Chain L, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog gi|152149351|pdb|2PPB|A Chain A, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog And Antibiotic Streptolydigin gi|152149352|pdb|2PPB|B Chain B, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog And Antibiotic Streptolydigin gi|152149356|pdb|2PPB|K Chain K, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog And Antibiotic Streptolydigin gi|152149357|pdb|2PPB|L Chain L, Crystal Structure Of The T. Thermophilus Rnap Polymerase Elongation Complex With The Ntp Substrate Analog And Antibiotic Streptolydigin gi|209447473|pdb|3DXJ|A Chain A, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|209447474|pdb|3DXJ|B Chain B, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|209447479|pdb|3DXJ|K Chain K, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|209447480|pdb|3DXJ|L Chain L, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin gi|210061064|pdb|3EQL|A Chain A, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|210061065|pdb|3EQL|B Chain B, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|210061070|pdb|3EQL|K Chain K, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|210061071|pdb|3EQL|L Chain L, Crystal Structure Of The T. Thermophilus Rna Polymerase Holoenzyme In Complex With Antibiotic Myxopyronin gi|313754163|pdb|3AOH|A Chain A, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754164|pdb|3AOH|B Chain B, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754168|pdb|3AOH|F Chain F, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754169|pdb|3AOH|G Chain G, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754173|pdb|3AOH|K Chain K, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754174|pdb|3AOH|L Chain L, Rna Polymerase-Gfh1 Complex (Crystal Type 1) gi|313754183|pdb|3AOI|A Chain A, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|313754184|pdb|3AOI|B Chain B, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|313754188|pdb|3AOI|F Chain F, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|313754189|pdb|3AOI|G Chain G, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|313754193|pdb|3AOI|K Chain K, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|313754194|pdb|3AOI|L Chain L, Rna Polymerase-Gfh1 Complex (Crystal Type 2) gi|4519423|dbj|BAA75549.1| RNA polymerase alpha subunit [Thermus thermophilus] gi|46197228|gb|AAS81642.1| DNA-directed RNA polymerase alpha chain [Thermus thermophilus HB27] gi|55773046|dbj|BAD71487.1| DNA-directed RNA polymerase alpha chain [Thermus thermophilus HB8] Length = 315 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 111/305 (36%), Positives = 165/305 (54%), Gaps = 5/305 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + + EPL RGF TLGN LRR+L+SS+ G A+T+V I+ VLHE S+I Sbjct: 10 VFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSVYIEDVLHEFSTIP 69 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+ +IILN+K + ++ S + VT + GP V A D V D+E++NPD I Sbjct: 70 GVKEDVVEIILNLKELVVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPDLHI 129 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 L+ + ME+ V +G GYVPA+ H ++ I I +DA++SP+++V++ VE R GQ Sbjct: 130 ATLEEGGRLNMEVRVDRGVGYVPAEKHGIKDR-INAIPVDAVFSPVRRVAFQVEDTRLGQ 188 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKEVKEDINVKSLPF 252 D DKL++ I TDGS+T +++ A IL++ L F N + + Sbjct: 189 RTDLDKLTLRIWTDGSVTPLEALNQAVEILREHLTYFSNPQAAAVAAPEEAKEPEAPPEQ 248 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L +EEL LS R + L+ E I + L+ D+ + G +SL EIK L Sbjct: 249 EEELDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEALEK 308 Query: 313 MGLFL 317 G L Sbjct: 309 KGFTL 313 >gi|187918368|ref|YP_001883931.1| DNA-directed RNA polymerase subunit alpha [Borrelia hermsii DAH] gi|119861216|gb|AAX17011.1| DNA-directed RNA polymerase alpha chain [Borrelia hermsii DAH] Length = 344 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 119/333 (35%), Positives = 186/333 (55%), Gaps = 18/333 (5%) Query: 1 MIQ--KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 M+ K ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G Sbjct: 1 MMSLGKLLKDFTIPDRIEFLR-GEDDGSYGKFIIYPFEKGFGVTIGNTLRRVLLSSIEGY 59 Query: 59 AITAVQIDG--------VLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIF 107 AI+A++I V E I GV ED ++I NIK I+LK+ + V++ Sbjct: 60 AISAMRIQSNQGGSLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLDEGVKSATISVSVN 119 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 + V+ A ++ +EV N D VI L +A + E V G GYV ++H+ + Sbjct: 120 GKDTNVLKAVHLER-EGVEVCNKDLVIATLSSEANLDFEFQVDYGRGYVSSEHNAKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +D+++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ Sbjct: 179 VNTIALDSIFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L +NFE+ +D + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LLPLVNFEDKVVHSVDDSEFRDS---DILNMNIEKLNLSVRSLNCLTKENVKTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + ++ + NFG+KSL EI L GLFLGM+ Sbjct: 296 SAEELSKARNFGKKSLEEIVEKLSVYGLFLGMS 328 >gi|328813943|gb|AEB52087.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 250 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 112/250 (44%), Positives = 167/250 (66%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS 100 TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 1 TTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A Sbjct: 61 DKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQ 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA Sbjct: 121 NKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 ++IL + L +F+N + K + + + L +EEL+LSVRS NCL+ I Sbjct: 181 AKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINT 240 Query: 281 MGDLIQRTEA 290 + +L +TEA Sbjct: 241 VQELTNKTEA 250 >gi|313292020|gb|ADR51199.1| DNA-directed RNA polymerase alpha chain [Enterococcus viikkiensis] gi|313292022|gb|ADR51200.1| DNA-directed RNA polymerase alpha chain [Enterococcus viikkiensis] gi|313292024|gb|ADR51201.1| DNA-directed RNA polymerase alpha chain [Enterococcus viikkiensis] gi|313292026|gb|ADR51202.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292028|gb|ADR51203.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292030|gb|ADR51204.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292032|gb|ADR51205.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292034|gb|ADR51206.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292036|gb|ADR51207.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292038|gb|ADR51208.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] gi|313292040|gb|ADR51209.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] gi|313292042|gb|ADR51210.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 258 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 118/257 (45%), Positives = 169/257 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKG Sbjct: 2 ITKIDEDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + Sbjct: 62 VREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D Sbjct: 122 AEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDD 181 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + L Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 Query: 258 KKVEELELSVRSTNCLR 274 +EEL+LSVRS NCL+ Sbjct: 242 MTIEELDLSVRSYNCLK 258 >gi|218282150|ref|ZP_03488449.1| hypothetical protein EUBIFOR_01031 [Eubacterium biforme DSM 3989] gi|218216860|gb|EEC90398.1| hypothetical protein EUBIFOR_01031 [Eubacterium biforme DSM 3989] Length = 318 Score = 280 bits (717), Expect = 2e-73, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 175/312 (56%), Gaps = 8/312 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + + + + + EPL + LGNALRRVL+SS+ G AI +++IDGV HE Sbjct: 3 TKYKISTIEETTK-EGKFLFEPLEYRYGTPLGNALRRVLLSSIPGGAIFSIRIDGVYHEF 61 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHK--RVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 + IKGV ED+ IILN+K + L + ++ + I + GP V AGDI+ + VLN Sbjct: 62 TGIKGVKEDVASIILNLKQLILDIDIHDNEVYTLRIDQEGPKTVVAGDIECPTGVTVLNK 121 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPA----KHHRTENDPIGLITIDALYSPIKKVSYT 186 D IC L + MEL G G+V + + ++ E P+G+I D+LYSP+K VSY Sbjct: 122 DLPICTLSEGGSIHMELQARLGRGFVRSDVNKRMYQNEGQPLGIIYTDSLYSPVKNVSYV 181 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK-KEVKEDI 245 + YD L + I TD +I +++A+A++IL+D L + + +E + ++++ Sbjct: 182 ANPIKSEDGSMYDSLELEITTDETIKPSEALAVAAKILRDHLSILASVDEASLEVKEQEV 241 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 V P K +E+LELSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E Sbjct: 242 EVSEEPVVHTTHKMIEDLELSVRSYNCLKRAGIATVDELTQKTEEEMIHVRNLGKKSLQE 301 Query: 306 IKGVLGTMGLFL 317 +K + +GL Sbjct: 302 VKDKIKELGLSF 313 >gi|260434747|ref|ZP_05788717.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. WH 8109] gi|260412621|gb|EEX05917.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. WH 8109] Length = 312 Score = 280 bits (716), Expect = 2e-73, Method: Composition-based stats. Identities = 100/305 (32%), Positives = 161/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V ++ + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQVAEDRAQS-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K I++ + + GP V AGD+Q + ++V++ D Sbjct: 66 ATVPGVREDVLDILLNCKEISVNSRSAELQIGRLVVAGPAEVKAGDLQFSSQVQVVDADR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H E I L+ IDA++ P+ +V++T++ Sbjct: 126 SIATVADGHSLELEVHVERGVGYRPVDRHNEETSAIDLLQIDAVFMPVTRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M I TDGSIT +D++A ++ L + ++ E Sbjct: 186 AEGGSARERLRMEIVTDGSITPDDALAQSANQLIELFQPLATVTLVEEVPAEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|290489678|gb|ADD31223.1| RNA polymerase alpha subunit protein [Berberidopsis corallina] Length = 337 Score = 280 bits (716), Expect = 2e-73, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 160/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYRIKT---LNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKA 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TFPLFTFHDRLAKLRKNKKEIALKYIFIDQLELPPRIYNCLKRSNIHTLSDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHF---RIEDVKQILGILEKHFTIDLPK 334 >gi|317016847|gb|ADU85964.1| DNA-directed RNA polymerase alpha chain [Lactobacillus sp. 3.1.1] Length = 249 Score = 280 bits (716), Expect = 2e-73, Method: Composition-based stats. Identities = 118/249 (47%), Positives = 168/249 (67%), Gaps = 2/249 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVTEDVTAIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K I LK+S D K + I +GP VTAGDI D+EVLNPD IC + A M +T Sbjct: 61 KKIALKLSSDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLAICTVADGAHFHMRMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T Sbjct: 121 NTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +GSIT ++++L+++IL D L +F+N + K + + L +EEL+LSV Sbjct: 181 NGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDLSV 240 Query: 268 RSTNCLRGE 276 RS NCL+ Sbjct: 241 RSYNCLKRA 249 >gi|195941639|ref|ZP_03087021.1| DNA-directed RNA polymerase subunit alpha [Borrelia burgdorferi 80a] gi|221218042|ref|ZP_03589508.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 72a] gi|223889037|ref|ZP_03623628.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 64b] gi|224533576|ref|ZP_03674165.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi CA-11.2a] gi|225549661|ref|ZP_03770627.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 118a] gi|221191990|gb|EEE18211.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 72a] gi|223885853|gb|EEF56952.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 64b] gi|224513249|gb|EEF83611.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi CA-11.2a] gi|225369938|gb|EEG99385.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 118a] Length = 344 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED +II NIK I+LK+ G+ K ++ G Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKLGEGEQRKTISFSVSG 120 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|225544155|ref|YP_002720144.1| rpoA [Jatropha curcas] gi|224979596|gb|ACN72723.1| rpoA [Jatropha curcas] Length = 339 Score = 280 bits (716), Expect = 3e-73, Method: Composition-based stats. Identities = 85/334 (25%), Positives = 163/334 (48%), Gaps = 25/334 (7%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I +++ + +N I PL +G A T+G A+RR L+ + G IT + Sbjct: 8 ISTRTLQWKCVESRTDNKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKS 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + + HE S+I G+ E + +I++N+K + LK + +I+ +GPG VTA DI + Sbjct: 68 EKIPHEFSTIAGIQESIHEILMNLKNVVLKSNLYGTCDASIYVKGPGYVTAQDIILPPFV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + + GY T N G IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTESIDLCIGLQIERNRGYRIKP---TNNFQDGSYPIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 185 SVHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEINQ 243 Query: 246 NVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + +LP + +++ EL+ ++ NCL+ NI + DL+ +++ Sbjct: 244 HKVTLPLFTFHGRLTKLRKNQKEIALKYIFIDQSELTPKTYNCLKRSNIHTLSDLLNKSQ 303 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++++ NF + I G+L + ++LP Sbjct: 304 EDLMKIENFRIDDVKHILGIL-EIEKHFAIDLPK 336 >gi|15594847|ref|NP_212636.1| DNA-directed RNA polymerase subunit alpha [Borrelia burgdorferi B31] gi|3914813|sp|O51455|RPOA_BORBU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2688389|gb|AAC66840.1| DNA-directed RNA polymerase (rpoA) [Borrelia burgdorferi B31] Length = 345 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 3 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 61 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED +II NIK I+LK+ G+ K ++ G Sbjct: 62 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKLGEGEQRKTISFSVSG 121 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 KDTNVLKASHFERD-GVEVFNKDLVIATLSHDVNLDLEFQINYGRGYVSSEQNSKYLEEV 180 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 240 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 241 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 297 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 298 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 332 >gi|119953291|ref|YP_945500.1| DNA-directed RNA polymerase subunit alpha [Borrelia turicatae 91E135] gi|119862062|gb|AAX17830.1| DNA-directed RNA polymerase alpha chain [Borrelia turicatae 91E135] Length = 344 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 120/333 (36%), Positives = 188/333 (56%), Gaps = 18/333 (5%) Query: 1 MIQ--KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 M+ K ++ P+ IE++ G+++ + I P +GF T+GN LRRVL+SS+ G Sbjct: 1 MMSLGKLLKDFTIPDRIEFVR-GEDDSSYGKFIMYPFEKGFGVTIGNTLRRVLLSSIEGY 59 Query: 59 AITAVQIDG--------VLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIF 107 AI+A++I V E I GV ED ++I NIK I+LK+ + +++ Sbjct: 60 AISAMRIQSNQGGSLKIVSSEFDLIPGVVEDTLEVIANIKNIHLKLDEGVNSTTISLSVN 119 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 + V+ A ++ +EV N D VI L +A + E ++ G GYV ++ + + Sbjct: 120 GKDTNVLKAVHLER-EGVEVFNKDLVIATLSSEANLDFEFQINYGRGYVSSEQNAKYLEE 178 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +D+++SPI+KV+Y+VE R GQ DYDKL M I T G I+ +D++ A+ I++D Sbjct: 179 VNTIALDSIFSPIEKVTYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVRDF 238 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 L +NFE+ V + L + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 239 LLPLVNFEDK---VVHSVENSELRDSDILSINIEKLNLSVRSLNCLTKENVKTLGELISK 295 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 + D+ + NFG+KSL EI L T GLFLGM+ Sbjct: 296 SAEDLSKARNFGKKSLEEIIEKLNTYGLFLGMS 328 >gi|224534741|ref|ZP_03675313.1| DNA-directed RNA polymerase, alpha subunit [Borrelia spielmanii A14S] gi|224513989|gb|EEF84311.1| DNA-directed RNA polymerase, alpha subunit [Borrelia spielmanii A14S] Length = 344 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 120/334 (35%), Positives = 186/334 (55%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K ++ P IE++ Q++ + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VEKFLKDFTIPEKIEFLK-SQDDGSYGKFTIYPFERGFGVTIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 +++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 TMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLREGEQRKIISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L DA + E ++ G GYV ++ + + + Sbjct: 122 DTNVLKASHFEMD-GVEVFNKDLVIATLSHDANLDFEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSYTVE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYTVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAALIVREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V ++ + L +E+L+LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---SVNTSVDKSKSENSNLLDMGIEKLDLSVRSLNCLAKENVKTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ LFLGM+ D Sbjct: 298 DELSKARNFGKKSLEEIIEKLGSYRLFLGMSKED 331 >gi|216264217|ref|ZP_03436209.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 156a] gi|218249615|ref|YP_002375012.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi ZS7] gi|226320983|ref|ZP_03796528.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 29805] gi|226321812|ref|ZP_03797338.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi Bol26] gi|215980690|gb|EEC21497.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 156a] gi|218164803|gb|ACK74864.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi ZS7] gi|226233001|gb|EEH31754.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi Bol26] gi|226233584|gb|EEH32320.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi 29805] gi|312149000|gb|ADQ29071.1| DNA-directed RNA polymerase, alpha subunit [Borrelia burgdorferi N40] Length = 344 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 119/335 (35%), Positives = 184/335 (54%), Gaps = 17/335 (5%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 +++K ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AI Sbjct: 2 LVEKFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAI 60 Query: 61 TAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRG 110 TA+++ V E I GV ED +II NIK I+LK+ G+ K ++ G Sbjct: 61 TAMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEIIANIKNIHLKLGEGEQKKTISFSVSG 120 Query: 111 P--GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 121 KDTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEV 179 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 180 NVIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFL 239 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 240 FPLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKN 296 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 297 AEELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|290489670|gb|ADD31219.1| RNA polymerase alpha subunit protein [Nerium oleander] Length = 337 Score = 279 bits (715), Expect = 3e-73, Method: Composition-based stats. Identities = 88/331 (26%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + E I PL +G A T+G A+RR L+ + G IT V+ D V Sbjct: 11 RTLQWKCVESRTESKRLYYGRFILSPLLKGQADTIGIAMRRALLGEIEGTCITRVKFDKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+IKG+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 PHEYSTIKGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIVLPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLMEPINLCIGLQIERNRGY---LIQTPQNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENSHLENNQHAV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLFPFIFHDKLTKLIKNKKEIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +L + L + LP Sbjct: 307 MKIEHF---RIEDVKQILVILEKHLAIFLPK 334 >gi|165910447|gb|ABY73978.1| RNA polymerase alpha subunit [Cuscuta japonica] Length = 332 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 83/327 (25%), Positives = 157/327 (48%), Gaps = 26/327 (7%) Query: 14 NIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 +E+ + + I PL +G A T+G ALRR L++ + G IT V+ Sbjct: 12 KLEWECVESRTDSKRLYYGRFILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANAS 71 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E+++ Sbjct: 72 HEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISFKGPGYVTAEDIILPPHVEIVD 131 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I L + + L + + GY H E+ G IDA++ P++ ++++ S Sbjct: 132 STQHIAWLTEPIDLCIGLKIERNRGYFIKTHANFED---GSYPIDAVFMPVQNANHSIHS 188 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + + L + I T+GS+T ++++ ASR L D F++ E+ +++ + Sbjct: 189 YGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEKENLPLEDADHTIP 245 Query: 250 LPFNPALLK-------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 L K +++LE + NCL+ NI + DL+ ++ D++++ Sbjct: 246 LSPFTVYYKVAKNKKKLSLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKIE 305 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +F L ++K +L +G ++LP Sbjct: 306 HF---RLEDVKQILAILGKHFALDLPK 329 >gi|260656838|gb|ACX47809.1| RNA polymerase alpha-subunit [Vibrio casei] Length = 275 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 120/277 (43%), Positives = 181/277 (65%), Gaps = 8/277 (2%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I Sbjct: 2 THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEI 61 Query: 86 ILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVV 143 +LN+KG+ + G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + Sbjct: 62 LLNLKGLAVSVAEGKDEVFITLKKSGSGPVVAGDIIHDGDVEIANPEHVICHLTDDKAEI 121 Query: 144 RMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 M + V +G GYVP+ H + PIG + +DA YSP+ K++Y VE+AR Q D DK Sbjct: 122 AMRIKVQRGRGYVPSSARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDK 181 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V Sbjct: 182 LVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPV 238 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 ++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N Sbjct: 239 DDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPN 275 >gi|161511757|emb|CAP16889.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 263 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 111/264 (42%), Positives = 169/264 (64%), Gaps = 3/264 (1%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + + ++ N + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQIDGVLHE S Sbjct: 1 KPKIHKVDEKS-NYGRFVVEPLERGYGTTLGNSLRRILLSSLPGAALTSVQIDGVLHEFS 59 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 +I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 60 TIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELP 119 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAR 191 IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 120 ICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTR 179 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + + Sbjct: 180 VGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKEETH 239 Query: 252 FNPALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 240 KEKMLEMTIEELDLSVRSYNCLKR 263 >gi|161511769|emb|CAP16895.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 262 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 116/261 (44%), Positives = 165/261 (63%), Gaps = 2/261 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+ Sbjct: 2 KIHKIDENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIE 61 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC Sbjct: 62 GVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICT 121 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + LT G GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 122 VAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQ 181 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + Sbjct: 182 RDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEK 241 Query: 255 ALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 242 MLEMTIEELDLSVRSYNCLKR 262 >gi|156597913|gb|ABU85224.1| RNA polymerase alpha subunit [Anethum graveolens] Length = 338 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 86/332 (25%), Positives = 159/332 (47%), Gaps = 26/332 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + +N I PL +G A T+G A+RR L+ + G IT + + Sbjct: 11 RTLQWKCVESKADNKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSKKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + DI++N+K I L+ + +I RGPG VTA DI +EV+ Sbjct: 71 PHEYSTLVGIQESVHDILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ PI+ ++++ Sbjct: 131 DNTQHIASLTEPIELHIGLQIERSRGY--LIKTPNNNFQDGSYPIDAVFMPIRNANHSIH 188 Query: 189 SAREGQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 S G D + L + I T+GS+T ++++ ASR L D F++ EE + ++ ++ Sbjct: 189 SYGNGNGNDKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLADNQHM 248 Query: 248 KSLPFNPALL----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP +++ EL R NCL+ NI + DL+ ++ D Sbjct: 249 VPLPPFTFHDNLDKLRKNKKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQED 308 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++++ +F + ++K +LG + ++LP Sbjct: 309 LMKIEHF---RINDVKQILGILEKHFSIDLPK 337 >gi|227871774|ref|ZP_03990179.1| DNA-directed RNA polymerase [Oribacterium sinus F0268] gi|227842375|gb|EEJ52600.1| DNA-directed RNA polymerase [Oribacterium sinus F0268] Length = 314 Score = 279 bits (714), Expect = 4e-73, Method: Composition-based stats. Identities = 97/311 (31%), Positives = 174/311 (55%), Gaps = 5/311 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + KPN IE + + E++ + EPL RG+ TLGN+LRR+++SSL GAAI+A++I+ Sbjct: 3 DFTKPN-IEILEI-SEDKRFGRFVCEPLERGYGSTLGNSLRRMMLSSLPGAAISAIKIEN 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + G+ E +++ N+K I + + + V++ G + A D ++++ Sbjct: 61 LSG--DKVSGIQESFPELLTNLKSIAVILPEEVESLEVSVDLSGKSEILAEDFIGESELK 118 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + NP I ++ A + L +S+G GY K P IDALY+P+++V+ + Sbjct: 119 LSNPTEHIATVEAGAQGSISLFISRGQGYSGEKAEGRVEAPKEYQDIDALYTPVERVNMS 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ R G + DYD+L++ + T+GS++ ED+++ A+++L L +F+ E + ++ Sbjct: 179 IENTRVGNMTDYDRLTLDVYTNGSMSPEDAISKAAQMLFQHLDLFVALSEEVAATELMVD 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + ++ELELSVRS NCL+ I + +L +T DM+++ N GRKSL E+ Sbjct: 239 KPEDEKGKVMEMNIDELELSVRSYNCLKRAGINTVSELTSKTPEDMMKVRNLGRKSLEEV 298 Query: 307 KGVLGTMGLFL 317 L + L L Sbjct: 299 LAKLRDLNLGL 309 >gi|313847669|emb|CBY16657.1| putative DNA-directed RNA polymerase alpha chain [Chlamydophila psittaci RD1] gi|325506783|gb|ADZ18421.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila psittaci 6BC] gi|328914306|gb|AEB55139.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila psittaci 6BC] Length = 376 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 123/357 (34%), Positives = 192/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + + + IAEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPESVKMMAVEGSGGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS----GDSHKRVTIFKR----------- 109 + GVLHE +I G+ ED+T+IILN+KG LK ++ + + K Sbjct: 72 MTGVLHEYMAINGIIEDVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAA 131 Query: 110 --GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G VT D+ E +NPDHVI + + + L V+ G GY ++ E+ Sbjct: 132 CGGQKAVTLADLLQEGGFESVNPDHVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKG 191 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL Sbjct: 192 VNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKH 251 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDL 284 +F +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L Sbjct: 252 FSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGEL 311 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 312 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 368 >gi|33241138|ref|NP_876080.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus subsp. marinus str. CCMP1375] gi|41688642|sp|Q7V9Y5|RPOA_PROMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33238668|gb|AAQ00733.1| DNA-directed RNA polymerase alpha subunit/40 kD subunit [Prochlorococcus marinus subsp. marinus str. CCMP1375] Length = 312 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 100/305 (32%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + + + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE Sbjct: 7 DRIEHQVSDDRSQT-GIFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K + + + + GP V A D+Q + +++++ D Sbjct: 66 ATVPGVREDVLDILLNCKELTVNSRSQELEIGRLVVTGPAEVKARDLQFSSQVQIVDVDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +EL V +G GY P I L+ IDA++ P+KKV++T++ Sbjct: 126 PIATVHSGHSLELELHVERGVGYRPVDRRNEATTAIDLLQIDAVFMPVKKVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M I TDGSIT +D+VA A+ L + ++ +E Sbjct: 186 SEGGSTRERLRMEIVTDGSITPDDAVAEAANQLIELFQPLATVTMVEEVPQEPEPTAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|315134694|dbj|BAJ41855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus ozensis] Length = 264 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 120/262 (45%), Positives = 171/262 (65%), Gaps = 4/262 (1%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E +N ++ EPL RG+ TLGN+LRR+L+SSL GAA+T++QID VLHE S++KG Sbjct: 3 IHKIDETDNYGEVVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDDVLHEFSTVKG 62 Query: 78 VHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V ED+ IILN+K I+LK+ D K + I GP VTAGDIQ D+ VLNPD IC Sbjct: 63 VVEDVAQIILNVKKISLKLDIADDEEKSMEINVTGPAQVTAGDIQADGDVTVLNPDLKIC 122 Query: 136 NLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 + A M +T +KG GYV A R + PIG++ +D++Y+PI++V+Y VE+AR G Sbjct: 123 TVAEGATFHMRMTANKGRGYVSADENKARNDGMPIGVLPVDSIYTPIERVNYQVENARVG 182 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D+DKL++ + TDGSIT ++V+LA++IL + L MF++ + K + + + Sbjct: 183 QRADFDKLTLDVWTDGSITPSEAVSLAAKILSEHLSMFVDLTDEAKNAEVMVEKEETHKE 242 Query: 254 PALLKKVEELELSVRSTNCLRG 275 L +EEL+LSVRS NCL+ Sbjct: 243 KMLEMTIEELDLSVRSYNCLKR 264 >gi|290489662|gb|ADD31215.1| RNA polymerase alpha subunit protein [Ilex cornuta] Length = 337 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VT DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTTQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY+ N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYLIKT---PNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYRNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDNQHTI 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++LEL R NCL+ NI + DL+ + D+ Sbjct: 247 PLPPFNFHDKLAKLRKNKKKIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNVQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHF---RIEDVKQILGVLEKHFAIDLPK 334 >gi|328813961|gb|AEB52096.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 248 Score = 279 bits (713), Expect = 5e-73, Method: Composition-based stats. Identities = 111/248 (44%), Positives = 166/248 (66%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 1 TLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDED 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A + Sbjct: 61 KNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA+ Sbjct: 121 KSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 +IL + L +F+N + K + + + L +EEL+LSVRS NCL+ I + Sbjct: 181 KILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTV 240 Query: 282 GDLIQRTE 289 +L +TE Sbjct: 241 QELTNKTE 248 >gi|225552463|ref|ZP_03773403.1| DNA-directed RNA polymerase, alpha subunit [Borrelia sp. SV1] gi|225371461|gb|EEH00891.1| DNA-directed RNA polymerase, alpha subunit [Borrelia sp. SV1] Length = 344 Score = 278 bits (712), Expect = 6e-73, Method: Composition-based stats. Identities = 117/334 (35%), Positives = 182/334 (54%), Gaps = 17/334 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++ ++ P IE++ Q + + P RGF T+GN LRRVL+SS+ G AIT Sbjct: 3 VENFLKDFTIPEKIEFLK-SQGDGSYGKFTIYPFERGFGITIGNTLRRVLLSSIEGYAIT 61 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGP 111 A+++ V E I GV ED ++I NIK I+LK+ G+ K ++ G Sbjct: 62 AMRVQSNNKDSSSKVVSSEFDLIPGVSEDTLEVIANIKNIHLKLGEGEQKKTISFSVSGK 121 Query: 112 --GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V+ A + +EV N D VI L D + +E ++ G GYV ++ + + + Sbjct: 122 DTNVLKASHFERD-GVEVFNKDLVIATLSRDVNLDLEFQINYGRGYVSSEQNSKYLEEVN 180 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+++SPI+KVSY+VE R GQ DYDKL M I T G I+ +D++ A+ I+++ L Sbjct: 181 VIALDSIFSPIEKVSYSVEDTRVGQRSDYDKLVMEIWTTGVISAKDAIKKAASIVREFLF 240 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++FE+ V + L +E+L LSVRS NCL EN+ +G+LI + Sbjct: 241 PLVDFED---NVNTSFEKSKSESSNLLDMSIEKLNLSVRSLNCLAKENVRTLGELISKNA 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ + NFG+KSL EI LG+ L+LGM+ D Sbjct: 298 EELSKARNFGKKSLEEIIEKLGSYRLYLGMSKED 331 >gi|149390571|ref|YP_001294216.1| RNA polymerase alpha subunit [Buxus microphylla] gi|172048681|sp|A6MM68|RPOA_BUXMI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|146762316|gb|ABQ45280.1| RNA polymerase alpha subunit [Buxus microphylla] Length = 337 Score = 278 bits (712), Expect = 7e-73, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + +N I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADNKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITCAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +E++ Sbjct: 71 PHEYSNIVGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPRHVTAQDIISPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIGLQIERNRGY---NMKTPKNSQDGRYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ E +K++ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHANEENFILKDNQNKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 ALPLFTFHDRLAKQRKNKKEISFQCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHF---RIEDVKQILGILQKHFAIDLPK 334 >gi|290489702|gb|ADD31235.1| RNA polymerase alpha subunit protein [Trochodendron aralioides] Length = 337 Score = 278 bits (712), Expect = 8e-73, Method: Composition-based stats. Identities = 86/329 (26%), Positives = 163/329 (49%), Gaps = 27/329 (8%) Query: 15 IEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +++ + + I PL +G A T+G A+RR L+ + G IT + + + H Sbjct: 13 LQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + +I+LN+K I L+ + +I RGPG VTA DI + +E+++ Sbjct: 73 EYSTIVGIEESVQEILLNLKEIVLRSNLYGTLDASICVRGPGYVTAQDIISPPSVEIVDA 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I +L + + L + + GY + N G IDA++ P++ S+++ S Sbjct: 133 TQHIASLTEPIDLCIGLQIERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNASHSIHSY 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G + L + I T+GS+T ++++ ASR L D F++ EE +++++ N SL Sbjct: 190 GNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEESIKLEDNQNGISL 248 Query: 251 PFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 PF + +++ EL R+ NCL+ NI + DL+ ++ D+++ Sbjct: 249 PFFAFHDRLANLKKKKKEIAFKCIFIDQSELPPRTYNCLKRSNIYTLLDLLNNSQEDLMK 308 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + +F + ++K +L + ++LP Sbjct: 309 IDHF---HIEDVKQILDILQKHFSIDLPK 334 >gi|159904196|ref|YP_001551540.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9211] gi|159889372|gb|ABX09586.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. MIT 9211] Length = 312 Score = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 99/299 (33%), Positives = 156/299 (52%), Gaps = 7/299 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + L + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE ++I GV Sbjct: 12 QISDDRSQTGLFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGVNHEYATIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D I + Sbjct: 72 REDVLDILLNCKQLSVNSRSPELEIGRLVVNGPAEVKARDVQFSSQVQVVDGDRPIATVH 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE-GQVLD 197 + +EL V +G GY P H E I L+ IDA++ PIKKV++ ++ Sbjct: 132 SGHSLELELHVERGVGYRPVDRHNEETTSIDLLHIDAVFMPIKKVNFNIDETAVAEGGST 191 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++L M I TDGS++ +D++A A+ L + ++ +E Sbjct: 192 RERLKMEIVTDGSMSPDDALAEAANQLIELFQPLATVTMVEEIPQEPEPSAEAQI----- 246 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 247 -PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGIS 304 >gi|332144664|dbj|BAK19492.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12363] Length = 251 Score = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 107/251 (42%), Positives = 162/251 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE +++ G Sbjct: 1 ITKVDEGTNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFTTVDG 60 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK + LK+ D K V I +GP VTA DI D+EVLNP+ IC + Sbjct: 61 VLEDVTQIILNIKKLALKLLTDDDKTVEIDVQGPATVTAADIVADGDVEVLNPEQYICTV 120 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + +T+ KG GYV A ++ ++ PIG++ ID++++PI +V+Y VES R G+ D Sbjct: 121 AEGGHFHVRMTIKKGRGYVAADQNKVDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRND 180 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL++ + T+GSI ++++LA++IL + L +F+N + K + + + L Sbjct: 181 FDKLTLDVWTNGSINPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 240 Query: 258 KKVEELELSVR 268 +EEL+LSVR Sbjct: 241 MTIEELDLSVR 251 >gi|90110835|sp|Q49CA2|RPOA_CUSJA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|66876488|gb|AAY58033.1| RpoA [Cuscuta japonica] Length = 332 Score = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 82/328 (25%), Positives = 157/328 (47%), Gaps = 26/328 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G ALRR L++ + G IT V+ Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANA 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 SHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISFKGPGYVTAEDIILPPHVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY H E+ G IDA++ P++ ++++ Sbjct: 131 DSTQHIAWLTEPIDLCIGLKIERNRGYFIKTHANFED---GSYPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ E+ +++ + Sbjct: 188 SYGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEKENLPLEDADHTI 244 Query: 249 SLPFNPALLK-------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 L K +++LE + NCL+ NI + DL+ ++ D++++ Sbjct: 245 PLSPFTVYYKVAKNKKKLSLESLFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDLIKI 304 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +F L ++K +L +G ++LP Sbjct: 305 EHF---RLEDVKQILAILGKHFALDLPK 329 >gi|290489654|gb|ADD31211.1| RNA polymerase alpha subunit protein [Antirrhinum majus] Length = 336 Score = 278 bits (711), Expect = 8e-73, Method: Composition-based stats. Identities = 87/330 (26%), Positives = 162/330 (49%), Gaps = 26/330 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 PHEYSTITGIQESVHEILMNLKEIVLRTNLYGTCDASICARGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ H N G +IDA++ P++ V++++ Sbjct: 131 DNTQHIASLTEPINFCIGLEIERNRGYLIKMPH---NFQDGSYSIDAVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + ++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHKEEENLPLDDNQHTI 246 Query: 249 SLPFNPALLK---------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 L K +++ ELS R+ NCL+ NI + DL+ ++ D++ Sbjct: 247 PLSPFSFHDKLDKLRKNKKIALKSIFIDQSELSPRAYNCLKRSNIYTLFDLLNNSQEDLM 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F L ++K +LG + ++LP Sbjct: 307 KIEHF---RLKDVKEILGILEKHFAIDLPK 333 >gi|294669850|ref|ZP_06734909.1| hypothetical protein NEIELOOT_01743 [Neisseria elongata subsp. glycolytica ATCC 29315] gi|291308243|gb|EFE49486.1| hypothetical protein NEIELOOT_01743 [Neisseria elongata subsp. glycolytica ATCC 29315] Length = 277 Score = 278 bits (711), Expect = 9e-73, Method: Composition-based stats. Identities = 126/279 (45%), Positives = 182/279 (65%), Gaps = 5/279 (1%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G A T V I GVLHE S++ G+ ED+ D++LNIKGI K+ G + R+ + K G GVV Sbjct: 1 MDGFAPTEVSITGVLHEYSTLDGIQEDVVDVLLNIKGIIFKLHGRNEVRLRLKKSGSGVV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--IT 172 A DI+ +D EV+NP+H+IC+L +A + ME+ V KG GY + + + I Sbjct: 61 LASDIELPHDAEVINPNHIICHLSDNADIEMEIKVEKGRGYQSVVGRKKSGNENNIGSIQ 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +DA +SPI +VS+ VE AR Q D D+L + I+TDGS+ E++V A+RIL DQ+ +F Sbjct: 121 LDASFSPIARVSFDVEPARVEQRTDLDRLVLDIETDGSLEPEEAVRSAARILIDQMAVFA 180 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + + E++ + P +P LL+ V++LEL+VRS NCL+ E+I Y+GDLIQRTE ++ Sbjct: 181 ---DLQGTPVEEVEEVAPPIDPILLRPVDDLELTVRSANCLKAEDIYYIGDLIQRTETEL 237 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ N GRKSL EIK VL + GL LG L WPP ++E+ Sbjct: 238 LKTPNLGRKSLNEIKEVLASKGLTLGSKLEAWPPVNLEK 276 >gi|15807122|ref|NP_295851.1| DNA-directed RNA polymerase subunit alpha [Deinococcus radiodurans R1] gi|12230608|sp|Q9RSJ6|RPOA_DEIRA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|6459926|gb|AAF11678.1|AE002047_11 DNA-directed RNA polymerase, alpha subunit [Deinococcus radiodurans R1] Length = 341 Score = 278 bits (711), Expect = 1e-72, Method: Composition-based stats. Identities = 111/328 (33%), Positives = 171/328 (52%), Gaps = 35/328 (10%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + + + EPL RG+ T+GN +RR+LMSS+ G A+T+V I+ VLHE S+I GV ED+ Sbjct: 13 DGDYGEFVLEPLARGYGVTIGNPIRRILMSSIPGTAVTSVYIEDVLHEFSTIPGVREDVI 72 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +ILN+K + +K K +T+ +G G V A + D E++NPD VI NL D + Sbjct: 73 RLILNLKELVVKFHAPGPKTLTLRAQGEGEVRASAFEVPTDAEIVNPDLVIANLAEDGKL 132 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYV A H T++ I I +DA++SP+++V+Y VE+ R GQ D D+L + Sbjct: 133 VMEVRVEEGEGYVSADKHATKDR-INSIPVDAMFSPVRRVAYHVENTRVGQQTDLDRLIL 191 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFE-EPKKEVKEDINVKSLPFNPALLK---- 258 + TDGS ++++ A IL+D+L +F N E P E + ++PA Sbjct: 192 RVWTDGSAGPQEALDKAVEILRDELSVFGNVEPMPALESSYAAATPAAVYDPATATLPAS 251 Query: 259 -----------------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +E L L+ R + L+ E I + L ++ Sbjct: 252 VYDSPRQPDLGSLSINPQPFPTDQDTPRVTLEGLGLTTRVLHSLKEEGIDSVDALCALSD 311 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 D+ ++ G +SL EIK L GL L Sbjct: 312 RDLKKVPGIGERSLDEIKQQLAQFGLAL 339 >gi|239618237|ref|YP_002941559.1| DNA-directed RNA polymerase, alpha subunit [Kosmotoga olearia TBF 19.5.1] gi|239507068|gb|ACR80555.1| DNA-directed RNA polymerase, alpha subunit [Kosmotoga olearia TBF 19.5.1] Length = 346 Score = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 114/317 (35%), Positives = 175/317 (55%), Gaps = 23/317 (7%) Query: 9 LIKPNNIEYIVL-GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + P +++ ++ + P+ RG+A T+GNALRRVL+SS+ AIT ++I G Sbjct: 12 FVMPKSLKIEEEREEQNSYYAKFVLSPMERGYAVTIGNALRRVLLSSIPSMAITRLKIPG 71 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 HE +I GV ED+ +IILN+K + LK + +++I K+GP ++TAGDI+ + Sbjct: 72 KYHEYDTIDGVKEDILEIILNLKKVQLKPALEFSDPVKLSIEKKGPAILTAGDIKAPTGV 131 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 EV+NP I L+ DA V MEL G G+VP E + +I ID ++SP+ KV++ Sbjct: 132 EVVNPSQYIATLNEDAAVYMELFAEIGKGFVPVSEMELE-QDVEMIYIDGIFSPVLKVNF 190 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-------------- 231 E+ R G+ DYDKL + + T SI +++ A+ IL + Sbjct: 191 ISENVRVGKKTDYDKLILEVWTKKSIKPTEALLKATDILIKHFEVTTSSLNQVLDNSGIL 250 Query: 232 -----INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 I E + +E + + L +++EELELSVRS NCL+ + I +GDLI Sbjct: 251 VNSASIFEPEEPQPEEEPVEEPISEEDSVLSRRIEELELSVRSLNCLKRDKINTIGDLIS 310 Query: 287 RTEADMLRMANFGRKSL 303 RTEAD+L++ NFG KS+ Sbjct: 311 RTEADLLKIRNFGDKSM 327 >gi|299830399|ref|YP_003734614.1| RNA polymerase alpha subunit [Kryptoperidinium foliaceum] gi|297385101|gb|ADI40399.1| RNA polymerase alpha subunit [Kryptoperidinium foliaceum] Length = 311 Score = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 93/300 (31%), Positives = 157/300 (52%), Gaps = 4/300 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + + L G T+GN LRRVL++ L G AI+AV+I GV HE S+I GV ED Sbjct: 15 ESGACHGQFLIQTLRPGQGITIGNQLRRVLLNDLGGVAISAVRIAGVSHEFSTIPGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+K I L+ + + + +GP VVTA IQ + +E++NP+ I + Sbjct: 75 ILEILLNLKEIVLRSKTQTPQFGRLKIQGPAVVTADLIQLPSTVEIVNPNQYIMTISTSN 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ++ +E G GY A E + + +DA++ PI+KV + +E+ + ++L Sbjct: 135 ILEIEFKFDYGTGYRLASQTFLEENE-NYLQLDAIFMPIQKVDFKIENVYDKANNITERL 193 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI+ +++ A++I D + ++ + ++ P +E Sbjct: 194 FLDIWTNGSISPTEAMKSAAQITIDVFTSLLENKDTNSSNEVPSKTSAISLEPYTNIAIE 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL+LSVR+ NCL+ I +GDL+ + + + NFGRKS E+ L LG+ L Sbjct: 254 ELQLSVRAYNCLKKAQINTVGDLLHYSPEKLQELKNFGRKSADEVFSTLKNK---LGIIL 310 >gi|148238747|ref|YP_001224134.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. WH 7803] gi|158513313|sp|A5GIS2|RPOA_SYNPW RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|147847286|emb|CAK22837.1| DNA-directed RNA polymerase alpha chain [Synechococcus sp. WH 7803] Length = 312 Score = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 97/305 (31%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGN+LRRVLM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRSQT-GVFLIGPLERGQATTLGNSLRRVLMGNLEGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K I + + + GP V A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQITVNSRTSELEIGRLVVAGPATVKARDLQFSSQVQVVDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ Sbjct: 126 AIATVGEGYSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGSIT +D++A A+ L + ++ E Sbjct: 186 AEGGSARERLRMEVVTDGSITPDDAIAQAANQLIELFQPLATVTMVEEVSAEPEPTAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIQ 304 >gi|283794918|ref|YP_003359271.1| RNA polymerase alpha subunit [Cryptomonas paramecium] gi|253981890|gb|ACT46807.1| RNA polymerase alpha subunit [Cryptomonas paramecium] Length = 310 Score = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 96/308 (31%), Positives = 164/308 (53%), Gaps = 11/308 (3%) Query: 15 IEYIVLGQEE----ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +E + E +PL G T+GNALRRVL+S L G AIT+ ++ G +H Sbjct: 4 LEIKYIESETYTNTSYYGRFTFQPLKLGQGLTIGNALRRVLLSDLEGIAITSARVSGSVH 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S I G ED+ +I+LN+K I LK S + +GP +VTA D + + ++ ++P Sbjct: 64 EFSEIPGTREDVLEILLNLKKIVLKGSSKDAGIARLKVQGPCIVTASDFELPSFVKAVDP 123 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I + V+ +E+++S G GY ++ + + +DA++ P+ KV+YT+E Sbjct: 124 SQYIATICDSNVLEIEVSISAGRGYKLVNR-QSLDSGKDSLELDAVFMPVNKVNYTIEEI 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + +KL++ I T+GS+T E+S+ A+ +L D L + + ++ + + Sbjct: 183 NTDFPIAEEKLTLEIWTNGSLTPEESLMQAATVLTDILAPI-----QRIHLTDEEDFPAD 237 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +E+L+LSVR+ NCL+ NI Y DL+ R++ ++L + NFG+K E+ L Sbjct: 238 KEPEVKNLPIEDLKLSVRAYNCLKQINIDYTEDLLTRSQEELLEIKNFGKKCCEEVTQAL 297 Query: 311 GTM-GLFL 317 + GL L Sbjct: 298 KNIVGLTL 305 >gi|254495738|ref|ZP_05108652.1| DNA-directed RNA polymerase subunit alpha [Legionella drancourtii LLAP12] gi|254355016|gb|EET13637.1| DNA-directed RNA polymerase subunit alpha [Legionella drancourtii LLAP12] Length = 280 Score = 278 bits (710), Expect = 1e-72, Method: Composition-based stats. Identities = 123/283 (43%), Positives = 183/283 (64%), Gaps = 9/283 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + G+AIT IDGVLHE S+I+GV ED+ D++LN+K + +K++ +VT+ K+GP V Sbjct: 1 MPGSAITEASIDGVLHEYSTIEGVQEDVVDLLLNLKLVAIKLTTGEEAQVTLSKQGPCQV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------RTENDPI 168 TAGDIQ + ++V+NP+ VI NL+ + M L V +G G+ E + Sbjct: 61 TAGDIQLTHGVDVVNPELVIANLNEKGKLNMTLKVERGIGFHSTDSFIRHFDDEVERKSV 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + ID +SP+KKV+Y V+SAR D DKL++ ++T+G+I E+++ +++ ILQ QL Sbjct: 121 GKLKIDNSFSPVKKVAYYVDSARVENRTDLDKLTIELETNGTIDAEEAIRISASILQRQL 180 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 F++ K E N + F+P LL+ V++LEL+VRS NCL+ ENI Y+GDL+QRT Sbjct: 181 HAFVDM---KFEESRSDNKERNDFDPVLLRSVDDLELTVRSANCLKAENIHYIGDLVQRT 237 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 E ++L+ N G+KSL EIK VL + L LGM L +WPP S+ E Sbjct: 238 ENELLKTPNLGKKSLTEIKDVLASRSLSLGMKLENWPPASLGE 280 >gi|124024019|ref|YP_001018326.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9303] gi|156637356|sp|A2CC51|RPOA_PROM3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|123964305|gb|ABM79061.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. MIT 9303] Length = 312 Score = 277 bits (709), Expect = 1e-72, Method: Composition-based stats. Identities = 100/308 (32%), Positives = 162/308 (52%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + + + PL RG A TLGN+LRRVLM L G+AITAV+I GV HE Sbjct: 7 DRIEHQVADDRAQT-GVFLIGPLERGQATTLGNSLRRVLMGGLEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSVNSRTSELEIGRLVVTGPAQVKAKDLQFSSQVQVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+++V++T++ Sbjct: 126 QIATVHEGHSLELEVHVERGIGYRPVDRHNEDISAIDLLQIDAVFMPVRRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L + I TDGS T +D++A ++ L + EEP E + + Sbjct: 186 AEGGSTRERLRIEIVTDGSTTPDDALAESANQLIELFQPLATVTMVEEPGLEPEPSAESQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|261876120|gb|ACY04590.1| DNA-directed RNA polymerase [Lactobacillus sp. DCY 50T] Length = 251 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 117/251 (46%), Positives = 167/251 (66%), Gaps = 4/251 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+ Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNV 60 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I LK++G D + + I +GP VTAGDI D++VLNPD I + A M + Sbjct: 61 KKIALKLNGSDDQEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGATFHMRM 120 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A R + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + Sbjct: 121 TADKGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+GSI +++ALA++IL + L MF++ + K + + + L +EEL+L Sbjct: 181 WTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEELDL 240 Query: 266 SVRSTNCLRGE 276 SVRS NCL+ Sbjct: 241 SVRSYNCLKRA 251 >gi|229496135|ref|ZP_04389855.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas endodontalis ATCC 35406] gi|229316713|gb|EEN82626.1| DNA-directed RNA polymerase, alpha subunit [Porphyromonas endodontalis ATCC 35406] Length = 343 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 116/334 (34%), Positives = 186/334 (55%), Gaps = 17/334 (5%) Query: 9 LIKPNNIEYIVLG-------QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 KP N+ + + + E +PL G+A T+GNALRR+L+SSL G AI Sbjct: 6 FQKPENVVKVEVPQYVLDECEPYELVGRFEFKPLEPGYAKTIGNALRRILLSSLEGYAIA 65 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM---SGDSHKRVTIFKRGPGVVTAGD 118 +++IDGV HE ++I GV ED+T+IILN+K I K + D F V TA D Sbjct: 66 SIRIDGVEHEFATIPGVTEDVTNIILNLKKIRFKQKVDNADEEVVTVAFPANKDVFTAED 125 Query: 119 I-QTVNDIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 + + + E+ N D IC+ D V++E ++KG GYVP+ + E DP+ I ID+ Sbjct: 126 LNAALGNFEITNLDQHICSFDPQVASNVKIEFRINKGRGYVPSDENAREGDPLNTIAIDS 185 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF---- 231 +Y+PI++V ES R Q DY+KL + + TDG+I E ++ A++IL D +F Sbjct: 186 IYTPIRRVMPKEESFRVEQKTDYEKLILEVVTDGTIEPEMALREAAKILIDLFSLFSDGE 245 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 ++ EE E + ++ ++L L ++++ LSVR+ NCLR N+ + DL++ + Sbjct: 246 MHMEEAGDETGDVMDEETLRIRQMLRQELDSFNLSVRARNCLRSNNVFTLADLVKHNRQE 305 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +L+ NFG+K+ E++G L +GL +L + Sbjct: 306 LLKFRNFGKKTFEELEGFLAEVGLEFATDLSKYN 339 >gi|62184758|ref|YP_219543.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila abortus S26/3] gi|81313062|sp|Q5L6Z9|RPOA_CHLAB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|62147825|emb|CAH63571.1| putative DNA-directed RNA polymerase alpha chain [Chlamydophila abortus S26/3] Length = 376 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 122/357 (34%), Positives = 192/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + + + IAEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPESVKMMAVEGSGGSVDKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS----GDSHKRVTIFKR----------- 109 + GVLHE +I G+ ED+T+IILN+KG LK ++ + + K Sbjct: 72 MTGVLHEYMAINGIIEDVTNIILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAA 131 Query: 110 --GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G VT D+ E +NPD+VI + + + L V+ G GY ++ E+ Sbjct: 132 CGGQKAVTLADLLQEGGFESVNPDYVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKG 191 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL Sbjct: 192 VNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKH 251 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDL 284 +F +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L Sbjct: 252 FSIFEKMDEKKIVFEEAISLEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGEL 311 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y DK Sbjct: 312 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 368 >gi|88807908|ref|ZP_01123419.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. WH 7805] gi|88787947|gb|EAR19103.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. WH 7805] Length = 312 Score = 277 bits (709), Expect = 2e-72, Method: Composition-based stats. Identities = 98/305 (32%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGN+LRRVLM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQIADDRSQT-GVFLIGPLERGQATTLGNSLRRVLMGNLEGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K I + + + GP V A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQITVNSRTSELEIGRLVVAGPATVKARDLQFSSQVQVIDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 VI + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ Sbjct: 126 VIATVGESYSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGSIT +D++A A+ L + ++ E Sbjct: 186 AEGGSARERLRMEVVTDGSITPDDAIAQAANQLIELFQPLATVTMVEEVSAEPEPTAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIQ 304 >gi|33864022|ref|NP_895582.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9313] gi|41688640|sp|Q7V523|RPOA_PROMM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33635606|emb|CAE21930.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. MIT 9313] Length = 312 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 100/308 (32%), Positives = 162/308 (52%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ V + + + PL RG A TLGN+LRRVLM L G+AITAV+I GV HE Sbjct: 7 DRIEHQVADDRAQT-GVFLIGPLERGQATTLGNSLRRVLMGGLEGSAITAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSVNSRTSELEIGRLVVTGPAQVKAKDLQFSSQVQVVDGDR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+++V++T++ Sbjct: 126 QIATVHEGHSLELEVHVERGIGYRPVDRHNEDVSAIDLLQIDAVFMPVRRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L + I TDGS T +D++A ++ L + EEP E + + Sbjct: 186 AEGGSTRERLRIEIVTDGSTTPDDALAESANQLIELFQPLATVTMVEEPGLEPEPSAESQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|167946610|ref|ZP_02533684.1| DNA-directed RNA polymerase subunit alpha [Endoriftia persephone 'Hot96_1+Hot96_2'] Length = 280 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 118/271 (43%), Positives = 177/271 (65%), Gaps = 4/271 (1%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 + VLHE ++I+GV ED+ +I+LN+K + L M + + K+GPGVV+AGDI + Sbjct: 7 RFQDVLHEYTAIEGVQEDVLEILLNLKQVALVMHSRDEAVLRLQKKGPGVVSAGDITLDH 66 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---ENDPIGLITIDALYSPI 180 DIE+ NPD I L + M LTV +G GY P+ ++ E+ PIG++ +DA +SP+ Sbjct: 67 DIEIANPDLHIATLTKSGEINMTLTVKRGRGYQPSTARQSSAGEDRPIGMLQLDASFSPV 126 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 ++V+Y++ESAR Q + D+L + + TDG+I E+++ ++ IL+DQL +F++ E Sbjct: 127 RRVAYSIESARVEQRTNMDRLVIELQTDGTIDPEEAIRRSAGILRDQLSVFVDL-EGGGA 185 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + +P LL+ V++LEL+VRS NCL+ ENI +GDLIQRTE ++L+ N G+ Sbjct: 186 AEATAEPEEPMIDPILLRPVDDLELTVRSANCLKAENIFLIGDLIQRTEVELLKTPNLGK 245 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 KSL EIK VL GL LGM L WPPESI+E Sbjct: 246 KSLTEIKDVLARRGLSLGMRLEHWPPESIDE 276 >gi|168042925|ref|XP_001773937.1| DNA-directed RNA polymerase alpha chain [Physcomitrella patens subsp. patens] gi|41688609|sp|P60315|RPOA_PHYPA RecName: Full=DNA-directed RNA polymerase subunit alpha, chloroplastic; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=PEP; Short=RNA polymerase subunit alpha; Flags: Precursor gi|34494700|dbj|BAC85012.1| DNA-dircted RNA polymerase alpha chain [Physcomitrella patens] gi|34494702|dbj|BAC85013.1| RNA polymerase alpha subunit [Physcomitrella patens] gi|162674781|gb|EDQ61285.1| DNA-directed RNA polymerase alpha chain [Physcomitrella patens subsp. patens] Length = 450 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 159/321 (49%), Gaps = 19/321 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + P G A+T+G ++++ L+ + GAA++ V E +++KGV Sbjct: 133 QVEGERLHYGRFAVSPFRSGQANTVGVSMQKALLGEVEGAAVSCATFKNVKSEYAAMKGV 192 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E DI++N+K + ++ D ++ I GPG VTAGDI +EV +P I L Sbjct: 193 EETPMDILVNLKELVIRSDSDEPQKAIISAIGPGPVTAGDIVLPPSLEVTDPTQHIAYLT 252 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + +EL V KG GY H ++ + G ID+++ P++ +Y+V S + Sbjct: 253 KEVSLDIELDVEKGCGYRMGDHTKSGD---GRFYIDSVFMPVRNANYSVHSYESEPDVTQ 309 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPA 255 + L + I T+GSIT E+++ A+R L D F++ ++ + K + FN + Sbjct: 310 EILFLEIWTNGSITPEEALHEAARCLIDLFLPFLHPKKKEVTNSATKMHKSFTMSQFNSS 369 Query: 256 LLKKVEELE----------LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +E++ + ++ N L+ NI + DL+ T+ D+L + NFGRKS+ + Sbjct: 370 AEMSAKEVDLRHVYVDQLRIPSKAYNSLKRANINTVSDLLDYTQDDLLSIPNFGRKSVDD 429 Query: 306 IKGVLGTMGLFLGMNLPDWPP 326 I L + ++LP+ P Sbjct: 430 I---LEALQAQFSIDLPENNP 447 >gi|150251505|ref|YP_001312238.1| RNA polymerase alpha chain [Cycas taitungensis] gi|172048628|sp|A6H5L3|RPOA_CYCTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|149941555|dbj|BAF64979.1| RNA polymerase alpha chain [Cycas taitungensis] gi|156598071|gb|ABU85301.1| RNA polymerase alpha subunit [Cycas micronesica] Length = 340 Score = 277 bits (708), Expect = 2e-72, Method: Composition-based stats. Identities = 84/319 (26%), Positives = 150/319 (47%), Gaps = 23/319 (7%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + PL +G A T+G A+RR L+ + G IT +++ V HE S+I G+ E Sbjct: 23 DSKRLHYGRFALSPLRKGQASTIGIAMRRALLGEIEGTCITHAKLEKVTHEYSAIIGIEE 82 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + DI++N+K I L+ + +I GP VTA DI + +++ I +L Sbjct: 83 SVHDILINLKEIVLRSDPYGTREASICIVGPRNVTAQDIILPPSVRIIDATQHIASLTKS 142 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + L + K GY +N G+ IDA++ P++ +Y++ S G + + Sbjct: 143 ITFDIRLWIEKDRGYRI---QSPKNYQDGIFPIDAVFMPVRNANYSIHSYGNGNDI-QEI 198 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK- 259 L + I T+GS+ +++ ASR L D F+ EE + ++ N ++P Sbjct: 199 LFLEIWTNGSLAPREALYRASRNLIDLFIPFLRAEEQNIDGMDNQNGSNMPSFSFSNISA 258 Query: 260 ---------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++ EL R NCL NI + DL+ ++ D++R+ +FG+KS+ Sbjct: 259 DMERMEEEVAFKHIFIDQSELPPRVYNCLGRVNIHTLSDLLNYSQEDLMRIGHFGKKSVE 318 Query: 305 EIKGVLGTMGLFLGMNLPD 323 ++ VL ++LP Sbjct: 319 QVSEVL---QKHFAVDLPK 334 >gi|33866622|ref|NP_898181.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. WH 8102] gi|41688634|sp|Q7U4H7|RPOA_SYNPX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33633400|emb|CAE08605.1| RNA polymerase alpha subunit [Synechococcus sp. WH 8102] Length = 312 Score = 276 bits (707), Expect = 2e-72, Method: Composition-based stats. Identities = 100/308 (32%), Positives = 164/308 (53%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + ++ + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEH-QVEEDRSQSGVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP VTA D+Q + +EV++ + Sbjct: 66 ATVPGVREDVLDILLNCKELSVNSRSPELEIGRLVVAGPAEVTAKDLQFSSQVEVVDGNR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T++ Sbjct: 126 SIATVADGYSLELEVHVERGVGYRPVDRHSEDTSAIDLLQIDAVFMPVIRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L M I TDGSIT +D++A ++ L + EEP E + + Sbjct: 186 AEGGSARERLRMEIVTDGSITPDDALAQSANYLIELFQPLATVTLVEEPGIEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|89898699|ref|YP_515809.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila felis Fe/C-56] gi|119366672|sp|Q252X4|RPOA_CHLFF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|89332071|dbj|BAE81664.1| DNA-directed RNA polymerase alpha chain [Chlamydophila felis Fe/C-56] Length = 376 Score = 276 bits (707), Expect = 2e-72, Method: Composition-based stats. Identities = 121/357 (33%), Positives = 192/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + + +AEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPKSVKMMTVEGSGGSIDKHARFVAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHK----RVTIFKR---- 109 + GVLHE +I+G+ ED+T+I+LN+KG LK G + ++I Sbjct: 72 MTGVLHEYMAIEGIIEDVTNIVLNLKGALLKKYPFQDSEDGRRPQLLKSMISIDASDLAA 131 Query: 110 --GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G VT D+ E +NP+HVI + V + L V+ G GY ++ E+ Sbjct: 132 CGGQRAVTLADLLQEGGFEAVNPEHVIFTVTQPMQVEVALRVAFGRGYSTSERIILEDKG 191 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL Sbjct: 192 VNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILYVETDGRVSPKEALAFSTQILTKH 251 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDL 284 +F +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L Sbjct: 252 FSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGEL 311 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 312 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|326200311|gb|ADZ52350.1| RNA polymerase alpha subunit [Asclepias syriaca] Length = 340 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 88/331 (26%), Positives = 157/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + E I PL + A T+G A+RR L+ + G IT V+ D + Sbjct: 11 RTLQWKCVESRTESKRLYYGRFILSPLLKSQADTIGIAMRRALLGEIEGTCITHVKFDKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+IKG+ E + +I++N+K I L+ + I RGP VTA DI +E++ Sbjct: 71 PHEYSTIKGIQESVHEILMNLKEIVLRSNLYEPCDAYICVRGPRSVTAQDIVLPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + + L + + GY +N P G IDA++ P++ +++V Sbjct: 131 DNTQHIANLTEPINLCIVLKIERNRGY---LIQTPQNVPDGSYPIDAVFMPVRNANHSVH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENSHLENNQHRV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLFPFTFHDKLTKLIKNKKEIALKSIFIDQLELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +L + L + LP Sbjct: 307 MKIEHF---RIEDVKQILVVLEKHLAIFLPK 334 >gi|290489690|gb|ADD31229.1| RNA polymerase alpha subunit protein [Heuchera sanguinea] Length = 337 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +E+ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLEWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K + L+ + + +I GPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEVVLRSNLYGTRNASICVSGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIEKNRGYRIKT---PNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++ EL R CL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFTFHDRLAKLRKNKKEIALKYIFIDQSELPPRIYTCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEHF---RIEDVKEILGFLEKHFEIDLPK 334 >gi|58758770|gb|AAW81775.1| RNA polymerase alpha subunit [Oedipodium griffithianum] Length = 340 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 86/321 (26%), Positives = 154/321 (47%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + P G A+T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 KVDSERLHYSRFAISPFRCGQANTVGIAMRRALLGEVEGTCITCAKFKKVTHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ + ++ I GP VTA DI +++++ I L Sbjct: 81 QESVHDILINLKEIVLRSNSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY ++ + G IDA++ PI+ +Y+V S Sbjct: 141 KTIHLDIELEIEKDCGYRIQDSIKSTD---GHFPIDAIFMPIRNANYSVHSFEHENKT-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GSIT ++++ ASR L D F++ E+ + + +S + Sbjct: 197 EILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHAEKKEIINGLENKYESNNMSYFSSF 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG+KS Sbjct: 257 SPLADRITKEVTFKHIFIDQLELPARAYNCLKRVNVHTISDLLNYSQDDLMKIKNFGKKS 316 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 ++ VL + +NLP Sbjct: 317 ---VEQVLEALQKQFSINLPK 334 >gi|153854998|ref|ZP_01996211.1| hypothetical protein DORLON_02217 [Dorea longicatena DSM 13814] gi|149752495|gb|EDM62426.1| hypothetical protein DORLON_02217 [Dorea longicatena DSM 13814] Length = 276 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 115/271 (42%), Positives = 176/271 (64%), Gaps = 4/271 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFK 108 ++SSL G+AI+ V+IDGVLHE SSI GV ED+T+II+N+K + +K D K I Sbjct: 1 MLSSLPGSAISQVKIDGVLHEFSSIPGVKEDVTEIIMNLKSLAIKNTSESDEPKTAYIEF 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTEND 166 G GVVTA DIQ DIE++NP+ VI L+ A + MELT++ G GYV A ++ + Sbjct: 61 EGEGVVTAADIQVDQDIEIMNPETVIATLNGGADSKLYMELTITNGRGYVSADKNKNDEL 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PI +I ID++Y+P+++V+ TVE+ R GQ+ D+DKL++ + T+G++ +++V+LA+++L + Sbjct: 121 PIAVIPIDSIYTPVERVNLTVENTRVGQITDFDKLTLDVYTNGTLLPDEAVSLAAKVLSE 180 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 L +FI+ E + + I + L ++ELELSVRS NCL+ I + +L Sbjct: 181 HLKLFIDLSEVAQAAEVMIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELTN 240 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 RT DM+++ N GRKSL E+ L +GL L Sbjct: 241 RTPEDMMKVRNLGRKSLEEVLAKLDELGLSL 271 >gi|319827245|gb|ADV74822.1| RNA polymerase subunit A [Vibrio coralliilyticus] Length = 276 Score = 276 bits (707), Expect = 3e-72, Method: Composition-based stats. Identities = 119/277 (42%), Positives = 181/277 (65%), Gaps = 8/277 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV E Sbjct: 3 STVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQE 62 Query: 81 DLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 63 DILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTD 122 Query: 140 D-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q Sbjct: 123 DNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQR 182 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 183 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---I 239 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++ Sbjct: 240 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVEL 276 >gi|113955543|ref|YP_729644.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CC9311] gi|119366743|sp|Q0ID28|RPOA_SYNS3 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|113882894|gb|ABI47852.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. CC9311] Length = 312 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 99/308 (32%), Positives = 162/308 (52%), Gaps = 14/308 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGN+LRR+LM +L G A+TAV+I GV HE Sbjct: 7 DRIEHQITDDRSQT-GVFLIGPLERGQATTLGNSLRRMLMGNLAGTAVTAVRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K + + D + + GP VV A D+Q + ++V++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLTVTSRTDELEIGRLIVSGPAVVKAKDLQFSSQVQVVDGER 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+ +V++T + Sbjct: 126 PIATVSEGHSLELEVHVERGVGYRPVDRHNEDTSAIDLLQIDAVFMPVHRVNFTTDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVK 248 ++L M + TDGS+T +D++A A+ L + EEP E + + Sbjct: 186 AEGGSARERLRMEVVTDGSMTPDDAIAQAANQLIELFQPLATVTMVEEPGIEPEPSAEAQ 245 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ Sbjct: 246 I---------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIE 296 Query: 309 VLGTMGLF 316 L +G+ Sbjct: 297 ALERIGIS 304 >gi|319827247|gb|ADV74823.1| RNA polymerase subunit A [Vibrio neptunius] Length = 275 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 119/277 (42%), Positives = 181/277 (65%), Gaps = 8/277 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV E Sbjct: 2 STVSTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQE 61 Query: 81 DLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+LN+KG+ +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L Sbjct: 62 DILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTD 121 Query: 140 D-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 D A + M + V +G GYVPA H + PIG + +DA YSP+ K++Y+VE+AR Q Sbjct: 122 DNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQR 181 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P Sbjct: 182 TDLDKLVIDMETNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---I 238 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++ Sbjct: 239 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVEL 275 >gi|325473246|gb|EGC76441.1| DNA-directed RNA polymerase subunit alpha [Treponema denticola F0402] Length = 351 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 117/348 (33%), Positives = 178/348 (51%), Gaps = 12/348 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +E+ E+ A P GF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFKKPKGLEFAQQES-TESYGKFTASPFETGFGTTIGNCLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKR 109 I+AV I DGV H E +I V ED +I+ +K I L++S +S + + Sbjct: 60 ISAVLITSHDADGVPHTISSEFENIPNVSEDTLEILNKLKQIRLRLSDESEQGDFHFEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +T+ D +E+L + L A V ++ V G GYVPA+ + + +G Sbjct: 120 GPASITSKDFAVEGQLEILGEPFHVMELMKGANVSFDVQVDFGRGYVPAEVNEKYIEIVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA+Y P+ KVSY +E R GQ DYDKL + I TD ++ ED + A++I +D Sbjct: 180 TIPMDAIYGPVLKVSYAIEPCRVGQRNDYDKLILEIWTDSTVRPEDVLGEAAKIAKDHFS 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF E +++ + + L + L+ SVR+ NCL I +G+L Q++E Sbjct: 240 IFINFNENDYLGEDEDDNEEAVIKQLLATSINTLDFSVRAKNCLDSAGIKTLGELAQKSE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 ++ M N GR +L EI L L LGM +I+ +K E Sbjct: 300 DEIESMRNVGRMTLNEIHAKLAEYNLRLGMTDYSHLKNTIKVSRQKEE 347 >gi|313680487|ref|YP_004058226.1| DNA-directed RNA polymerase subunit alpha [Oceanithermus profundus DSM 14977] gi|313153202|gb|ADR37053.1| DNA-directed RNA polymerase subunit alpha [Oceanithermus profundus DSM 14977] Length = 322 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 114/305 (37%), Positives = 167/305 (54%), Gaps = 12/305 (3%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 E N + EPL RGF TLGN LRR+LMSS+ G A+T+V I+ LHE +++ G+ ED+ Sbjct: 17 EGNYGEFVLEPLERGFGVTLGNPLRRILMSSIPGTAVTSVYIEDALHEFATLPGIKEDVV 76 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 I+LN+K + +K K + + GP V A D+ + E++NPD I L A + Sbjct: 77 QIVLNLKELIVKFHEPGSKTLLLRVEGPREVYARDLVVPSSAELVNPDLYIATLGEGAKL 136 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 ME+ V +G GYV A+ H ++ I I +DAL+SPIK+V++ VE R GQ D DKL + Sbjct: 137 VMEVRVDEGVGYVAAEKHGIKDR-INSIPVDALFSPIKRVAFHVEDTRLGQRTDLDKLIL 195 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---- 259 I TDGS+T + ++A A IL+ QLG F E + PA ++ Sbjct: 196 RIWTDGSVTPDAALAQAVEILRGQLGYFDQLAPQAAPEPEAAEAPAPEAAPAEPEEAAAE 255 Query: 260 -------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 +E+L LS R + LR E I + +L TE ++ ++ G +S+ EIK L Sbjct: 256 PGREGIALEDLGLSTRVLHNLREEGIDSVANLTALTERELKKVPGIGERSVEEIKERLAA 315 Query: 313 MGLFL 317 +GL L Sbjct: 316 LGLAL 320 >gi|290489666|gb|ADD31217.1| RNA polymerase alpha subunit protein [Meliosma aff. cuneifolia Moore 333] Length = 337 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 86/331 (25%), Positives = 168/331 (50%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSETI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I RGPG VTA DI + + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPGYVTAQDIISPSSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + HGY + +N G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPINLCIGLQIERNHGY---RMKTPKNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEEDIIIEDNQNRF 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++PF + +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TVPFFTFHDRLAKLRKNKKEIALKFIFIDQSELPPRTYNCLKRSNIHTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ +F + ++K +LG + +NLP Sbjct: 307 MRIEHF---RIEDVKHILGILQKHFEINLPK 334 >gi|313292044|gb|ADR51211.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] gi|313292046|gb|ADR51212.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] gi|313292048|gb|ADR51213.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] gi|313292050|gb|ADR51214.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 258 Score = 276 bits (706), Expect = 3e-72, Method: Composition-based stats. Identities = 118/253 (46%), Positives = 169/253 (66%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED Sbjct: 6 DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 66 VTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL Sbjct: 126 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI ++++L+++I+ + L +F+N + K + + + L +E Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 245 Query: 262 ELELSVRSTNCLR 274 EL+LSVRS NCL+ Sbjct: 246 ELDLSVRSYNCLK 258 >gi|290489692|gb|ADD31230.1| RNA polymerase alpha subunit protein [Liquidambar styraciflua] Length = 338 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 78/332 (23%), Positives = 156/332 (46%), Gaps = 28/332 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K + L+ + + +I RGPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEVVLRSNLYGTRDASICVRGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLKMERNRGYRIKT---PNNFQDRSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNENE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQHKT 246 Query: 249 SLPFNPALLKK-----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 LP + +++ EL R CL+ NI + DL+ + D Sbjct: 247 ILPLFTFHDRLAKLKEKTKKKKALKSIFIDQSELPPRIYTCLKRSNIHTLLDLLNNNQED 306 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++++ +F + ++K +LG + ++LP Sbjct: 307 LMKIEHF---RIEDVKKILGILEKHFAIDLPK 335 >gi|153012268|gb|ABS50355.1| DNA-directed RNA polymerase alpha chain [Enterococcus thailandicus] Length = 250 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 117/248 (47%), Positives = 165/248 (66%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IIL Sbjct: 3 GKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIIL 62 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 NIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A L Sbjct: 63 NIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARL 122 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I T Sbjct: 123 TVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWT 182 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 DGSI ++++L+++I+ + L +F+N + K + + + L +EEL+LSV Sbjct: 183 DGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELDLSV 242 Query: 268 RSTNCLRG 275 RS NCL+ Sbjct: 243 RSYNCLKR 250 >gi|166154722|ref|YP_001654840.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis 434/Bu] gi|166155597|ref|YP_001653852.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis L2b/UCH-1/proctitis] gi|301335996|ref|ZP_07224240.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis L2tet1] gi|238687389|sp|B0B881|RPOA_CHLT2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|238687487|sp|B0BCE6|RPOA_CHLTB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|165930710|emb|CAP04207.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis 434/Bu] gi|165931585|emb|CAP07161.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis L2b/UCH-1/proctitis] Length = 377 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 191/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAVGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISVDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 309 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 310 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|313292016|gb|ADR51197.1| DNA-directed RNA polymerase alpha chain [Enterococcus viikkiensis] gi|313292018|gb|ADR51198.1| DNA-directed RNA polymerase alpha chain [Enterococcus viikkiensis] Length = 258 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 117/257 (45%), Positives = 168/257 (65%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E+ + + E L RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKG Sbjct: 2 ITKIDEDRDYGKFVVESLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + Sbjct: 62 VREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D Sbjct: 122 AEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDD 181 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + L Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 Query: 258 KKVEELELSVRSTNCLR 274 +EEL+LSVRS NCL+ Sbjct: 242 MTIEELDLSVRSYNCLK 258 >gi|237804858|ref|YP_002889012.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis B/TZ1A828/OT] gi|231273158|emb|CAX10071.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis B/TZ1A828/OT] Length = 377 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 191/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAVGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 309 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 310 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|42526303|ref|NP_971401.1| DNA-directed RNA polymerase subunit alpha [Treponema denticola ATCC 35405] gi|61215985|sp|Q73PK8|RPOA_TREDE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|41816415|gb|AAS11282.1| DNA-directed RNA polymerase, alpha subunit [Treponema denticola ATCC 35405] Length = 351 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 117/348 (33%), Positives = 178/348 (51%), Gaps = 12/348 (3%) Query: 1 MIQKNW-QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M +KN + KP +E+ E+ A P GF T+GN LRR+L+SS++G A Sbjct: 1 MARKNLLKGFKKPKGLEFAQQES-TESYGKFTASPFETGFGTTIGNCLRRILLSSIQGYA 59 Query: 60 ITAVQI-----DGVLH----EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKR 109 I+AV I DGV H E +I V ED +I+ +K I L++S +S + + Sbjct: 60 ISAVLITSHDADGVPHTISSEFENIPNVSEDTLEILNKLKQIRLRLSDESEQGDFHFEFK 119 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +T+ D +E+L + L A V ++ V G GYVPA+ + + +G Sbjct: 120 GPASITSKDFAVEGQLEILGEPFYVMELMKGANVSFDVQVDFGRGYVPAEVNEKYIEIVG 179 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +DA+Y P+ KVSY +E R GQ DYDKL + I TD ++ ED + A++I +D Sbjct: 180 TIPMDAIYGPVLKVSYAIEPCRVGQRNDYDKLILEIWTDSTVRPEDVLGEAAKIAKDHFS 239 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +FINF E +++ + + L + L+ SVR+ NCL I +G+L Q++E Sbjct: 240 IFINFNENDYLGEDEDDNEEAVIKQLLATSINTLDFSVRAKNCLDSAGIKTLGELAQKSE 299 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 ++ M N GR +L EI L L LGM +I+ +K E Sbjct: 300 DEIESMRNVGRMTLNEIHAKLAEYNLRLGMTDYSHLKNTIKVSRQKEE 347 >gi|165910449|gb|ABY73979.1| RNA polymerase alpha subunit [Cuscuta lupuliformis] Length = 335 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 156/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G ALRR L++ + G IT V+ Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIALRRALLAEIEGTRITRVKFANA 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +EV+ Sbjct: 71 SHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY H E+ G IDA++ P++ ++++ Sbjct: 131 DSTQHIAWLMEPIDLCIGLKIERNRGYFLKTHANFED---GSYPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ E+ +++ Sbjct: 188 SYGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHIEKENLHLEDADRTI 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LE NCL+ NI + DL+ ++ D+ Sbjct: 245 PLSPFTVYDKVAKLRKNKKKLALESLFIDQLEFPPNIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++LP Sbjct: 305 MKIEHF---RLEDVKQILGILGKHFALDLPK 332 >gi|33301631|sp|Q824N1|RPOA_CHLCV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 376 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 119/357 (33%), Positives = 192/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + + + +AEPL RG HTLGNALRR L+ L AI + Sbjct: 12 KFELPESVKMMAVEGSGGSVDKQASFVAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 71 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS----GDSHKRVTIFKR----------- 109 + GVLHE +I+G+ ED+T+I+LN+KG LK + + + K Sbjct: 72 MTGVLHEYMAIEGIVEDVTNIVLNLKGALLKKYPFQDSEDGRCTQLLKSTISVDASDLAA 131 Query: 110 --GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G +T D+ E +NPDHVI + + + L V+ G GY ++ E+ Sbjct: 132 CGGQKSITLADLLQEGGFESVNPDHVIFTVTQPMQLEIALRVAFGRGYSTSERIVLEDKG 191 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL Sbjct: 192 VNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKH 251 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDL 284 +F +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L Sbjct: 252 FSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGEL 311 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 312 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKSYAEK 368 >gi|290489668|gb|ADD31218.1| RNA polymerase alpha subunit protein [Nelumbo nucifera] Length = 339 Score = 276 bits (705), Expect = 4e-72, Method: Composition-based stats. Identities = 83/323 (25%), Positives = 160/323 (49%), Gaps = 25/323 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + I RGPG VTA DI + +E+++ I +L Sbjct: 81 EESVHEILMNLKEIVLRSNLYGTRDAFICVRGPGYVTAQDIISPPSVEIVDTTQHIASLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY + N G IDA++ P++ ++++ S G Sbjct: 141 EPIDLCIGLQIERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ +E +++++ N +LPF + Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLDAQEEDIQLEDNQNKVTLPFFTFHDR 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++ EL R+ NCL+ NI + DL+ ++ D+++M +F Sbjct: 257 LTKLRKNKKEKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLNNSQEDLMKMFHF-- 314 Query: 301 KSLVEIKGVLGTMGLFLGMNLPD 323 + ++K +L + ++LP Sbjct: 315 -QIEDVKQILDILQKHFAIDLPK 336 >gi|329565853|gb|AEB92263.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565855|gb|AEB92264.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565861|gb|AEB92267.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 109/250 (43%), Positives = 160/250 (64%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ IILN+K + +K+ D Sbjct: 1 GNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVKIILNLKEVAVKLHSDEPVV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I G G VTAG I+ DIE+LNPDH I L D + ME+ KG GYVP+ ++ Sbjct: 61 GRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 N PIG+I +D++++P+K+VSY V++ R G V DYDKL++ + T+G+IT ++++++AS + Sbjct: 121 PNQPIGVIPVDSIFTPVKRVSYNVKNTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDM 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L FI+F K ++ L +EEL+LSVRS NCL+ I + + Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQE 240 Query: 284 LIQRTEADML 293 L Q+TE +M+ Sbjct: 241 LTQKTEEEMM 250 >gi|189162303|ref|YP_001936549.1| RNA polymerase alpha subunit [Fagopyrum esculentum subsp. ancestrale] gi|166065389|gb|ABY79764.1| RNA polymerase alpha subunit [Fagopyrum esculentum subsp. ancestrale] Length = 337 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 87/331 (26%), Positives = 163/331 (49%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSTFYGTCDASICVRGPGGVTAQDIISPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL +R+EL + + GY N G ID ++ P++ V++++ Sbjct: 131 DTTQHIANLTEPIDLRIELQLERNRGYRIKT---PNNFQDGSYPIDVVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F+ E+ ++++ + Sbjct: 188 SYSNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLYAEKENFHLEDNQDRV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFLFHDRLIELRKNKKKIALKSIFIDQLELPPRIYNCLKNSNIHTLLDLLTNSQDDI 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F S+ ++K +L T+ +NLP Sbjct: 307 MKIEHF---SIEDVKQILDTLEKHFAINLPK 334 >gi|329565845|gb|AEB92259.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565857|gb|AEB92265.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 109/250 (43%), Positives = 160/250 (64%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ IILN+K + +K+ D Sbjct: 1 GNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVKIILNLKEVAVKLHSDEPVV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I G G VTAG I+ DIE+LNPDH I L D + ME+ KG GYVP+ ++ Sbjct: 61 GRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVKGKGYVPSNKNKE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 N PIG+I +D++++P+K+VSY V++ R G V DYDKL++ + T+G+IT ++++++AS + Sbjct: 121 PNQPIGVIPVDSIFTPVKRVSYNVKNTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDM 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L FI+F K ++ L +EEL+LSVRS NCL+ I + + Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQE 240 Query: 284 LIQRTEADML 293 L Q+TE +M+ Sbjct: 241 LTQKTEEEMM 250 >gi|76789244|ref|YP_328330.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis A/HAR-13] gi|90110832|sp|Q3KLJ0|RPOA_CHLTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|76167774|gb|AAX50782.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis A/HAR-13] Length = 377 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 191/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAVGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 309 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 310 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|15605236|ref|NP_220022.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis D/UW-3/CX] gi|237802936|ref|YP_002888130.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis B/Jali20/OT] gi|255311325|ref|ZP_05353895.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis 6276] gi|255317626|ref|ZP_05358872.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis 6276s] gi|255348884|ref|ZP_05380891.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis 70] gi|255503424|ref|ZP_05381814.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis 70s] gi|255507102|ref|ZP_05382741.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis D(s)2923] gi|290463292|sp|P0CE08|RPOA_CHLTR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|3328944|gb|AAC68108.1| RNA Polymerase Alpha [Chlamydia trachomatis D/UW-3/CX] gi|231274170|emb|CAX10964.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis B/Jali20/OT] gi|289525552|emb|CBJ15030.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis Sweden2] gi|296435112|gb|ADH17290.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis E/150] gi|296436040|gb|ADH18214.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis G/9768] gi|296436968|gb|ADH19138.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis G/11222] gi|296437901|gb|ADH20062.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis G/11074] gi|296438832|gb|ADH20985.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis E/11023] gi|297140401|gb|ADH97159.1| DNA-directed RNA polymerase subunit alpha [Chlamydia trachomatis G/9301] Length = 377 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 191/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAVGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 309 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 310 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|29839882|ref|NP_828988.1| DNA-directed RNA polymerase subunit alpha [Chlamydophila caviae GPIC] gi|29834229|gb|AAP04866.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila caviae GPIC] Length = 393 Score = 275 bits (704), Expect = 5e-72, Method: Composition-based stats. Identities = 119/357 (33%), Positives = 192/357 (53%), Gaps = 25/357 (7%) Query: 8 ELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + P +++ + + + + +AEPL RG HTLGNALRR L+ L AI + Sbjct: 29 KFELPESVKMMAVEGSGGSVDKQASFVAEPLERGMGHTLGNALRRALLIGLEAPAIISFS 88 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMS----GDSHKRVTIFKR----------- 109 + GVLHE +I+G+ ED+T+I+LN+KG LK + + + K Sbjct: 89 MTGVLHEYMAIEGIVEDVTNIVLNLKGALLKKYPFQDSEDGRCTQLLKSTISVDASDLAA 148 Query: 110 --GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 G +T D+ E +NPDHVI + + + L V+ G GY ++ E+ Sbjct: 149 CGGQKSITLADLLQEGGFESVNPDHVIFTVTQPMQLEIALRVAFGRGYSTSERIVLEDKG 208 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG ++ ++++A +++IL Sbjct: 209 VNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKH 268 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDL 284 +F +E K +E I+++ + L K + E+ELSVRSTNCL NI +G+L Sbjct: 269 FSIFEKMDEKKIVFEEAISIEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGEL 328 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 + E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 329 VIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKSYAEK 385 >gi|290489682|gb|ADD31225.1| RNA polymerase alpha subunit protein [Cornus florida] Length = 337 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 82/329 (24%), Positives = 158/329 (48%), Gaps = 27/329 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI + +E++ Sbjct: 71 QHEYSTIVGIQESVHEILMNLKEIVLRSTLYGTCDASICVKGPGYVTAQDIISPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQYIASLTEPIDLCIGLQIERNRGYRIKP---PNNFQDGNYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP K +++ ELS R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPTFTFHDKLAKLRKNKKKIAFKYIFIDQSELSPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 ++M +F + ++K +L + +L Sbjct: 307 MKMKDF---RIEDVKEILDILEKRFATDL 332 >gi|290489694|gb|ADD31231.1| RNA polymerase alpha subunit protein [Oxalis latifolia] Length = 339 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 RTLQWKCVESRADGKRLYYGRFILSPLMKGQADTIGIAIRRALLGEIEGTCITRAKSEKI 72 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + +I++N+K I L+ + ++ +GPG VTA DI +E++ Sbjct: 73 PHEYSTLAGIQESIHEILMNLKEIVLRSNLYGTHDASLCVKGPGYVTAQDIILPPSVEII 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 133 DNTQHIASLTEPIELCIGLQIERNRGY---HKKTPNNFQDGSYPIDAVFMPVRNANHSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 190 SYRNGNE-KQEMLFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENSHLETNQHKV 248 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++LEL+ R NCL+ NI + DL+ ++ D+ Sbjct: 249 TLPLFTFHDRLAKLRKIKKKISLKYIFIDQLELTPRIYNCLKRSNIHTLLDLLNNSQEDL 308 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + + +F + ++K ++G + L ++LP Sbjct: 309 MNIEHF---HIEDVKHIMGVLENNLAIDLPK 336 >gi|329565841|gb|AEB92257.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565847|gb|AEB92260.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565849|gb|AEB92261.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565851|gb|AEB92262.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] gi|329565859|gb|AEB92266.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 109/250 (43%), Positives = 161/250 (64%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ +IILN+K + +K+ D Sbjct: 1 GNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVEIILNLKEVAVKLHSDEPVV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I G G VTAG I+ DIE+LNPDH I L D + ME+ KG GYVP+ ++ Sbjct: 61 GRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 N PIG+I +D++++P+K+VSY V++ R G V DYDKL++ + T+G+IT ++++++AS + Sbjct: 121 PNQPIGVIPVDSIFTPVKRVSYNVKNTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDM 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L FI+F K ++ L +EEL+LSVRS NCL+ I + + Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQE 240 Query: 284 LIQRTEADML 293 L Q+TE +M+ Sbjct: 241 LTQKTEEEMM 250 >gi|32480874|ref|NP_862785.1| RNA polymerase alpha subunit [Calycanthus floridus var. glaucus] gi|41688654|sp|Q7YJU6|RPOA_CALFG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|32399410|emb|CAD28752.1| RNA polymerase alpha subunit [Calycanthus floridus var. glaucus] Length = 340 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 85/333 (25%), Positives = 159/333 (47%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+R+ L+ + G IT + + V Sbjct: 11 RTLQWKCVESRTDSNRLYYGRFVLSPLMKGQADTIGIAMRKALLGEIEGTCITRAKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I LK + + +I RGP VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLKSNLYGTRDASICVRGPKYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + +EL + + GY + N G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPINLCIELQIERDRGY---RMKAPNNYQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + N Sbjct: 188 SYGSGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIHLNLEDNQN 246 Query: 249 SLPFNPALLKK------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 +P L +++ EL R+ NCL+ NI + DL+ ++ Sbjct: 247 RFTVSPFTLHDRLGNIRKNKKEIALKCIFIDQSELPTRTYNCLKRSNIHTLLDLLNNSQE 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++R+ +F + +IK +L + G++LP Sbjct: 307 DLMRIEHF---RIEDIKQILDILQKHFGIDLPK 336 >gi|153816223|ref|ZP_01968891.1| hypothetical protein RUMTOR_02472 [Ruminococcus torques ATCC 27756] gi|145846406|gb|EDK23324.1| hypothetical protein RUMTOR_02472 [Ruminococcus torques ATCC 27756] Length = 277 Score = 275 bits (704), Expect = 6e-72, Method: Composition-based stats. Identities = 115/273 (42%), Positives = 177/273 (64%), Gaps = 5/273 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK--MSGDSHKRVTIFK 108 ++SSL G+AI++V+IDGVLHE SSI GV ED+T+II+N+K + ++ D K V I Sbjct: 1 MLSSLPGSAISSVKIDGVLHEFSSIPGVKEDVTEIIMNLKSLAIRNMSESDEPKTVYIEF 60 Query: 109 RGPGVVTAGDI-QTVNDIEVLNPDHVICNLD--VDAVVRMELTVSKGHGYVPAKHHRTEN 165 G GVVT DI DIE++NPD VI L D + MELT++KG GYV + ++TE+ Sbjct: 61 EGEGVVTGADININDPDIEIVNPDQVIATLSGGKDCRLNMELTITKGRGYVSSDKNKTED 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 PIG+I ID++Y+P+++V+ TVE+ R GQ+ DYDKL++ + T G++ +++V+LA+++L Sbjct: 121 MPIGVIAIDSIYTPVERVNLTVENTRVGQITDYDKLTLDVWTKGTMLPDEAVSLAAKVLS 180 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 + L +F++ E + + I + L ++ELELSVRS NCL+ I + +L Sbjct: 181 EHLKLFVDLSEVAQVAEVMIEKEDDEKEKVLEMSIDELELSVRSYNCLKRAGINTVEELT 240 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +T DM+++ N GRKSL E+ L + L L Sbjct: 241 NKTPEDMMKVRNLGRKSLEEVLAKLKELNLELN 273 >gi|161511761|emb|CAP16891.1| DNA-directed RNA polymerase subunit alpha [Pediococcus ethanolidurans] Length = 251 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 110/250 (44%), Positives = 162/250 (64%), Gaps = 2/250 (0%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+G Sbjct: 2 IHKIDENANYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+T IILNIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + Sbjct: 62 VVEDVTQIILNIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 LT G GYV A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 122 ADGVTFHAVLTADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQR 181 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 DYDKL++ + TDGSI+ ++ +L+++IL + L +F+N + ++ + + + Sbjct: 182 DDYDKLTLDVWTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKM 241 Query: 256 LLKKVEELEL 265 L +EEL+L Sbjct: 242 LEMSIEELDL 251 >gi|329942432|ref|ZP_08291242.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila psittaci Cal10] gi|328815342|gb|EGF85330.1| DNA-directed RNA polymerase, alpha subunit [Chlamydophila psittaci Cal10] Length = 356 Score = 275 bits (703), Expect = 7e-72, Method: Composition-based stats. Identities = 122/337 (36%), Positives = 185/337 (54%), Gaps = 22/337 (6%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 + + IAEPL RG HTLGNALRR L+ L AI + + GVLHE +I G+ ED+T+ Sbjct: 12 DKQASFIAEPLERGMGHTLGNALRRALLIGLEAPAIISFSMTGVLHEYMAINGIIEDVTN 71 Query: 85 IILNIKGINLKMS----GDSHKRVTIFKR-------------GPGVVTAGDIQTVNDIEV 127 IILN+KG LK ++ + + K G VT D+ E Sbjct: 72 IILNLKGALLKKYPFQDSENGRCTQLLKSKVSIDASDLAACGGQKAVTLADLLQEGGFES 131 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NPDHVI + + + L V+ G GY ++ E+ + I +DA +SP+ V+Y V Sbjct: 132 VNPDHVIFTVTQPMQLDITLRVAFGRGYTTSERIVLEDKGVNEIVLDAAFSPVVLVNYFV 191 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E R GQ D+D+L + ++TDG ++ ++++A +++IL +F +E K +E I++ Sbjct: 192 EDTRVGQDTDFDRLILHVETDGRVSPKEALAFSTQILTKHFSIFEKMDEKKIVFEEAISI 251 Query: 248 KSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + L K + E+ELSVRSTNCL NI +G+L+ E +L+ NFG+KSL Sbjct: 252 EKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIGELVIMPEPRLLQFRNFGKKSLC 311 Query: 305 EIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 EIK L M L LGM+L + ++++E K Y DK Sbjct: 312 EIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYADK 348 >gi|75755691|ref|YP_319795.1| RNA polymerase alpha subunit [Acorus calamus] gi|161622341|ref|YP_001586213.1| RNA polymerase alpha subunit [Acorus americanus] gi|90101572|sp|Q3V502|RPOA_ACOCL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|69215818|gb|AAZ03865.1| RNA polymerase alpha chain [Acorus americanus] gi|74381741|emb|CAI53826.1| RNA polymerase alpha subunit [Acorus calamus] gi|160369884|gb|ABX38775.1| RNA polymerase alpha subunit [Acorus americanus] Length = 337 Score = 275 bits (703), Expect = 8e-72, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 11 RALQWKCVESRADSKRLYYGRFILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +EV+ Sbjct: 71 PHEYSTIAGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + T+N G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIGLQIQRDRGY---RMKTTKNSQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 188 SYGNGNQ-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRF 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++P + +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 TVPPFTFPDRLANLKKNKKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ F + ++K +L T+ ++LP Sbjct: 307 MKIEYF---RIEDVKQILDTLQKHFAIDLPK 334 >gi|269123125|ref|YP_003305702.1| DNA-directed RNA polymerase, alpha subunit [Streptobacillus moniliformis DSM 12112] gi|268314451|gb|ACZ00825.1| DNA-directed RNA polymerase, alpha subunit [Streptobacillus moniliformis DSM 12112] Length = 322 Score = 275 bits (703), Expect = 8e-72, Method: Composition-based stats. Identities = 110/305 (36%), Positives = 173/305 (56%), Gaps = 5/305 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + + ++ EPL RG+ +T+GNALRRVL+SS+ G+AI V+IDGVL+E S I+ Sbjct: 12 KLTEEKIDQYSAKYTLEPLYRGYGNTIGNALRRVLLSSIPGSAIKGVRIDGVLNEFSMIE 71 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV E +TDI+LNIK I +++ KR+ + GP V+TA DI I ++NP+ VI Sbjct: 72 GVKEAVTDIVLNIKEIVVELDEPVEKRMKLSVVGPKVITAADIVPEAGITIVNPEQVIAT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + ME V G G+V + T + +DA+Y+PI+KVSY VE G+V Sbjct: 132 ITTKKAIDMEFIVDSGEGFVVSDEINTSGWEADFLAVDAIYTPIRKVSYQVEDTMVGRVT 191 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 +YDKL++T+ TDGSI D+++ A ++ F N + + + ++ N + Sbjct: 192 NYDKLTLTVTTDGSIDIHDALSYAVELINIHTKPFANIGTAMAKFRSEEELELEVSNDSY 251 Query: 257 -----LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 ++EEL L++RS NCL+ +I +G+LI+ T+ D+ ++ N G KS EI + Sbjct: 252 PSLVEDTRIEELGLTIRSYNCLKKVDINTVGELIRLTKEDLKKIKNLGNKSAKEIIEKMK 311 Query: 312 TMGLF 316 G Sbjct: 312 EYGYE 316 >gi|270285588|ref|ZP_06194982.1| DNA-directed RNA polymerase subunit alpha [Chlamydia muridarum Nigg] gi|270289598|ref|ZP_06195900.1| DNA-directed RNA polymerase subunit alpha [Chlamydia muridarum Weiss] gi|301336984|ref|ZP_07225186.1| DNA-directed RNA polymerase subunit alpha [Chlamydia muridarum MopnTet14] gi|12230602|sp|Q9PJN4|RPOA_CHLMU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 377 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 118/359 (32%), Positives = 192/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAAGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G + +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRASQKLRATISIDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G +T GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKAITLGDLLQEGTFEAVNPEHVIFTVTRPMQLDVMLRVAFGRGYTPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 REMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 309 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 310 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 368 >gi|123966950|ref|YP_001012031.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9515] gi|156637357|sp|A2BYR3|RPOA_PROM5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|123201316|gb|ABM72924.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. MIT 9515] Length = 312 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQTANDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ D Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVVSGPMEVKANDIQFSSQVEIVDGDK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E + L+ IDA++ P+K+V+++++ Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRRNQETTSVDLLQIDAVFMPVKRVNFSIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L+M + TDGS + +D++A A+ L + ++ +E Sbjct: 186 AEGGTGRERLTMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|159161282|ref|YP_001542560.1| RNA polymerase alpha subunit [Cuscuta exaltata] gi|172048134|sp|A8W3F3|RPOA_CUSEX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|158938707|gb|ABW83724.1| RNA polymerase alpha subunit [Cuscuta exaltata] Length = 335 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 158/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L++ + G IT V+ Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLRKGQADTIGIAMRRALLAEIEGTRITRVKFAKA 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I +N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 SHEYSTIAGIQESVHEIFMNLKEIVLRSNLYGTCDASISIKGPGHVTAKDIILPPHVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY H E+ G IDA++ P++ ++++ Sbjct: 131 DSTQHIAWLTEPIDLCIGLKIERNRGYFIKTHPNFED---GSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTI 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 SL K +++LE + NCL+ NI + DL+ ++ D+ Sbjct: 245 SLSPFTVYDKVAKLRKNKKKRSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++LP Sbjct: 305 IKIEHF---RLEDVKQILGILGKHFALDLPK 332 >gi|297748637|gb|ADI51183.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis D-EC] gi|297749517|gb|ADI52195.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis D-LC] Length = 394 Score = 274 bits (702), Expect = 9e-72, Method: Composition-based stats. Identities = 119/359 (33%), Positives = 191/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 27 YNKFELPESVKMSPVEGAVGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 86 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G +++ Sbjct: 87 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRCSQKLRATISIDASDL 146 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 147 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 206 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 207 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 266 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 267 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 326 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 327 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 385 >gi|311990460|gb|ADQ26360.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus casei] gi|328813945|gb|AEB52088.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 245 Score = 274 bits (702), Expect = 1e-71, Method: Composition-based stats. Identities = 109/244 (44%), Positives = 163/244 (66%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS 100 TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 1 TTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A Sbjct: 61 DKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQ 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA Sbjct: 121 NKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 ++IL + L +F+N + K + + + L +EEL+LSVRS NCL+ I Sbjct: 181 AKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINT 240 Query: 281 MGDL 284 + +L Sbjct: 241 VQEL 244 >gi|329565863|gb|AEB92268.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 108/250 (43%), Positives = 159/250 (63%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ IILN+K + +K+ D Sbjct: 1 GNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVKIILNLKEVAVKLHSDEPVV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I G G VTAG I+ DIE+LNPDH I L D + ME+ KG GYVP+ ++ Sbjct: 61 GRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVKGKGYVPSDKNKE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 N PIG+I +D++++P+K+VSY V++ R G V DYDKL++ + T+G+IT ++++++AS + Sbjct: 121 PNQPIGVIPVDSIFTPVKRVSYNVKNTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDM 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L FI+F K ++ L +EEL+L VRS NCL+ I + + Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDMTIEELDLFVRSYNCLKRAGINTVQE 240 Query: 284 LIQRTEADML 293 L Q+TE +M+ Sbjct: 241 LTQKTEEEMM 250 >gi|33862091|ref|NP_893652.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus subsp. pastoris str. CCMP1986] gi|41688638|sp|Q7UZW6|RPOA_PROMP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|33634309|emb|CAE19994.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus subsp. pastoris str. CCMP1986] Length = 312 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 94/299 (31%), Positives = 156/299 (52%), Gaps = 7/299 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE ++I GV Sbjct: 12 QISDDRSQTGTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRISGINHEYATIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + I + Sbjct: 72 REDVLDILLNCKQLSINSSNPETEIGRLVVNGPMEVKANDIQFSSQVEIVDGEKPIATIQ 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE-GQVLD 197 + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 132 EGHNLELEIHVERGVGYRPVDRRNQETTAIDLLQIDAVFMPVKRVNFTIDETAVAEGATG 191 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++L+M + TDGS + +D++A A+ L + ++ +E Sbjct: 192 RERLTMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQI----- 246 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 247 -PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGIS 304 >gi|50364965|ref|YP_053390.1| DNA-directed RNA polymerase subunit alpha [Mesoplasma florum L1] gi|61215913|sp|Q6F1W7|RPOA_MESFL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|50363521|gb|AAT75506.1| DNA-directed RNA polymerase alpha chain [Mesoplasma florum L1] Length = 317 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 116/320 (36%), Positives = 169/320 (52%), Gaps = 10/320 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ KP IV + A PL RGFA TLGNALRR L+SS GA++ A++I Sbjct: 2 KQFNKPEF--GIVKESPNKFYGKFEAAPLERGFAVTLGNALRRTLLSSTPGASVFAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSG-----DSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T I+LN+K + L++ D + + G VTAG + Sbjct: 60 GAQHEFTSISGIEENVTRIVLNVKKLILRIDSAIYNDDETVELKVGTSTIGPVTAGSLVL 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPI 180 +EVLN D VI N+ + + L GY K ++ ++ G+ITID+ YSPI Sbjct: 120 PAGVEVLNKDLVIANVAEGGNLDLVLYAKNSRGYKTFKENKELKDVVPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y G+ D++KL + ++TDGSI D+V+LAS+IL +F E +E Sbjct: 180 IKVAYGSTPINLGKAQDFEKLILEVETDGSILASDAVSLASKILISHFDVFTTLAEEVEE 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V L K VEELE + RS NCL+ I + +L+ +TE ++ + N GR Sbjct: 240 VAIMGVETVEEKE--LDKPVEELEFTQRSLNCLKRAGISTLRELVSKTEDEIQDIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFLGMN 320 KSL EIK + + L N Sbjct: 298 KSLKEIKDKVAALELTFKQN 317 >gi|290489660|gb|ADD31214.1| RNA polymerase alpha subunit protein [Ehretia acuminata] Length = 339 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 84/333 (25%), Positives = 160/333 (48%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID-- 66 +++ + + I PL +G A T+G A+RR L+ + G +IT V+ + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTSITRVKSESE 70 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 V HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E Sbjct: 71 KVPHEYSTISGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVE 130 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +++ I +L + + L + + GY+ H N G IDA++ P++ +++ Sbjct: 131 IVDNTQHIASLTEPIDLCIGLQIERNRGYLIKTPH---NFQDGSYPIDAVFMPVRNANHS 187 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 + S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 IHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENVHLEDNQH 246 Query: 247 VKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 L K +++ EL R NCL+ NI + DL+ ++ Sbjct: 247 TVPLSPFIFHDKLAKLRKKKKKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQE 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++++ +F + ++K +LG + ++L Sbjct: 307 DLMKIEHF---RIEDVKQILGILEKHFAIDLSK 336 >gi|116072177|ref|ZP_01469445.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. BL107] gi|116065800|gb|EAU71558.1| DNA-directed RNA polymerase alpha subunit [Synechococcus sp. BL107] Length = 312 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQIAEDRAQT-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ + Sbjct: 66 ATVPGVREDVLDILLNCKELSVNSRSAELEIGRLVVAGPAEVKASDLQFSSQVQVIDGNR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+K+V++ ++ Sbjct: 126 TIATVADGHSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVKRVNFNIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L + I TDGSIT +D++A + L + ++ E Sbjct: 186 AEGGSARERLRIEICTDGSITPDDALAQTANQLLELFQPLATVTLVEEVGVEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|331703690|ref|YP_004400377.1| DNA directed RNA polymerase subunit alpha [Mycoplasma mycoides subsp. capri LC str. 95010] gi|256384042|gb|ACU78612.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma mycoides subsp. capri str. GM12] gi|256384874|gb|ACU79443.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma mycoides subsp. capri str. GM12] gi|296455853|gb|ADH22088.1| DNA-directed RNA polymerase, alpha subunit [synthetic Mycoplasma mycoides JCVI-syn1.0] gi|328802245|emb|CBW54399.1| DNA directed RNA polymerase alpha chain [Mycoplasma mycoides subsp. capri LC str. 95010] Length = 317 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 112/317 (35%), Positives = 180/317 (56%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ ++P I +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 2 KQFVRPEFILLK--EGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T IILNIK + LK+ D ++ I G V AGD+ Sbjct: 60 GATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPVYAGDLDI 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +E+LN D +I + V+ + L GY K ++ E + G+ITID+ YSPI Sbjct: 120 PAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ Sbjct: 180 IKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNREISV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ ++ + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N GR Sbjct: 240 LEVIGTNQTD--DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + ++GL Sbjct: 298 KSLKEIKDKVASLGLAF 314 >gi|15835408|ref|NP_297167.1| DNA-directed RNA polymerase subunit alpha [Chlamydia muridarum Nigg] gi|7190822|gb|AAF39597.1| DNA-directed RNA polymerase, alpha subunit [Chlamydia muridarum Nigg] Length = 394 Score = 274 bits (701), Expect = 1e-71, Method: Composition-based stats. Identities = 118/359 (32%), Positives = 192/359 (53%), Gaps = 25/359 (6%) Query: 6 WQELIKPNNIEYIVLGQEE---ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 27 YNKFELPESVKMSPVEGAAGGIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 86 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+I+LN+KG LK G + +++ Sbjct: 87 FSMTGVLHEYMAVEGIIEDVTNIVLNLKGSLLKKYPLQDCEGGRASQKLRATISIDASDL 146 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G +T GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 147 AAAGGQKAITLGDLLQEGTFEAVNPEHVIFTVTRPMQLDVMLRVAFGRGYTPSERIVLEE 206 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 207 REMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLILQVETDGRVAPKEAVAFATQILS 266 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSVRSTNCLRGENIVYMG 282 +F +E + +E I+V+ + L K + E+ELSVRSTNCL NI +G Sbjct: 267 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRSTNCLSNANIETIG 326 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 +L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 327 ELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 385 >gi|76665073|emb|CAJ17984.1| DNA-directed RNA polymerase alpha subunit [Candidatus Phytoplasma solani] Length = 318 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 102/321 (31%), Positives = 174/321 (54%), Gaps = 8/321 (2%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 ++ E I +PL RG+ T+GNALRR+L+SSL GAAI V+I+GV E ++I Sbjct: 2 FVEELDENLTSGKFIIQPLERGYGVTIGNALRRILLSSLPGAAIVNVKIEGVEQEFTTIP 61 Query: 77 GVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 GV+ED+ IILN+K I K+ D +++ I GP VTA + + ++NP H Sbjct: 62 GVYEDVMTIILNLKKIVFKVDDESDDFEEQLEINLTGPKKVTAACFELPAGVTIINPKHH 121 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + M +T+ KG GYV AK ++ + IG+I ID+L++P+ V+Y V Sbjct: 122 ITTISDNINFHMTVTIKKGIGYVGAKDNKIHSENQIGVIAIDSLFTPVLDVAYQVGK--- 178 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 ++ + D+L++ I T+G+ ++++ A++IL + + + + ++ K Sbjct: 179 -KLGNKDELTIQITTNGAAVAKEALVTAAKILVEHFNVIVELSQKVANIEFIPETKEEAH 237 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 N L ++E+L+LSVR N L+ I + L++ +E +++++ + GRKS E+K Sbjct: 238 NYVLDLEIEQLDLSVRLFNSLKRAGINTVAALVKLSEKEVVKLKSLGRKSFQELKDKFVE 297 Query: 313 MGLFLGMNLPDWPPESIEELA 333 GL L + S EE Sbjct: 298 YGLEFNDYLKEALHHSTEEDK 318 >gi|330850862|ref|YP_004376612.1| DNA-directed RNA polymerase alpha chain [Fistulifera sp. JPCC DA0580] gi|328835682|dbj|BAK18978.1| DNA-directed RNA polymerase alpha chain [Fistulifera sp. JPCC DA0580] Length = 311 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 97/300 (32%), Positives = 163/300 (54%), Gaps = 4/300 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + + L G T+GN LRRVL+ L G AI+AV+I G+ HE S+I GV ED Sbjct: 15 ESGACQGRFVINALRAGQGITIGNQLRRVLLGDLGGMAISAVRIAGITHEFSTIPGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+KGI LK + + + +GP VVTA IQ +++E++NP+H I + Sbjct: 75 ILEILLNLKGIVLKSEINDIQFGRLKVQGPAVVTADLIQLPSNLEIINPNHYIATISTSN 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ++ +E G GY A T++ + +D ++ PI+KV + +E+ + ++L Sbjct: 135 ILEIEFKFEYGTGYKLATQTFTDDSE-NYLQLDTVFMPIQKVDFKIENVYDSANNITERL 193 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI+ +++ A++++ D + IN + + + +S P +E Sbjct: 194 LLDIWTNGSISPNEALESAAQVIVDLFTLLINNKNMVNTNQLESKPESSSIEPYTNIAIE 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL+LSVR+ NCL+ I +GDL+Q + + + NFGRKS E+ L LG+ L Sbjct: 254 ELQLSVRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFSTLKNK---LGIIL 310 >gi|267798445|gb|ACY78903.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798461|gb|ACY78911.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 274 bits (700), Expect = 2e-71, Method: Composition-based stats. Identities = 117/271 (43%), Positives = 180/271 (66%), Gaps = 8/271 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIRVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|267798443|gb|ACY78902.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798447|gb|ACY78904.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798449|gb|ACY78905.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798451|gb|ACY78906.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798453|gb|ACY78907.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798455|gb|ACY78908.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798459|gb|ACY78910.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798463|gb|ACY78912.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798465|gb|ACY78913.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798467|gb|ACY78914.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798469|gb|ACY78915.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798471|gb|ACY78916.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798473|gb|ACY78917.1| RNA polymerase alpha subunit [Vibrio cholerae] gi|267798475|gb|ACY78918.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 117/271 (43%), Positives = 180/271 (66%), Gaps = 8/271 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|149390473|ref|YP_001294302.1| RNA polymerase alpha subunit [Illicium oligandrum] gi|172048708|sp|A6MMX6|RPOA_ILLOL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|147917426|gb|ABQ52550.1| RNA polymerase alpha subunit [Illicium oligandrum] Length = 331 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 80/328 (24%), Positives = 154/328 (46%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RR L+ + G IT + + V Sbjct: 11 RTLQWKCVESRADSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I + + +I RGP VTA DI + ++++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVFRSHLYGTRGASICVRGPRYVTAQDIISPPSVKIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + +EL + + GY N G IDA+ P++ ++++ Sbjct: 131 DTTQYIASLTEPIDLCIELQIERDRGYRIKT---PNNYQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS T ++++ ASR L D F++ EE V+++ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSFTPKEALYEASRNLIDLFLPFLHAEEQDINVEDNQNRA 246 Query: 249 SLPFNPALL----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + P +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 TAPLFTFHDGLTNIGKRKKGIALKRVFIDQSELPTRTYNCLKRSNIHTLLDLLSNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +R+ +F + ++K +LG + ++ Sbjct: 307 MRIEHF---RIEDVKQILGILQKRFAID 331 >gi|261749445|ref|YP_003257131.1| DNA-directed RNA polymerase subunit alpha [Blattabacterium sp. (Periplaneta americana) str. BPLAN] gi|261497538|gb|ACX83988.1| DNA-directed RNA polymerase subunit alpha [Blattabacterium sp. (Periplaneta americana) str. BPLAN] Length = 332 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 116/326 (35%), Positives = 197/326 (60%), Gaps = 12/326 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + +KP+ I + + + + + +PL G+ TLGNALRRVL+ SL+G A+T+++I G Sbjct: 5 DFVKPDRI---TISEFTDQKGIFHLKPLEPGYGLTLGNALRRVLLGSLKGFAVTSIKIKG 61 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDI-QTVND 124 V +E S+I+GV ED+T+IILN K I K+ G + + + + + VT + + ++ Sbjct: 62 VKYEFSTIEGVVEDVTEIILNFKKIRFHRKIKGVTKETINVLIKNKEKVTGKILNEFISS 121 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKV 183 +VLN D VIC+ + + M T+ +G GYVPA+ ++ N+ IG I ID++Y+PIK V Sbjct: 122 FQVLNTDVVICHKEKSIPLEMSFTIEEGRGYVPAEENKKNNNDLIGNIPIDSIYTPIKNV 181 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN-----FEEPK 238 YT+E+ R GQ D++ LS+ I TDGS++ + ++ AS+IL +F + E + Sbjct: 182 KYTIENCRVGQKTDFESLSLEIITDGSMSPKTALMEASQILIKYFSIFSHEKIGKKEHEE 241 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + + + L L K+ +++LSVR+ NCL+ +I + DL+ ++ML+M NF Sbjct: 242 ISKERKYDEEFLRMRTLLKSKLTDMDLSVRTKNCLKSASIQSVADLVNCNRSNMLKMRNF 301 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDW 324 GRKSL E++ + GL+ GM++ ++ Sbjct: 302 GRKSLEELESQMKEKGLYFGMDISEY 327 >gi|78185545|ref|YP_377979.1| DNA-directed RNA polymerase subunit alpha [Synechococcus sp. CC9902] gi|119366744|sp|Q3AW70|RPOA_SYNS9 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78169839|gb|ABB26936.1| DNA-directed RNA polymerase, alpha subunit [Synechococcus sp. CC9902] Length = 312 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + IE+ + + + + PL RG A TLGNALRRVLM L G+A+TA++I GV HE Sbjct: 7 DRIEHQIAEDRAQT-GVFLIGPLERGQATTLGNALRRVLMGGLEGSAVTAIRIAGVNHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ GV ED+ DI+LN K +++ + + GP V A D+Q + ++V++ + Sbjct: 66 ATVPGVREDVLDILLNCKELSVNSRSAELEIGRLVVAGPAEVKASDLQFSSQVQVIDGNR 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P H + I L+ IDA++ P+K+V++ ++ Sbjct: 126 TIATVADGHSLELEVHVERGIGYRPVDRHNEDTSAIDLLQIDAVFMPVKRVNFNIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L + I TDGSIT +D++A + L + ++ E Sbjct: 186 AEGGSARERLRIEISTDGSITPDDALAQTANQLLELFQPLATVTLVEEVGVEPEPSAEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|254553679|gb|ACT67298.1| RNA polymerase alpha subunit [Joinvillea plicata] Length = 339 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 92/321 (28%), Positives = 160/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSGKVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI + +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY +N G IDA+ P++ V+Y++ S Y Sbjct: 141 EPIDLCIELQIKRDRGYHTEPR---KNSQDGSYPIDAVSMPVRNVNYSIYSCGNENE-KY 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDTNFEENKNRFTLPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ ++E D++++ NF Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKSEEDLMKIENF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K +L T+ L M+LP Sbjct: 314 MEDGKQILDTLQKHLSMDLPK 334 >gi|114330001|ref|YP_740682.1| RNA polymerase alpha subunit [Nandina domestica] gi|122165930|sp|Q09FS9|RPOA_NANDO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|114054503|gb|ABI49896.1| RNA polymerase alpha subunit [Nandina domestica] Length = 338 Score = 273 bits (699), Expect = 2e-71, Method: Composition-based stats. Identities = 81/335 (24%), Positives = 162/335 (48%), Gaps = 26/335 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWRCVESRTDSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGEIEGTCITHAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GP +TA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTCDASICVKGPINITAKDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPFDLCIGLQIERNRGY---RMKTPNKAQNGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIILEDNQNRV 246 Query: 249 SLPFNPALL---------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +LPF +++ EL R+ NCL+ NI + DL+ +++ D+L Sbjct: 247 TLPFFTFHDGLAKLKKKNEIALKFIFIDQSELPSRTYNCLKKSNINTLLDLLNKSQEDLL 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPES 328 ++ +F + ++K VLG + ++LP + Sbjct: 307 KIEHF---RIEDVKRVLGILQKRFVIDLPKNKFSN 338 >gi|68053044|sp|Q5QA74|RPOA_ACOGR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|56122468|gb|AAV74359.1| RpoA [Acorus gramineus] Length = 337 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 11 RALQWKCVESRADSKRLYYGRFILSPLLKGQADTIGIAMRRALLGEIEGTCITRAKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +EV+ Sbjct: 71 PHEYSTIAGIEESVHEILMNLKEIVLRSNLYGTRDASICVRGPRCVTAQDIISPPSVEVV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + T+N G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIGLQIQRDRGY---RMKTTKNSQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 188 SYGNGNQ-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEDINFEENQNRF 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++P + +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 TVPPFTFPDRLANLKKNKKEIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ F + ++K +L T+ ++LP Sbjct: 307 MKIEYF---RIEDVKQILDTLRKHFAIDLPK 334 >gi|118411080|ref|YP_874475.1| DNA-directed RNA polymerase alpha chain [Phaeodactylum tricornutum] gi|125987637|sp|A0T0K0|RPOA_PHATC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|116739827|gb|ABK20698.1| DNA-directed RNA polymerase alpha chain [Phaeodactylum tricornutum] Length = 311 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 100/313 (31%), Positives = 163/313 (52%), Gaps = 8/313 (2%) Query: 13 NNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 NNI L E + L G T+GN LRRVL+ L G AI+AV+I G+ Sbjct: 2 NNISIKCLKSEKIQSGACHGQFLINSLNPGQGITIGNQLRRVLLGDLGGVAISAVRIAGI 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I GV ED+ +I+LN+KGI + + +GP VVTA IQ +E++ Sbjct: 62 THEFSTIPGVREDILEILLNLKGIICTSQIQDTQFGHLKVQGPSVVTADLIQLPPGVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+H I + ++ +E G GY A + E D + +D ++ P++KV + +E Sbjct: 122 NPNHYIATISTSNILEIEFKFEYGSGYHLASQNFVEEDE-NYLQLDTIFMPVQKVDFKIE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + + ++L + I T+GSI+ D++ A++++ D + IN + + ++ + Sbjct: 181 NIYDATNNISERLFLDIWTNGSISPNDALESAAQVIIDLFTLLINNKNINNNNRLELKPE 240 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 ++ P +EEL+LSVR+ NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 241 TISIEPYTNIAIEELQLSVRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFS 300 Query: 309 VLGTMGLFLGMNL 321 L LG+ L Sbjct: 301 TLKNK---LGIIL 310 >gi|42561246|ref|NP_975697.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|61215950|sp|Q6MSP9|RPOA_MYCMS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|42492744|emb|CAE77339.1| DNA-directed RNA polymerase alpha chain [Mycoplasma mycoides subsp. mycoides SC str. PG1] gi|301321162|gb|ADK69805.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma mycoides subsp. mycoides SC str. Gladysdale] Length = 317 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 111/317 (35%), Positives = 180/317 (56%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ ++P I +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 2 KQFVRPEFILLK--EGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T IILNIK + LK+ D ++ I G + AGD+ Sbjct: 60 GATHEFTSIPGIIENVTKIILNIKQLVLKIDTSIYSDDEVVQLRIRSDIQGPIYAGDLDI 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +E+LN D +I + V+ + L GY K ++ E + G+ITID+ YSPI Sbjct: 120 PAGVEILNKDLLIATISEGGVLDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++ASRIL L FI+ Sbjct: 180 IKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASRILVAHLEFFIDLNREISV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ ++ + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N GR Sbjct: 240 LEVIGTNQTD--DKELDRTVEELDFTQRSLNCLKRAGINTLRELVSKNEDEIGSIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + ++GL Sbjct: 298 KSLKEIKDKVASLGLAF 314 >gi|114107078|ref|YP_740234.1| RNA polymerase alpha subunit [Liriodendron tulipifera] gi|122239940|sp|Q0G9I7|RPOA_LIRTU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|113201026|gb|ABI32541.1| RNA polymerase alpha subunit [Liriodendron tulipifera] Length = 337 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILAPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +E +I G+ E + +I++N+K I L+ + +I RGP VTA DI +E++ Sbjct: 71 PNEYYTIVGIEESVHEILMNLKEIVLRSHLYGTRDASICVRGPRYVTAQDIIPPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + +EL + + GY + N G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIELQIERDRGY---RMKTPNNYQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGN-RNEKQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEQDIVLEDNPNRF 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 ++P + +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 TVPLFTFHDRLANIRKNKKGIALKCIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ +F + ++K +L + ++LP Sbjct: 307 MRIEHF---RIEDVKQILDILQKHFTIDLPK 334 >gi|332178481|gb|AEE14170.1| DNA-directed RNA polymerase subunit alpha [Thermodesulfobium narugense DSM 14796] Length = 341 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 101/324 (31%), Positives = 176/324 (54%), Gaps = 14/324 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 I+ + + + + EPLP G+ T+GNALRRVL++S+ G+A+ AV++D HE Sbjct: 11 EIKEQLEIENGGKYSKFVLEPLPPGYGATIGNALRRVLLTSIPGSAVIAVRVDDAPHEYM 70 Query: 74 SIKGVHEDLTDIILNIKGINLK----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 ++ G+ ED+ + LN+K + + +S + +++ + +GP +V A DIQ +++++N Sbjct: 71 TLPGMVEDILEFHLNLKKLVVVVSPDISEEETRKLILDVKGPKIVKASDIQPNAEVQIIN 130 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND--PIGLITIDALYSPIKKVSYTV 187 D + L+ + +R E+TV KG GY+ + + G I +DA + PI +V+Y+V Sbjct: 131 KDLYLATLEENGELRAEITVKKGKGYISIEKMKENTRWLSPGSIPLDANFLPITRVNYSV 190 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF------EEPKKEV 241 ES R GQ D+DKL I T+G+I +++ +A+ L +F + E+P + Sbjct: 191 ESTRVGQETDWDKLIFEIWTNGAIEPVNALRIAAEDLISHFRIFAEYGTFLDSEKPVSDY 250 Query: 242 KEDINVKS--LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 KE L + +EE+ L R N L+ I +GDLI +T D+L + +FG Sbjct: 251 KETKKDSYLRSQAKMDLEQSIEEIGLQTRIANVLKRSGISTLGDLISKTREDILNVPSFG 310 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPD 323 +KSL E++ +L G L + + Sbjct: 311 KKSLDELEEILHAKGYRLKSSDEN 334 >gi|116617139|ref|YP_817514.1| RNA polymerase alpha subunit [Coffea arabica] gi|122153651|sp|A0A367|RPOA_COFAR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|116242195|gb|ABJ89710.1| RNA polymerase alpha subunit [Coffea arabica] Length = 335 Score = 273 bits (698), Expect = 3e-71, Method: Composition-based stats. Identities = 86/331 (25%), Positives = 156/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLG----QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +E+ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLEWKCVELRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I + + +I RGPG VTA DI +E++ Sbjct: 71 AHEYSTIAGIQESVHEILMNLKEIVFRSNLYGTCDASICVRGPGYVTAQDIVLPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY+ N G IDA++ PI+ +Y++ Sbjct: 131 DNTQHIARLMEPINLCIRLEIERNRGYLIKTPQ---NFQDGSYPIDAVFMPIRNANYSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHQASRNLIDLFIPFLHMEEQNSHLENNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ EL R NCL+ NI + DL+ ++ ++ Sbjct: 247 PLAPFFFHDKLDKLRKNKKEIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQENL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + L + LP Sbjct: 307 MKIEHF---HIEDVKEILGILEKQLVIFLPK 334 >gi|47679557|gb|AAT36722.1| RNA polymerase alpha subunit [Navicula salinicola] Length = 298 Score = 273 bits (697), Expect = 3e-71, Method: Composition-based stats. Identities = 97/298 (32%), Positives = 156/298 (52%), Gaps = 5/298 (1%) Query: 13 NNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 NNI L E + L G T+GN LRRVL+ L G AI+AV+I GV Sbjct: 2 NNISIKCLKSEKIQSGTCHGQFLINSLRPGQGITIGNQLRRVLLGDLGGVAISAVRIAGV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I GV ED+ +I+LN+KGI L + + +GP VVTA IQ ++E++ Sbjct: 62 SHEFSTIPGVREDILEILLNLKGIVLTSKTQETQFGRLKIQGPCVVTADLIQLPPNLEIV 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+ I + ++ +E G GY A ++ + +D ++ P+ KV + +E Sbjct: 122 NPNQYIATITTSNIIEIEFKFEYGIGYKFASQTFSDEAD-NFLQLDTVFMPVPKVDFKIE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + + ++L + I T+GSI D++ A++I+ D + IN ++ + + + Sbjct: 181 NVYDTANNITERLFIDIWTNGSIPPNDALESAAQIIIDLFTLLINNKDTNESSQLKTKAR 240 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S+ P +EEL+LSVR+ NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 241 SISMEPYTNIAIEELQLSVRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|254527170|ref|ZP_05139222.1| DNA-directed RNA polymerase, alpha subunit [Prochlorococcus marinus str. MIT 9202] gi|221538594|gb|EEE41047.1| DNA-directed RNA polymerase, alpha subunit [Prochlorococcus marinus str. MIT 9202] Length = 311 Score = 273 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 6 DRIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 64 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 65 ATIPGVREDVLDILLNCKQLSINSSSPDLEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 124 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 125 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 184 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 185 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 244 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 245 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDALE 298 Query: 312 TMGLF 316 +G+ Sbjct: 299 RIGIS 303 >gi|267798457|gb|ACY78909.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 269 Score = 273 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 117/271 (43%), Positives = 180/271 (66%), Gaps = 8/271 (2%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ Sbjct: 2 STTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDIL 61 Query: 84 DIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDA 141 +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A Sbjct: 62 EILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNA 121 Query: 142 VVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D Sbjct: 122 AIAMRIIVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDL 181 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DKL + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ Sbjct: 182 DKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLR 238 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 239 PVDDLELTVRSANCLKAEAIHYIGDLVQRTE 269 >gi|213420654|ref|ZP_03353720.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 271 Score = 273 bits (697), Expect = 4e-71, Method: Composition-based stats. Identities = 114/277 (41%), Positives = 179/277 (64%), Gaps = 10/277 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ + Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDV 237 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 ++ ++ + F+P LL+ V++LEL+VRS NCL+ Sbjct: 238 RQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLK 271 >gi|227873400|ref|ZP_03991657.1| DNA-directed RNA polymerase [Oribacterium sinus F0268] gi|227840761|gb|EEJ51134.1| DNA-directed RNA polymerase [Oribacterium sinus F0268] Length = 312 Score = 272 bits (696), Expect = 5e-71, Method: Composition-based stats. Identities = 120/312 (38%), Positives = 190/312 (60%), Gaps = 11/312 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 ++KP +E +E+ + + L +G A LGN+LRR+L+SS+ G+A++ V++D V Sbjct: 4 IMKP-VLEVKEFVEEQG-YARFVCDSLAKGEATVLGNSLRRILLSSMPGSAVSEVKLDSV 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 HE SSI GV ED+++II+N+K + L+ + G+ + G GVV A DI+ +++E Sbjct: 62 YHEFSSIPGVKEDVSEIIMNLKNLALRYTGSGEEPVMAYVDYMGEGVVKASDIKVSSEVE 121 Query: 127 VLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 ++NPD V+ +L DA + ME+ VSKG GY A + IG+I +DA+YSP+KKV+ Sbjct: 122 IMNPDLVLAHLSGKDAKIYMEMKVSKGKGYDGANTRDHSDLAIGVIAVDAIYSPVKKVNV 181 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE + + ++L + + TD ++ E++V+LA+RILQ L +F++ + KE + Sbjct: 182 FVE-----EQGNTERLILDVTTDRTMMPEEAVSLAARILQTHLQLFMHMDTSAKEQGAAV 236 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L K ++ELELSVRS NCL+ I + DL +T D++++ N GRKSL E Sbjct: 237 -ANQEAGRDELNKSIDELELSVRSYNCLKRAGINTVEDLCAKTMDDLMKVRNMGRKSLDE 295 Query: 306 IKGVLGTMGLFL 317 I L +MGLFL Sbjct: 296 ILNKLESMGLFL 307 >gi|69215824|gb|AAZ03868.1| RNA polymerase alpha chain [Ranunculus macranthus] Length = 339 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 79/333 (23%), Positives = 158/333 (47%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + GY + N G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPVDFCIGLQIESNRGY---RMKTPNNAQKGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + + L + I T+GS+T ++++ ASR L D F++ EE + +K++ Sbjct: 188 SYGNGNE-NQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNG 246 Query: 249 SLPFNPALL-----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 +++ EL R+ NCL+ NI + DL+ +++ D Sbjct: 247 VTLPFFTFHDGFDKLKKNKKEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQED 306 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL-GMNLPD 323 ++++ +F + ++K +L + ++LP Sbjct: 307 LMKIEHF---RIEDVKQILDIIQKHFVVIDLPK 336 >gi|47679549|gb|AAT36718.1| RNA polymerase alpha subunit [Chaetoceros gracilis] Length = 300 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 92/285 (32%), Positives = 152/285 (53%), Gaps = 1/285 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + L G T+GN LRRVL+S L G ITAV+I GV E S I G+ ED Sbjct: 17 ESGSMYGQFLINSLRPGQGITIGNLLRRVLLSDLEGTTITAVRIAGVQDEFSIIPGIRED 76 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+KG+ +K + + +GP VVTA IQ +IE++NP+H I + Sbjct: 77 ILEILLNLKGVVVKSATPDISFGRLKIKGPAVVTADSIQLPPNIEIINPNHYIATISTSN 136 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 V+ +E +G GY A + + IDA++ PI+KV + +E+ + ++L Sbjct: 137 VLEIEFKFERGTGYKLAGQTFCDKSE-DFLQIDAIFMPIQKVDFKIENVYDNSNSITERL 195 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI+ +D+++ AS+ + + + + + + NP + +E Sbjct: 196 FLDIWTNGSISPDDAISYASKFIIEFFNSLLENKITQNLEIIEDTNSLTQLNPHINIAIE 255 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 EL+LSVR+ NCL+ I +GDL++ + + + NFGRKS E+ Sbjct: 256 ELQLSVRAYNCLKRAQINTIGDLLEYSPEKLQELKNFGRKSADEV 300 >gi|328813975|gb|AEB52103.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 248 Score = 272 bits (696), Expect = 6e-71, Method: Composition-based stats. Identities = 111/248 (44%), Positives = 165/248 (66%), Gaps = 2/248 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K Sbjct: 1 VVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + LK+ + K + I +GP VTA DIQ D+ +LN D I + A + +++T Sbjct: 61 QVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTAD 120 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+ Sbjct: 121 KGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GS+T ++++LA++IL + L MF+N E + + + + L K +EEL+LSVR Sbjct: 181 GSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKTIEELDLSVR 240 Query: 269 STNCLRGE 276 S NCL+ Sbjct: 241 SYNCLKRA 248 >gi|313665551|ref|YP_004047422.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma leachii PG50] gi|312949424|gb|ADR24020.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma leachii PG50] Length = 317 Score = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 110/317 (34%), Positives = 180/317 (56%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ ++P I +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 2 KQFVRPEFILLK--EGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 60 GATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYGDDEVVQLKIRSDIQGPVYAGDLEL 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +EVLN D +I + ++ + L GY K ++ E + G+ITID+ YSPI Sbjct: 120 PAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 180 IKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREISV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N GR Sbjct: 240 LEVI--GVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + ++GL Sbjct: 298 KSLKEIKDKVASLGLAF 314 >gi|326909424|ref|YP_004327694.1| RNA polymerase alpha subunit [Hevea brasiliensis] gi|308523538|gb|ADO33588.1| RNA polymerase alpha subunit [Hevea brasiliensis] Length = 341 Score = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 81/334 (24%), Positives = 161/334 (48%), Gaps = 23/334 (6%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I +++ + +N I PL +G A T+G A+RR L+ + G IT + Sbjct: 8 ISTRTLQWKCVESRTDNKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKS 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + + HE S+I G+ E + +I++N+K I L+ + +I GPG VTA DI + Sbjct: 68 EKIPHEFSTIAGIQESIHEILMNLKEIVLRSNLYGTCNASICVEGPGYVTAQDIILPPFV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + + GY + + IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTEAIDLCIGLQIERNRGYRINPTNNFQVQDGSYS-IDAVFMPVRNANH 186 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 187 SVHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEKNQ 245 Query: 246 NVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + +LP + +++ EL+ + NCL+ NI + DL+++++ Sbjct: 246 HKVTLPLFTFHDRLTKLRKNKKEIALKYIFIDQSELTPKIYNCLKRSNIHTLSDLLKKSQ 305 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++++ +F + I G+L + ++LP Sbjct: 306 EDLMKIEHFRIDDVKHILGIL-EIEKHFAIDLPK 338 >gi|313199607|ref|YP_004021222.1| RNA polymerase alpha subunit [Isoetes flaccida] gi|291575336|gb|ADE18049.1| RNA polymerase alpha subunit [Isoetes flaccida] Length = 341 Score = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 84/323 (26%), Positives = 158/323 (48%), Gaps = 25/323 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + I PL G A+TLG A+RR + L G IT+ + + ++HE S++ G+ Sbjct: 22 KIENERLHHSRFIISPLGIGQANTLGIAMRRASLGELEGTCITSAKFEKIIHEYSTVVGI 81 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + D ++N+K I L+ + ++ I GPG +TA DI IE+++P I L Sbjct: 82 QESVHDTLINLKEIVLRSNSSEIQKAYISIIGPGEITAQDIILPPSIEIIDPAQHIATLT 141 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVLD 197 + +EL + + GY ++++ G ++A++ PI+ V+Y++ + + Sbjct: 142 KKIHLNIELRIERDRGYRRQNIVKSQD---GNFPLNAVFMPIRNVNYSIHCFESHDKKIM 198 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK------------------ 239 + L + I T+GSIT +++ ASR L + F++ E +K Sbjct: 199 KEMLLLEIWTNGSITPREAIYEASRSLINLFIPFLHAENGEKIYGMGNINESNALSCSVL 258 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + +++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG Sbjct: 259 PPMSIQVDQMAKEVTFRHIFIDQLELPPRAYNCLKRINVHTISDLLDYSQDDLMKIKNFG 318 Query: 300 RKSLVEIKGVLGTMGLFLGMNLP 322 KS ++ VL + G++LP Sbjct: 319 IKS---VEQVLEALWKRFGISLP 338 >gi|122894022|ref|YP_001004218.1| RNA polymerase alpha subunit [Ranunculus macranthus] gi|158514028|sp|A1XGS0|RPOA_RANMC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|85540836|gb|ABC70788.1| RNA polymerase alpha subunit [Ranunculus macranthus] Length = 346 Score = 272 bits (695), Expect = 6e-71, Method: Composition-based stats. Identities = 79/333 (23%), Positives = 158/333 (47%), Gaps = 29/333 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + GY + N G IDA++ P++ ++++ Sbjct: 131 DTTQHIASLTEPVDFCIGLQIESNRGY---RMKTPNNAQKGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + + L + I T+GS+T ++++ ASR L D F++ EE + +K++ Sbjct: 188 SYGNGNE-NQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDQNLKDNQKNG 246 Query: 249 SLPFNPALL-----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 +++ EL R+ NCL+ NI + DL+ +++ D Sbjct: 247 VTLPFFTFHDGFDKLKKNKKEIELKCIFIDQSELPSRTYNCLKRANIHTLLDLLNKSQED 306 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL-GMNLPD 323 ++++ +F + ++K +L + ++LP Sbjct: 307 LMKIEHF---RIEDVKQILDIIQKHFVVIDLPK 336 >gi|157414140|ref|YP_001485006.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9215] gi|172047296|sp|A8G739|RPOA_PROM2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157388715|gb|ABV51420.1| DNA-directed RNA polymerase, alpha subunit [Prochlorococcus marinus str. MIT 9215] Length = 312 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSSPDLEIGRLVASGPMDVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 186 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIDALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|83319728|ref|YP_424634.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma capricolum subsp. capricolum ATCC 27343] gi|119366699|sp|Q2SRH9|RPOA_MYCCT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|83283614|gb|ABC01546.1| DNA-directed RNA polymerase, alpha chain [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 317 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 110/317 (34%), Positives = 180/317 (56%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ ++P I +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 2 KQFVRPEFILLK--EGQDKNYGKFSVSPLERGFGITLGNAIRRTLLAATPGASVYAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 60 GATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDLEL 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND-PIGLITIDALYSPI 180 +EVLN D +I + ++ + L GY K ++ E + G+ITID+ YSPI Sbjct: 120 PAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNIEPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 180 IKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREISV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N GR Sbjct: 240 LEVI--GVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + ++GL Sbjct: 298 KSLKEIKDKVASLGLAF 314 >gi|295065759|ref|YP_003587699.1| RNA polymerase alpha subunit [Anomochloa marantoidea] gi|251765283|gb|ACT15437.1| RNA polymerase alpha subunit [Anomochloa marantoidea] Length = 339 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 92/331 (27%), Positives = 160/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G ALRR L+ + G IT + + V Sbjct: 11 RRLQWKCVESRVDSKRLYYGRFILSPLIKGQADTVGIALRRALLGEIEGTCITRAKSENV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L +EL + + GY +N IDA+ P++ V+Y++ Sbjct: 131 DTAQHIATLTEPIDFCIELQIKRDRGYYTELR---KNSQDESYPIDAVSMPVQNVNYSIF 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 188 SCGNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEESTNFEENKNRF 246 Query: 249 SLPF----------------NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + P P +++L+L R+ NCL+ NI + DL+ +TE D+ Sbjct: 247 TQPPLTLQKKLTNLKKNKKGVPLNSIFIDQLKLPSRTYNCLKRANIHTLLDLLSKTEEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 LR+ NF + + K +L T+ L ++LP Sbjct: 307 LRIDNF---RMEDGKQILDTLEKDLPIDLPK 334 >gi|123969275|ref|YP_001010133.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. AS9601] gi|123199385|gb|ABM71026.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. AS9601] Length = 340 Score = 272 bits (695), Expect = 7e-71, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 35 DRIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 93 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 94 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 153 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 154 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 213 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 214 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 273 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 274 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 327 Query: 312 TMGLF 316 +G+ Sbjct: 328 RIGIS 332 >gi|72382944|ref|YP_292299.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. NATL2A] gi|124026686|ref|YP_001015801.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. NATL1A] gi|90110857|sp|Q46IT2|RPOA_PROMT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|156637355|sp|A2C4X7|RPOA_PROM1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|72002794|gb|AAZ58596.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. NATL2A] gi|123961754|gb|ABM76537.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. NATL1A] Length = 312 Score = 271 bits (694), Expect = 8e-71, Method: Composition-based stats. Identities = 97/299 (32%), Positives = 154/299 (51%), Gaps = 7/299 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + PL RG A TLGN+LRRVLM L G+A+TAV+I GV HE ++I GV Sbjct: 12 QVSNDRSQTGVFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGVNHEYATIPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ DI+LN K I++ + + GP V A DIQ + +EV++ D I + Sbjct: 72 REDVLDILLNCKQISVDSRSQELEIGRLVVTGPADVKAKDIQFSSQVEVVDGDRPIATVQ 131 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE-GQVLD 197 + +E+ V +G GY P E I L+ IDA++ PI +V++T++ Sbjct: 132 EGHNLELEIHVERGVGYRPVDRKNEETSAIDLLQIDAVFMPINRVNFTIDETAVAEGGST 191 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 192 RERLKMELVTDGSTSPDDALAEAANQLIELFQPLATVSMVEEIPEEPEPAAEAQI----- 246 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L +G+ Sbjct: 247 -PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALERIGIS 304 >gi|290489688|gb|ADD31228.1| RNA polymerase alpha subunit protein [Gunnera manicata] Length = 330 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 82/325 (25%), Positives = 159/325 (48%), Gaps = 27/325 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFIMSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I LK + + +I RGPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIILKSNIYGTRDASICVRGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + ++L + K GY G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIQLQIEKNRGYRIKT---PNTYQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G+ + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 188 SYGNGKE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLEDNQYKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFTFHDRLAKLRKNKKEIALKSIFIDQSELPSRTYNCLKSSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFL 317 +++ +F S+ ++K +L + Sbjct: 307 MKIKHF---SIEDVKQILDILEKQF 328 >gi|156637358|sp|A2BTB5|RPOA_PROMS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha Length = 312 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 95/305 (31%), Positives = 159/305 (52%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 DRIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 186 AEGATGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|28261749|ref|NP_783263.1| RNA polymerase alpha subunit [Atropa belladonna] gi|41688712|sp|Q8S8V9|RPOA_ATRBE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|20068363|emb|CAC88076.1| RNA polymerase alpha subunit [Atropa belladonna] Length = 337 Score = 271 bits (694), Expect = 9e-71, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 157/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKFEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +II+N+K I L+ + ++ +GPG VTA DI +E++ Sbjct: 71 PHEYSTITGIQESVHEIIMNLKEIVLRSNLYGTSEASVCVKGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPQ---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLIKNNKKIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F +IK +LG + + ++L Sbjct: 307 MKIEHFRS---EDIKQILGILEKYFVIDLAK 334 >gi|295311758|ref|YP_003587497.1| RNA polymerase a-subunit [Oncidium Gower Ramsey] gi|254833135|gb|ACT83138.1| RNA polymerase a-subunit [Oncidium Gower Ramsey] Length = 339 Score = 271 bits (694), Expect = 1e-70, Method: Composition-based stats. Identities = 90/321 (28%), Positives = 158/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL +G A T+G A+RR L+ + G IT + VLHE S I G+ Sbjct: 21 RVDSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGRIEGTCITRATSENVLHEYSMIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I LK + + +I RGP +TA DI + +++++ I NL Sbjct: 81 EESVHDILINLKEIVLKSNLYGVRDASICVRGPKYITAQDIISPPSVKIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + +G GY T G ID + P++ ++++ S G Sbjct: 141 EPIDLCIELQIKRGRGY---HMKSTNESHDGSYPIDIVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D L F++ EE ++E+ +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEEEDMNLEENEKRWNLPLFSFQDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ ELS R+ NCL+ NI + DL+ ++ D+++M F Sbjct: 257 FTNLKKNKKGIPLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLNHSQEDLMKMEYF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +LGT+ +NLP Sbjct: 314 IEDVKQILGTLQKHFAINLPK 334 >gi|290489696|gb|ADD31232.1| RNA polymerase alpha subunit protein [Plumbago auriculata] Length = 333 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 81/329 (24%), Positives = 158/329 (48%), Gaps = 27/329 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + +N I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRTDNKRLSYGRFILFPLRKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + +I++N+K I L+ + + +I RGP +TA DI +E++ Sbjct: 71 AHEYSTLVGIQESVHEILMNLKEIVLRSNLYGTRDASICVRGPRCITAHDIILPPGVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY N G IDA++ P++ V++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLQLERNRGYRIQTQ---NNFQDGSYPIDAVFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLHFEANQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP K +++LE R NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPPFTFHDKLNELRKDKKKIALKSIFIDQLEFPPRIYNCLKNSNIHTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +++ +F + ++K + GT+ ++L Sbjct: 307 MQIEDF---RIEDLKQIWGTLEKNFSIDL 332 >gi|126697065|ref|YP_001091951.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9301] gi|156637354|sp|A3PF25|RPOA_PROM0 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|126544108|gb|ABO18350.1| Bacterial RNA polymerase, alpha chain [Prochlorococcus marinus str. MIT 9301] Length = 312 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 7 ERIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 65 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ + + + GP V A DIQ + +E+++ + Sbjct: 66 ATIPGVREDVLDILLNCKQLSINSTNPELEIGRLVASGPMEVKANDIQFSSQVEIVDGEK 125 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V++T++ Sbjct: 126 PIATIQEGHNLELEIHVERGVGYRPVDRKSEETTAIDLLQIDAVFMPVKRVNFTIDETAV 185 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 186 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 245 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 246 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 299 Query: 312 TMGLF 316 +G+ Sbjct: 300 RIGIS 304 >gi|289065121|ref|YP_003434007.1| RNA polymerase alpha subunit [Typha latifolia] gi|69215826|gb|AAZ03869.1| RNA polymerase alpha chain [Typha latifolia] gi|281371804|gb|ADA63731.1| RNA polymerase alpha subunit [Typha latifolia] Length = 339 Score = 271 bits (693), Expect = 1e-70, Method: Composition-based stats. Identities = 92/331 (27%), Positives = 161/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 I++ + + I PL +G A T+G A+RR L+ + G IT + + V Sbjct: 11 RTIQWKCVESRVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSERV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I+LN+K I L+ + + +I RGP VTA DI +E++ Sbjct: 71 PHEYSTIIGIEESVHEILLNLKEIVLRSNLYGVRDASICVRGPRYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 +P I NL + +EL + + GY + T N G IDA+ P++ ++++ Sbjct: 131 DPTQHIANLTEPIDLYIELQIKRDRGY---RMEPTNNSQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRF 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++LEL R+ NCL+ NI + DL+ + D+ Sbjct: 247 TLPFLTFQDRLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSNGQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ + ++K +L T+ ++LP Sbjct: 307 MRIEYL---RMEDVKQILDTLQKNFAIDLPK 334 >gi|303308472|gb|ADM14339.1| RNA polymerase alpha subunit [Punica granatum] Length = 337 Score = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 80/309 (25%), Positives = 150/309 (48%), Gaps = 20/309 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ +I +GPG VTA DI +E+++ I +L Sbjct: 81 QESVHEILMNLKEIVLRSYLYGTCNASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLM 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G IDA++ P++ ++++ S G Sbjct: 141 EPINLCIGLQIERNRGYHIKT---PNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D L F++ EE ++ + +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVTLPLFTFHDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R N L+ NI + DL+ +++ D++++ +F R+ Sbjct: 257 LTKLRKTKKEIALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLMKIKHFRRED 316 Query: 303 LVEIKGVLG 311 + +I +L Sbjct: 317 VEQILDILE 325 >gi|329565843|gb|AEB92258.1| DNA-directed RNA polymerase alpha subunit [Thermoanaerobacter thermohydrosulfuricus] Length = 250 Score = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 109/250 (43%), Positives = 159/250 (63%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ +IILN+K +K+ D Sbjct: 1 GNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVEIILNLKEGAVKLHSDEPVV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I G G VTAG I+ DIE+LNPDH I L D ME+ KG GYVP+ ++ Sbjct: 61 GRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKPHMEIVFVKGKGYVPSDKNKE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 N PIG+I +D++++P+K+VSY V++ R G V DYDKL++ + T+G+IT ++++++AS + Sbjct: 121 PNQPIGVIPVDSIFTPVKRVSYNVKNTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDM 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L FI+F K ++ L +EEL+LSVRS NCL+ I + + Sbjct: 181 LIKYFQKFISFTGEYKSSDIFVDKPEKKVEKPLDMTIEELDLSVRSYNCLKRAGINTVQE 240 Query: 284 LIQRTEADML 293 L Q+TE +M+ Sbjct: 241 LTQKTEEEMM 250 >gi|620029|gb|AAA74989.1| RNA polymerase alpha-subunit [Chlamydia trachomatis] Length = 380 Score = 271 bits (692), Expect = 1e-70, Method: Composition-based stats. Identities = 118/362 (32%), Positives = 191/362 (52%), Gaps = 28/362 (7%) Query: 6 WQELIKPNNIEYIVLGQ---EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 + + P +++ + + +A+PL +G HTLG+ALRR L+ L AI + Sbjct: 10 YNKFELPESVKMSPVEGAVGSIDKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVS 69 Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS-------GDSHKRVTIFKR------ 109 + GVLHE +++G+ ED+T+++LN+KG LK G +++ Sbjct: 70 FSMTGVLHEYMAVEGIIEDVTNMLLNLKGSLLKKYPLQDCEGGRCSQKLRATISVDASDL 129 Query: 110 ----GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 G VT GD+ E +NP+HVI + + + L V+ G GY P++ E Sbjct: 130 AAAGGQKEVTLGDLLQEGTFEAVNPEHVIFTVTRPMQLEVMLRVAFGRGYSPSERIVLEE 189 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + I +DA +SP+ V+Y VE R GQ D+D+L + ++TDG + +++VA A++IL Sbjct: 190 RGMNEIVLDAAFSPVVLVNYFVEDTRVGQDTDFDRLVLQVETDGRVAPKEAVAFATQILS 249 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK---VEELELSV---RSTNCLRGENIV 279 +F +E + +E I+V+ + L K + E+ELSV RSTNCL NI Sbjct: 250 KHFSVFEKMDEKRIVFEEAISVEKENKDDILHKLVLGINEIELSVRLIRSTNCLSNANIE 309 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYE 337 +G+L+ E +L+ NFG+KSL EIK L M L LGM+L + ++++E K Y Sbjct: 310 TIGELVIMPEPRLLQFRNFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYA 369 Query: 338 DK 339 +K Sbjct: 370 EK 371 >gi|303308474|gb|ADM14340.1| RNA polymerase alpha subunit [Punica granatum] Length = 337 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 80/309 (25%), Positives = 151/309 (48%), Gaps = 20/309 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GPG VTA DI +E+++ I +L Sbjct: 81 QESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDIILPPSVEIIDNTQHIASLM 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G IDA++ P++ ++++ S G Sbjct: 141 EPINLCIGLQIERNRGYHIKT---PNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D L F++ EE ++ + +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHAEEENLHLENNQYKVTLPLFTFHDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R N L+ NI + DL+ +++ D++++ +F R+ Sbjct: 257 LTKLRKTKKGIALKYIFIDQLELPPRIYNFLKKSNIHTLLDLLNKSQEDLMKIKHFRRED 316 Query: 303 LVEIKGVLG 311 + +I +L Sbjct: 317 VKQILDILE 325 >gi|68124013|emb|CAJ01914.1| DNA-directed RNA polymerase alpha chain [Chrysanthemum x morifolium] Length = 335 Score = 270 bits (691), Expect = 2e-70, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 161/331 (48%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQ----EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESAADSKRPFYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 SHEYSTIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++++ ++ Sbjct: 188 SYENGNK---EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHMI 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQDDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 305 MKMEHF---HIEDVKQILGILEKNFVIDLPK 332 >gi|47679553|gb|AAT36720.1| RNA polymerase alpha subunit [Thalassionema frauenfeldii] Length = 298 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 94/296 (31%), Positives = 159/296 (53%), Gaps = 4/296 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KP E + Q + + L G T+GN LRRVL+ + G AI+AV+I G+ H Sbjct: 7 KPLKSEKL---QSGGYYGQFLIDKLKLGQGITIGNQLRRVLLGEIGGTAISAVRIVGIRH 63 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E ++I GV ED+ +I+LN+KGI +K K + +GP V+TA I + I+++NP Sbjct: 64 EFATIPGVREDILEILLNLKGIVIKSDTTEIKFGRLKVQGPLVLTADSIDLPSGIKIVNP 123 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 +H I + + +E + G GY A + + + ID+++ P++KV++ +E+ Sbjct: 124 NHYIATISTSINLELEFKIEHGIGYKLASQLFNDEN-KNFLQIDSIFMPVQKVNFKIENL 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + ++L + I T+GSI +++ A +I+ + + + K+ K+ N + L Sbjct: 183 YDADNSISERLILEIWTNGSIEPIEALKKACKIIINCFNSLLKTQNTKETTKKTSNNRKL 242 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 P +EEL+LSVRS NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 243 TIEPYTNIAIEELQLSVRSYNCLKKAKINTVGDLLQYSPDQLQELKNFGRKSADEV 298 >gi|156618855|ref|YP_001430136.1| RNA polymerase alpha subunit [Cuscuta reflexa] gi|166209247|sp|Q8SKY1|RPOA_CUSRE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|156556040|emb|CAM98423.1| RNA polymerase alpha chain [Cuscuta reflexa] gi|165910451|gb|ABY73980.1| RNA polymerase alpha subunit [Cuscuta reflexa] Length = 335 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 158/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L++ + G IT V+ Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLTKGQADTIGIAMRRALLAEIEGTRITRVKFANT 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 SHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + L + + HGY H E+ G IDAL+ P++ ++++ Sbjct: 131 DSTQHIAWLTEPINFFIGLKIERNHGYFIKTHANFED---GSYPIDALFMPVRNANHSIN 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTI 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LE + NCL+ NI + DL+ ++ D+ Sbjct: 245 PLSPFTVYDKVAKLRKNKKKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++LP Sbjct: 305 IKIEHF---HLEDVKQILGILGKHFALDLPK 332 >gi|299830620|ref|YP_003735068.1| DNA-directed RNA polymerase alpha subunit [Durinskia baltica] gi|297384984|gb|ADI40283.1| DNA-directed RNA polymerase alpha subunit [Durinskia baltica] Length = 311 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 97/300 (32%), Positives = 156/300 (52%), Gaps = 4/300 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + L G T+GN LRRVL++ L G AI+AV+I G+ HE S+I GV ED Sbjct: 15 ESGACHGQFLINSLRPGQGITIGNQLRRVLLNDLGGVAISAVRIAGISHEFSTIPGVRED 74 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+K I LK + + + +GP VVTA IQ + IE++N I + Sbjct: 75 ILEILLNLKEIVLKSKTQTPQFGRLKIQGPAVVTADLIQLPSTIEIVNSHQYIMTISTSN 134 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 +V +E G GY A E + + +DA++ PI+KV + +E+ + + ++L Sbjct: 135 IVEIEFKFEYGTGYKLASQSFLEENE-NYLQLDAIFMPIQKVDFKIENVYDNRNSLTERL 193 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GSI+ +++ +A+ I D + + + + SL P +E Sbjct: 194 LLDIWTNGSISPNEAIKMAAEITIDLFTALLENKATNSQEEVKSKTSSLSIEPYTNIAIE 253 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 EL+LSVR+ NCL+ I +GDL+Q + + + NFGRKS E+ L LG+ L Sbjct: 254 ELQLSVRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEVFFTLKNK---LGIIL 310 >gi|12661177|gb|AAK01152.2|AF311314_2 RPoA [Marsilea quadrifolia] Length = 347 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 81/327 (24%), Positives = 159/327 (48%), Gaps = 21/327 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + P +G A+T+G A+RR L+ + GA+IT+ + +GV HE S++ G+ Sbjct: 27 RIESKRLHYGRFVISPFKKGQANTVGIAMRRALLGEVGGASITSARFEGVAHEYSTVAGI 86 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ D +++ + GP VTAGDI ++V++ I + Sbjct: 87 QETIHDILVNLKEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVKVIDDSQYIVTIT 146 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V +EL + GY + + +DA++ P++ V+Y+V G+ + Sbjct: 147 QPISVNIELNIECDCGYRIESLNEYRDGE---FPVDAVFMPVRNVNYSVHPFGSGKEM-R 202 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-------------- 244 + L + + T+GS+T ++++ AS+ D L F++ + E Sbjct: 203 EILFIEVWTNGSLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNRDSSSLMKFSSRV 262 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +V + +++LEL R+ NCL+ I + DL+ + D+L++ +FG+KS+ Sbjct: 263 DDVDKSEGDFFKNTFIDQLELPARAFNCLKRAEIHTISDLLSYSRDDLLKLKSFGKKSVD 322 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++ L LP+ P + + Sbjct: 323 QVSRALWER---FATELPNEKPRVVGD 346 >gi|125987861|sp|Q9BBN0|RPOA_MARQU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha Length = 341 Score = 270 bits (690), Expect = 2e-70, Method: Composition-based stats. Identities = 81/327 (24%), Positives = 159/327 (48%), Gaps = 21/327 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + P +G A+T+G A+RR L+ + GA+IT+ + +GV HE S++ G+ Sbjct: 21 RIESKRLHYGRFVISPFKKGQANTVGIAMRRALLGEVGGASITSARFEGVAHEYSTVAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ D +++ + GP VTAGDI ++V++ I + Sbjct: 81 QETIHDILVNLKEIVLRSDSDGNQKAILSVTGPKRVTAGDISLPPSVKVIDDSQYIVTIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 V +EL + GY + + +DA++ P++ V+Y+V G+ + Sbjct: 141 QPISVNIELNIECDCGYRIESLNEYRDGE---FPVDAVFMPVRNVNYSVHPFGSGKEM-R 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-------------- 244 + L + + T+GS+T ++++ AS+ D L F++ + E Sbjct: 197 EILFIEVWTNGSLTPTEAISKASKSSIDLLSPFLHTKHEDIPDFESNRDSSSLMKFSSRV 256 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +V + +++LEL R+ NCL+ I + DL+ + D+L++ +FG+KS+ Sbjct: 257 DDVDKSEGDFFKNTFIDQLELPARAFNCLKRAEIHTISDLLSYSRDDLLKLKSFGKKSVD 316 Query: 305 EIKGVLGTMGLFLGMNLPDWPPESIEE 331 ++ L LP+ P + + Sbjct: 317 QVSRALWER---FATELPNEKPRVVGD 340 >gi|159161193|ref|YP_001542479.1| RNA polymerase alpha subunit [Ceratophyllum demersum] gi|172048124|sp|A8SED5|RPOA_CERDE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|148508476|gb|ABQ81483.1| RNA polymerase alpha subunit [Ceratophyllum demersum] gi|227481150|emb|CAP62529.1| RNA polymerase alpha subunit [Ceratophyllum demersum] Length = 337 Score = 270 bits (690), Expect = 3e-70, Method: Composition-based stats. Identities = 84/321 (26%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ++RR L+ + G IT + D V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGISMRRALLGEIEGTCITRAKFDKVTHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEILMNLKEIVLRSNLYGTLDASICVRGPRSVTAQDIISPPSVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G ID ++ P++ ++++ S G Sbjct: 141 EPIDLCIGLQIERDRGYRLKT---PNNYQDGSYPIDTVFMPVRNANHSIHSYGNGTE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L + F++ EE + +++ N+ ++P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLINLFIPFLHAEEQEILLEDSENISTVPLFTFHNE 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ ++ D++R+ +F Sbjct: 257 LANLKKNKKGIALKCIFIDQLELPSRTYNCLKRSNIHTLFDLLSNSKEDLMRIEHF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +L + MNLP Sbjct: 314 VEDVKQILDILQKNFAMNLPK 334 >gi|78780012|ref|YP_398124.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9312] gi|119366708|sp|Q318K7|RPOA_PROM9 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78713511|gb|ABB50688.1| DNA-directed RNA polymerase subunit alpha [Prochlorococcus marinus str. MIT 9312] Length = 311 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 94/305 (30%), Positives = 158/305 (51%), Gaps = 8/305 (2%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I++ + + + PL RG A TLGN+LRRVLM L G+A+TAV+I G+ HE Sbjct: 6 ERIDHQIADDRSQT-GTFLIGPLERGQATTLGNSLRRVLMGGLEGSAVTAVRIAGINHEY 64 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 ++I GV ED+ DI+LN K +++ S + + GP V A DIQ + +E+++ + Sbjct: 65 ATIPGVREDVLDILLNCKQLSINSSNPELEIGRLVASGPLDVKANDIQFSSQVEIVDGEK 124 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + +E+ V +G GY P E I L+ IDA++ P+K+V+++++ Sbjct: 125 PIATIQEGHNLELEIHVERGVGYRPVDRKNQETTAIDLLQIDAVFMPVKRVNFSIDETAV 184 Query: 193 -GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++L M + TDGS + +D++A A+ L + ++ +E Sbjct: 185 AEGGTGRERLKMEVVTDGSTSPDDAIAEAANQLIELFQPLATVTMVEEIPEEPEPSPEAQ 244 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +EEL LSVR+ NCL+ + + DL+ + D+L + NFG KS E+ L Sbjct: 245 I------PLEELNLSVRAYNCLKRAQVNSVSDLMGFSYEDLLEIKNFGSKSADEVIEALE 298 Query: 312 TMGLF 316 +G+ Sbjct: 299 RIGIS 303 >gi|91209019|ref|YP_538881.1| RNA polymerase alpha subunit [Solanum bulbocastanum] gi|108773161|ref|YP_635671.1| RNA polymerase alpha subunit [Solanum tuberosum] gi|90110868|sp|Q2VEE8|RPOA_SOLTU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|109900624|sp|Q2MIF6|RPOA_SOLBU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|82754657|gb|ABB90071.1| RNA polymerase alpha chain [Solanum tuberosum] gi|84371926|gb|ABC56244.1| RNA polymerase alpha subunit [Solanum bulbocastanum] gi|88656835|gb|ABD47088.1| RNA polymerase alpha subunit [Solanum tuberosum] Length = 337 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 159/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTITGIQESVHEILMNLKEIVLRSNLYGTSDASICVKGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ H N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPH---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFIEIWTNGSLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ ELS R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLIKNKKKIALKSIFIDQSELSSRIYNCLKMSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F +IK +LG + + ++L Sbjct: 307 MKIEHFRS---EDIKQILGILEKYFVIDLAK 334 >gi|148982226|ref|ZP_01816652.1| DNA-directed RNA polymerase subunit alpha [Vibrionales bacterium SWAT-3] gi|145960588|gb|EDK25941.1| DNA-directed RNA polymerase subunit alpha [Vibrionales bacterium SWAT-3] Length = 278 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 116/284 (40%), Positives = 178/284 (62%), Gaps = 11/284 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP + + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVYIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL F++ + Sbjct: 178 YSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRD 237 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + +++ + P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 238 VRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHY 278 >gi|114329779|ref|YP_740597.1| RNA polymerase alpha subunit [Platanus occidentalis] gi|122166006|sp|Q09G14|RPOA_PLAOC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|114054417|gb|ABI49811.1| RNA polymerase alpha subunit [Platanus occidentalis] Length = 337 Score = 269 bits (689), Expect = 3e-70, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 162/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I RGPG VTA DI + +E + Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRNASICIRGPGYVTAQDIISPPSVETV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL +EL + + GY + N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPIDFCIELEIERNRGY---RMKTPNNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ +E ++++ N Sbjct: 188 SYANGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAQEENILLEDNQNGV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ EL R+ NCL+ NI + DL ++ D+ Sbjct: 247 TLPFFTFHDRLAKIRKNEKEIALKYIFIDQSELPPRTYNCLKRSNIHTLLDLFNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 307 MKIEDF---RIEDVKQILGILQKHFTVDLPK 334 >gi|306486177|gb|ADM92734.1| RNA polymerase alpha subunit protein [Davidia involucrata] Length = 328 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 79/325 (24%), Positives = 154/325 (47%), Gaps = 27/325 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFERI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G E + +I++N+K I L+ + +I +GPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGTQESVHEILMNLKEIVLRSNLYGTCDASICVKGPGYVTAQDIISPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DSTQYIASLTEPIDLCIGLQIERNRGYRIKM---PNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLEDNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP K +++ EL R NCL+ NI + D + ++ D+ Sbjct: 247 TLPLFTFHEKLAKLRKNKKKIALKYIFIDQSELPTRIYNCLKRSNIYTLLDFLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFL 317 +++ +F + ++K +LG + Sbjct: 307 MKIEHF---RIEDVKEILGILEKQF 328 >gi|290489700|gb|ADD31234.1| RNA polymerase alpha subunit protein [Staphylea colchica] Length = 342 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 81/334 (24%), Positives = 159/334 (47%), Gaps = 28/334 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADRKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDASICIKGPGYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + IDA++ P++ V+Y++ Sbjct: 131 DNTQHIASLTEPMDLCIGLQIERNRGYSIKTPNNFHFQDGSY-PIDAVFMPVRNVNYSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 190 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEDNGHLENNHHKL 248 Query: 249 SLPFNPALLKK-------------------VEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +LP + +++ ELS R NCL+ NI + DL+ ++ Sbjct: 249 TLPLFTFHDRLAKLRKKKKEQKEIVLKYIFIDQSELSPRIYNCLKRSNIHTLLDLLNNSQ 308 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D+L++ + + ++K +L + + ++LP Sbjct: 309 EDLLKIEDL---RIEDVKQILDILEIENTIDLPK 339 >gi|89280667|ref|YP_514884.1| RNA polymerase alpha subunit [Solanum lycopersicum] gi|109900622|sp|Q2MI69|RPOA_SOLLC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|84372014|gb|ABC56331.1| RNA polymerase alpha subunit [Solanum lycopersicum] gi|89241703|emb|CAJ32426.1| RNA polymerase alpha chain [Solanum lycopersicum] Length = 337 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 158/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTITGIQESVHEILMNLKEIVLRSNLYGTSEASICVKGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ H N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPH---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFIEIWTNGSLTPKEALHDASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ ELS R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLIKNKKKIALKSIFIDQSELSSRIYNCLKMSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F +IK +L + + ++L Sbjct: 307 MKIEHFRS---EDIKQILDILEKYFVIDLAK 334 >gi|290489656|gb|ADD31212.1| RNA polymerase alpha subunit protein [Aucuba japonica] Length = 349 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 80/328 (24%), Positives = 155/328 (47%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL + A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKSQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG +TA DI +E++ Sbjct: 71 PHEYSTIVGIQESIHEILMNLKEIVLRSNLYGTCDTSICVRGPGYITAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY+ N G IDA++ P++ V+Y++ Sbjct: 131 DKTQHIASLTEPIDLCIGLQIERNRGYLIKT---PNNFQDGSYPIDAVFMPVRNVNYSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLRKNKNKIALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +++ F + ++K +LG + ++ Sbjct: 307 MKIEQF---RIQDVKQILGILEKHFAID 331 >gi|311990462|gb|ADQ26361.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 252 Score = 269 bits (688), Expect = 4e-70, Method: Composition-based stats. Identities = 114/253 (45%), Positives = 161/253 (63%), Gaps = 6/253 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I E +N + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EFEKPN----IHKIDENDNYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EV Sbjct: 59 VLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEV 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y Sbjct: 119 LNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNY 178 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K + Sbjct: 179 QVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMV 238 Query: 246 NVKSLPFNPALLK 258 + L Sbjct: 239 EKEETHKEKMLEM 251 >gi|115604965|ref|YP_784418.1| RNA polymerase alpha subunit [Drimys granadensis] gi|122164409|sp|Q06GW5|RPOA_DRIGR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|112032693|gb|ABH88328.1| RNA polymerase alpha subunit [Drimys granadensis] Length = 339 Score = 269 bits (688), Expect = 5e-70, Method: Composition-based stats. Identities = 80/331 (24%), Positives = 159/331 (48%), Gaps = 25/331 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A +G A+RR L+ + G IT + D + Sbjct: 11 RTLQWKCVESRTDSKRLSYGRFILSPLMKGQADMIGIAMRRALLGEIEGTCITRAKSDKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + I++N+K I L+ + +IF RGP VTA DI + ++++ Sbjct: 71 PHEYSTIVGIEESVHQILMNLKEIVLRSNLYGTCDASIFVRGPRCVTAQDIISPPSVKMV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + ++ I I+A+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIGLQIERDRGYRMKTPNNDQDGSYP-IPIEAVSMPVRNANHSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ AS L D F++ EE +++ +N Sbjct: 190 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASHNLIDLFIPFLHGEEEDINLEDSLNRG 248 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF K +++ EL R+ NCL+ NI + DL+ ++ D+ Sbjct: 249 TLPFFTFQDKLANLRKNKKAIALECIFIDQSELPPRTYNCLKRSNIHTLLDLLSNSQEDL 308 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ + + ++K +L + ++LP Sbjct: 309 MRIEHL---RIEDVKRILDILQKHFTIDLPK 336 >gi|324455908|gb|ADY39246.1| RNA polymerase alpha subunit [Vibrio variabilis] gi|324455910|gb|ADY39247.1| RNA polymerase alpha subunit [Vibrio sp. R-40493] Length = 262 Score = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 119/265 (44%), Positives = 179/265 (67%), Gaps = 8/265 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLA 60 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V + Sbjct: 61 VRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVER 120 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+ Sbjct: 121 GRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >gi|313199734|ref|YP_004021348.1| RNA polymerase alpha subunit [Theobroma cacao] gi|309321298|gb|ADO64841.1| RNA polymerase alpha subunit [Theobroma cacao] gi|328924811|gb|ADO64922.2| RNA polymerase alpha subunit [Theobroma cacao] Length = 327 Score = 269 bits (687), Expect = 5e-70, Method: Composition-based stats. Identities = 78/324 (24%), Positives = 154/324 (47%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRNAFICAKGPGYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G +DA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGYRIKT---PNNFHDGSYPLDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 CYGNDNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQHNV 246 Query: 249 SLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHDRLAKLRKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 +++ +F + ++K +LG + Sbjct: 307 MKIEHF---RIEDVKQILGILEKE 327 >gi|11465990|ref|NP_054532.1| RNA polymerase alpha subunit [Nicotiana tabacum] gi|78102570|ref|YP_358710.1| RNA polymerase alpha subunit [Nicotiana sylvestris] gi|133409|sp|P06269|RPOA_TOBAC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|90110850|sp|Q3C1M3|RPOA_NICSY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|11860|emb|CAA77376.1| RNA polymerase alpha subunit [Nicotiana tabacum] gi|10442805|gb|AAG15578.1| RNA polymerase alpha subunit [synthetic construct] gi|77799597|dbj|BAE46686.1| RNA polymerase alpha subunit [Nicotiana sylvestris] gi|225228|prf||1211235BK RNA polymerase alpha Length = 337 Score = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 158/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTITGIQESVHEILMNLKEIILRSNLYGTSDASICVKGPGSVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ H N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDFCIGLQIERNRGYLIKTPH---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEDNLYLQDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLIKNKKKIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F ++K +LG + + ++L Sbjct: 307 MKIEHFRS---EDVKRILGILEKYFVIDLAK 334 >gi|158148901|dbj|BAF81985.1| RNA polymerase alpha subunit [Lactobacillus parabrevis] Length = 246 Score = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 114/246 (46%), Positives = 167/246 (67%), Gaps = 4/246 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKIA 60 Query: 94 LKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 LK++G D + + I +GP +TAGDI D++VLNPD I + A M +T K Sbjct: 61 LKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDVLNPDLYIATVADGATFHMRMTADK 120 Query: 152 GHGYVPAKHHRTEN--DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A H+ +N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+G Sbjct: 121 GRGYVSADEHKAQNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI +++ALA++IL + L MF++ + K + + + L +EEL+LSVRS Sbjct: 181 SINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 240 Query: 270 TNCLRG 275 NCL+ Sbjct: 241 YNCLKR 246 >gi|47679551|gb|AAT36719.1| RNA polymerase alpha subunit [Thalassiosira sp. Cleve BA153110] Length = 300 Score = 269 bits (687), Expect = 6e-70, Method: Composition-based stats. Identities = 96/299 (32%), Positives = 154/299 (51%), Gaps = 7/299 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E +K IE + + L G T+GN LRRVL+ L+G AIT V+I G Sbjct: 9 ECLKSEKIE------SGSMYGQFLIDSLSSGQGITIGNLLRRVLLGDLKGTAITGVRIAG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V E S I GV ED+ +I+LN+KGI LK + + + GP V+TA IQ D+E+ Sbjct: 63 VKDEFSLIPGVREDILEILLNLKGIVLKSKNSTRQFARLRLHGPAVITASSIQLPPDVEI 122 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+H I L ++ +E + GH Y A ++ I DA++ P +K + V Sbjct: 123 INPNHYIATLSSSHILEIEFKIESGHDYRLANETFSDKLS-NFIETDAIFMPDQKDDFKV 181 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ + +++ + + T+GSI+ E ++ AS ++ D + +++ Sbjct: 182 ENVYDNSNNVKERVFLDVWTNGSISPEQAIFSASNLIIDLFKSITEHKINQEKESIKEKT 241 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ P +P +EEL+LSVR NCL+ I +GDL+ + +L + NFGRKS E+ Sbjct: 242 QTKPVDPYTHIAIEELQLSVRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADEV 300 >gi|50346815|ref|YP_053186.1| RNA polymerase alpha subunit [Nymphaea alba] gi|68053159|sp|Q6EW20|RPOA_NYMAL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|50250360|emb|CAF28626.1| RNA polymerase alpha subunit [Nymphaea alba] Length = 341 Score = 268 bits (686), Expect = 6e-70, Method: Composition-based stats. Identities = 81/328 (24%), Positives = 152/328 (46%), Gaps = 26/328 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RR L+ L G IT + D V Sbjct: 11 RTLQWKCVESRADSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGELEGTCITRAKSDKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + +I++N+K + + +I RGP VTA DI + +E++ Sbjct: 71 PHEYSTVVGIEESVHEILMNLKKMVFRSDLYGTLDASICVRGPRHVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + +G GY N G IDA+ P++ ++++ Sbjct: 131 DTTQHIAVLTEPVDLCIELKIERGRGYCTRTQ---NNYQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + N+K Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDINRNMEDNLK 246 Query: 249 SLPFNPALL---------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +++LEL R+ NCL+ NI + DL+ +++ D++ Sbjct: 247 RASVPFFAFDDGLDNIKREIILKRIFIDQLELPPRTYNCLKRSNIHTLLDLLSKSQEDLM 306 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 R+ +F + ++K + + ++L Sbjct: 307 RIEHF---RVEDVKQIFDILQKGFTIDL 331 >gi|313183854|ref|YP_004021697.1| RNA polymerase alpha subunit [Prunus persica] gi|309321466|gb|ADO65007.1| RNA polymerase alpha subunit [Prunus persica] Length = 326 Score = 268 bits (686), Expect = 6e-70, Method: Composition-based stats. Identities = 80/319 (25%), Positives = 154/319 (48%), Gaps = 24/319 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILAPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIIGIQESVHEILMNLKEIVLRSNLYGTRNASICIKGPGYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLCIELQIERNRGYRIKT---PNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +++ + + Sbjct: 188 SYVNGNE-KQEILFLEIWTNGSLTPKEALHDASRNLIDLFIPFLHAEEENLQLENNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFTFHGRLAKQRKNKKEIALQYIFIDQSELFPRVYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLG 311 +++ +F + + I +L Sbjct: 307 MKIKHFRIEDVKHILNILE 325 >gi|323148937|ref|YP_004222491.1| RNA polymerase alpha subunit [Smilax china] gi|308742628|gb|ADO33479.1| RNA polymerase alpha subunit [Smilax china] Length = 339 Score = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 87/321 (27%), Positives = 154/321 (47%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + V HE +I G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYFTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + I RGP VTA DI + +E+++ I L Sbjct: 81 KESVHEILINLKEIVLRSTLYGVRDAAICVRGPRYVTAQDIISPPSVEIVDTTQHIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY + T N G IDA+ P++ ++++ S G Sbjct: 141 EPIDLCIGLQIKRDRGY---RMKPTNNSKDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE KE+ N +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEGINFKENENRFTLPPFTLQDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ ++ D++R+ Sbjct: 257 LINLKKTKKCIPLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRIDYL---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +L T+ L +LP Sbjct: 314 IEDVKQILDTLQKHLASDLPK 334 >gi|167391838|ref|YP_001671715.1| RNA polymerase alpha subunit [Carica papaya] gi|166344165|gb|ABY86815.1| RNA polymerase alpha chain [Carica papaya] Length = 327 Score = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 82/321 (25%), Positives = 157/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDAFICVKGPGYVTAQDIVLPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L +R+ L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLRIGLQIERNRGYGIKT---PNNFQDGSYPIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE K ++ + + Sbjct: 188 SYGTGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHAEEEKFYLENNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHDRLAKLRKKKTEIAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 MKIEHFRTEDVKQILSILEKK 327 >gi|32487326|emb|CAE05901.1| OSJNBa0061C08.8 [Oryza sativa Japonica Group] gi|57834095|emb|CAE04760.3| OSJNBa0079C19.1 [Oryza sativa Japonica Group] Length = 446 Score = 268 bits (686), Expect = 7e-70, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 130 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 189 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 190 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 249 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 250 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 305 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 306 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 365 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 366 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 422 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 423 MQDGKQIWDTLEKHLPMDLPK 443 >gi|121720645|ref|YP_001001566.1| RNA polymerase alpha subunit [Nuphar advena] gi|69215822|gb|AAZ03867.1| RNA polymerase alpha chain [Nuphar advena] gi|84682236|gb|ABC60490.1| RNA polymerase alpha subunit [Nuphar advena] Length = 336 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 81/326 (24%), Positives = 156/326 (47%), Gaps = 24/326 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RR L+ L G IT + D V Sbjct: 11 RTLQWKCVESRADSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGELEGTCITRAKSDKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I + +I RGP VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKKIVFRSDLYGTLDASICVRGPRHVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + +G GY N G IDA+ P++ ++++ Sbjct: 131 DTTQHIAILTEPVDLCIELKIERGRGYC---MRTPNNYQDGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +++++ Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEQDINIEDNLKRA 246 Query: 249 SLPFNPALL-------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 ++PF +++ EL R+ NCL+ NI + +L+ +++ D++R+ Sbjct: 247 TVPFFTFHDGLDNMKREIILKRIFIDQSELPPRTYNCLKKSNIHTLLNLLSKSQEDLMRI 306 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNL 321 +F + ++K + + ++L Sbjct: 307 EHF---RVEDVKQIFDILQKGFTIDL 329 >gi|58758781|gb|AAW81783.1| RNA polymerase alpha subunit [Polytrichastrum pallidisetum] Length = 338 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 151/319 (47%), Gaps = 21/319 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + P G A+T+G A+RR L+ + G IT V HE S+I G+ Sbjct: 21 KVDSERLHYSRFAISPFRCGQANTVGIAMRRALLGEIEGTCITCAIFKKVTHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I LK + ++ I GP +TA DI +++++ I + Sbjct: 81 QESVHDILINLKEIVLKSNSSETQKAFISILGPKKITAQDIILPPSVKIIDTTQYIATIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY ++ + G IDA++ PI+ +Y+V S + Sbjct: 141 KPIHLDIELEIEKDCGYRIQDSVKSID---GYFPIDAIFMPIRNANYSVHSFENNNKI-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK--------------EVKED 244 + L + I T+GSIT ++++ ASR L D F++ E+ + Sbjct: 197 EILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHPEKKETIDRLKYTPNDISDFSSFSP 256 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + K +++LEL R+ NCL+ N + DL+ ++ D++++ NFG+KS Sbjct: 257 VTGKLTKEITFKHIFIDQLELPARAYNCLKRVNGHTISDLLNYSQDDLMKIKNFGKKS-- 314 Query: 305 EIKGVLGTMGLFLGMNLPD 323 ++ VL + +NLP Sbjct: 315 -VEQVLEALEKQFSINLPK 332 >gi|108802673|ref|YP_636331.1| RNA polymerase alpha subunit [Eucalyptus globulus subsp. globulus] gi|309322478|ref|YP_003933992.1| RNA polymerase alpha subunit [Eucalyptus grandis] gi|90110843|sp|Q49KW6|RPOA_EUCGG RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|60460839|gb|AAX21059.1| RNA polymerase alpha subunit [Eucalyptus globulus subsp. globulus] gi|308223312|gb|ADO23620.1| RNA polymerase alpha subunit [Eucalyptus grandis] Length = 337 Score = 268 bits (686), Expect = 8e-70, Method: Composition-based stats. Identities = 81/324 (25%), Positives = 158/324 (48%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRNASICVKGPGCVTAQDIILPTSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + + L + + GY +N G IDA++ P++ ++++ Sbjct: 131 DNTQYIANLTEPINLCIGLQIERNRGYHIKT---PKNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPFFTFHDRLAKLRKTKKEIALKSIFIDQFELPPRTYNCLKRYNIHTLFDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 ++M F + ++K +L ++ + Sbjct: 307 MKMEYF---RIEDVKQILDSLEIE 327 >gi|325126897|ref|YP_004286134.1| RNA polymerase alpha subunit [Fragaria vesca subsp. vesca] gi|324022809|gb|ADY15383.1| RNA polymerase alpha subunit [Fragaria vesca subsp. vesca] Length = 331 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 80/321 (24%), Positives = 150/321 (46%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILAPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+ G+ E + +I++N+K I L+ + + +I +GPG VTA DI IE++ Sbjct: 71 PHEYSTFVGIQESVHEILMNLKEIVLRSNLYGTRNASICVKGPGYVTAQDIILPPSIEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLCIELQIERNRGYRIKT---PNNFQEGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE + + + Sbjct: 188 SYVNGNE-KQEILFIEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHFENNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFTFHGKLANPKKIKKENTLKYIFIDQSELPPRVYNCLKRSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ + + + I +L Sbjct: 307 MKIKHLRIEDVKHILNILEIK 327 >gi|169794105|ref|YP_001718469.1| RNA polymerase alpha subunit [Manihot esculenta] gi|157695917|gb|ABV66186.1| RNA polymerase alpha subunit [Manihot esculenta] Length = 343 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 80/336 (23%), Positives = 157/336 (46%), Gaps = 25/336 (7%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I +++ + +N I PL +G A T+G A+RR L+ + G IT + Sbjct: 8 ISTRTLQWKCIESRTDNKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKS 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + + HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI + Sbjct: 68 EKIPHEFSTIAGIQESIHEILMNLKEIVLRSNLYGTCDASICVKGPGYVTAQDIILPPFV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + + GY + + IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLTKAIDLCIGLQIERNRGYRIKPTNNFQVQDGSYS-IDAVFMPVRNANH 186 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 187 SVHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDFFIPFLHAEEENLHLEIEK 245 Query: 246 NVKSLPFNPA------------------LLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 N + +++ EL+ + NCL+ NI + DL+ + Sbjct: 246 NQHKVTLPLFCFHDKLTKLRKNKKEIVLKYIFIDQSELTPKIYNCLKRSNIHTLSDLLNK 305 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ D++++ +F + I G+L + ++LP Sbjct: 306 SQEDLMKIEHFRIDDVKHILGIL-EIEKHFTIDLPK 340 >gi|299767525|gb|ADJ38428.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767527|gb|ADJ38429.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767529|gb|ADJ38430.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767531|gb|ADJ38431.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767533|gb|ADJ38432.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767535|gb|ADJ38433.1| RNA polymerase alpha-subunit [Vibrio communis] gi|299767537|gb|ADJ38434.1| RNA polymerase alpha-subunit [Vibrio communis] Length = 262 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 119/265 (44%), Positives = 180/265 (67%), Gaps = 8/265 (3%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 PLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLA 60 Query: 94 LKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSK 151 +++ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V + Sbjct: 61 VRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVER 120 Query: 152 GHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVPA H+ + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+ Sbjct: 121 GRGYVPASARIHNEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VR Sbjct: 181 GTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVR 237 Query: 269 STNCLRGENIVYMGDLIQRTEADML 293 S NCL+ E I Y+GDL+QRTE ++L Sbjct: 238 SANCLKAEAIHYIGDLVQRTEVELL 262 >gi|118411212|ref|YP_874606.1| DNA-directed RNA polymerase alpha chain [Thalassiosira pseudonana] gi|125987639|sp|A0T0Z4|RPOA_THAPS RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|116739959|gb|ABK20829.1| DNA-directed RNA polymerase alpha chain [Thalassiosira pseudonana] Length = 313 Score = 268 bits (685), Expect = 9e-70, Method: Composition-based stats. Identities = 101/316 (31%), Positives = 158/316 (50%), Gaps = 10/316 (3%) Query: 6 WQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 E IK IE + + L G T+GN LRRVL+ L+G AIT V+I Sbjct: 7 LMECIKSEKIE------SGPMYGQFLIDSLSSGQGITIGNLLRRVLLGDLQGTAITGVRI 60 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 GV E S I GV ED+ +I+LN+KGI LK + + + +GP V+TA IQ +I Sbjct: 61 AGVKDEFSLIPGVREDILEILLNLKGIVLKSKTPNRQFGRLRLQGPAVITASSIQLPPEI 120 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NP+H I + ++ +E + G Y A ++ I DA++ P++KV + Sbjct: 121 EIINPNHYIATISSSHILEIEFKIESGSKYRLANELFSDKFE-DFIETDAIFMPVQKVDF 179 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ + ++L + I T+GSI+ E ++ S ++ + + K++ Sbjct: 180 KVENVYDNSNNIKERLLIDIWTNGSISPEQAIFSGSNLIINLFKSIGEQKINKEKENIKE 239 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 P +P +EEL+LSVR NCL+ I +GDL+ + +L + NFGRKS E Sbjct: 240 KNHIKPIDPYTHIAIEELQLSVRPYNCLKRAQINTIGDLLDYSPEKLLELKNFGRKSADE 299 Query: 306 IKGVLGTMGLFLGMNL 321 + L LG+ L Sbjct: 300 VFATLKNK---LGIVL 312 >gi|156598421|gb|ABU85470.1| RNA polymerase alpha subunit [Musa acuminata] Length = 339 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 87/321 (27%), Positives = 155/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL +G A T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFVLSPLMKGQADTIGIAMRRALLGEIEGTCITRANSEKVPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEILLNLKEIVLRSNIYGVRDASICARGPKYVTAQDIISPPSVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY T N G IDA+ P++ ++++ S G Sbjct: 141 EPIDLCIGLQIRRDRGYRTKP---TTNSQNGSYPIDAVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE KE+ N +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFKENKNRFTLPIFTFQDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ EL R+ NCL+ NI + DL+ +++ D++R+ F Sbjct: 257 LTNLKKNKKEIPLKCIFIDQSELPSRTYNCLKRSNIHTLLDLLNKSQEDLMRIEYF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K + T+ ++LP Sbjct: 314 IEDVKEISDTLQKHFAIDLPK 334 >gi|4379135|emb|CAA83722.1| DNA-directed RNA Polymerase (alpha) [Mycoplasma capricolum subsp. capricolum ATCC 27343] Length = 317 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 111/317 (35%), Positives = 180/317 (56%), Gaps = 10/317 (3%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ ++P I +++N PL RGF TLGNA+RR L+++ GA++ A++I Sbjct: 2 KQFVRPEFILLK--EGQDKNYGKXXVSPLERGFGITLGNAIRRTLLAATPGASVYAIKIA 59 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT 121 G HE +SI G+ E++T IILNIK + L++ D ++ I G V AGD++ Sbjct: 60 GATHEFTSIPGIIENVTKIILNIKQLVLRIDTSIYSDDEVVQLKIRSDIQGPVYAGDLEL 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPI 180 +EVLN D +I + ++ + L GY K ++ E N G+ITID+ YSPI Sbjct: 120 PAGVEVLNQDLLIATISEGGILDLVLYAKNSRGYKTFKDNKNEKNVEPGMITIDSNYSPI 179 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y+V+SA+ G+ +D +KL + + TDGSIT D++++AS+IL L FI+ Sbjct: 180 IKVAYSVDSAKIGRAIDLEKLELEVTTDGSITAIDAISIASKILVAHLEFFIDLNREISV 239 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 ++ + + L + VEEL+ + RS NCL+ I + +L+ + E ++ + N GR Sbjct: 240 LEVI--GVNQTDDKELDRTVEELDFTQRSLNCLKRAGINTLRELVTKNEDEIGSIRNLGR 297 Query: 301 KSLVEIKGVLGTMGLFL 317 KSL EIK + ++GL Sbjct: 298 KSLKEIKDKVASLGLAF 314 >gi|47679555|gb|AAT36721.1| RNA polymerase alpha subunit [Cylindrotheca fusiformis] Length = 291 Score = 268 bits (685), Expect = 1e-69, Method: Composition-based stats. Identities = 93/286 (32%), Positives = 158/286 (55%), Gaps = 2/286 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + L G T+GN LRRVL++ L G AI+A +I GV HE S+I GV ED Sbjct: 7 ESGACHGQFLINSLKPGQGITIGNQLRRVLLNDLGGVAISAARIAGVSHEFSTIPGVRED 66 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+KGI LK + + + +GP VVTA IQ +D+E++NP+H + + Sbjct: 67 ILEILLNLKGIVLKSKTQTAQFGRLKIQGPTVVTADLIQLPSDLEIVNPNHYLMTISTSN 126 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 V+ +E G GY + + +D ++ P++KV++ +E+ + +++ Sbjct: 127 VLEIEFKFEYGTGYKLTSQAFLDESD-NYLQLDTIFMPVQKVNFKIENVYDNNNNITEQV 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK-EDINVKSLPFNPALLKKV 260 + I T+GSI+ +++ A++I D + + +E K++ K E V S+ P + Sbjct: 186 FLDIWTNGSISPNEALKSAAQITIDLFELLLKNKETKEKNKLEATKVPSISIEPYTNIAI 245 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 EEL+LSVR+ NCL+ I +GDL++ + + + NFGRKS E+ Sbjct: 246 EELQLSVRAYNCLKKAQINTVGDLLKYSPEKLQELKNFGRKSADEV 291 >gi|110227111|ref|YP_665590.1| RNA polymerase alpha subunit [Populus alba] gi|122243407|sp|Q14FC5|RPOA_POPAL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|109945549|dbj|BAE97237.1| RNA polymerase alpha chain [Populus alba] Length = 339 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 84/334 (25%), Positives = 163/334 (48%), Gaps = 25/334 (7%) Query: 10 IKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I +++ + + I PL +G A T+G A+RR L+ + G IT + Sbjct: 8 ISTRTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKS 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI + Sbjct: 68 KKIPHEFSTITGIQESIHEILMNLKEIVLRSNLYGTHNASICVKGPGCVTAQDIILPPSV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + + GY +N G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLREPIDLHIGLEIERNRGYC---MKPPKNFQDGSYSIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 185 SVHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEESFHLEKNQ 243 Query: 246 NVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + +LP + +++LEL+ + NCL+ NI + DL++ ++ Sbjct: 244 HKITLPLFAFHDRLAKLRKNQKEIALKSIFIDQLELAPKIYNCLKRSNIHTLWDLLKNSQ 303 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++++ +F + + I G+L + +NLP Sbjct: 304 EDLMKIEHFRIEDVKHIFGILK-IEKHFTINLPK 336 >gi|218282068|ref|ZP_03488367.1| hypothetical protein EUBIFOR_00938 [Eubacterium biforme DSM 3989] gi|218216942|gb|EEC90480.1| hypothetical protein EUBIFOR_00938 [Eubacterium biforme DSM 3989] Length = 321 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 95/298 (31%), Positives = 163/298 (54%), Gaps = 2/298 (0%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE N I EPL RGF T+GN + R L++S+ G I ++ G + + + G+ ED Sbjct: 20 NEENNTGSYIFEPLERGFGITIGNTICRTLLTSVPGTRIVGFKVSGFDGKATMVDGILED 79 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + I LN+K + L G+ + + I K+GP + A DI +EV++P+ VIC L+ A Sbjct: 80 IYRISLNLKAVQLYNDGEGFQTLHISKKGPATIQAADIICPEAVEVVDPEQVICTLEKGA 139 Query: 142 VVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ G GY + ++ + + ++ +DA ++PI+K Y E AR G YDK Sbjct: 140 SLEMEIYAVTGTGYKSSIENKVSYDFGEDVVVLDATFTPIRKADYLSEPARVGLDKKYDK 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF-NPALLKK 259 + + ++TDG+IT ++ +A+++ + L + + + E + + Sbjct: 200 VHINVETDGTITPLQAITMAAKVCMENLDEVLTVSDLELEESFMVQKPQVEDVKKVNTMM 259 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E+L+LSVRS NCL+ I + +L Q+TE +M+ + N G+KSL E+K + +GLF Sbjct: 260 IEDLDLSVRSYNCLKRAGIQTVDELTQKTEDEMMHVKNLGKKSLKEVKDKMYQLGLFF 317 >gi|134093233|ref|YP_001109534.1| RNA polymerase alpha subunit [Populus trichocarpa] gi|158513819|sp|A4GYU3|RPOA_POPTR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|133712095|gb|ABO36738.1| RNA polymerase alpha subunit [Populus trichocarpa] Length = 339 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 84/334 (25%), Positives = 163/334 (48%), Gaps = 25/334 (7%) Query: 10 IKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I +++ + + I PL +G A T+G A+RR L+ + G IT + Sbjct: 8 ISTRTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKS 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI + Sbjct: 68 KKIPHEFSTITGIQESIHEILMNLKEIVLRSNLYGTHDASICVKGPGCVTAQDIILPPSV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + + GY +N G +IDA++ P++ ++ Sbjct: 128 EIIDNTQHIASLREPIDLHIGLEIERNRGYC---MKPPKNFQDGSYSIDAVFMPVRNANH 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +V S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ Sbjct: 185 SVHSYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENFHLEKNQ 243 Query: 246 NVKSLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + +LP + +++LEL+ + NCL+ NI + DL++ ++ Sbjct: 244 HKITLPLFAFHDRLAKLRKNQKEIALKSIFIDQLELAPKIYNCLKRSNIHTLWDLLKNSQ 303 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 D++++ +F + + I G+L + +NLP Sbjct: 304 EDLMKIEHFRIEDVKHIFGILK-IEKHFTINLPK 336 >gi|18767372|gb|AAL79338.1|AC099402_2 Putative RNA polymerase alpha subunit [Oryza sativa] gi|21327372|gb|AAM48277.1|AC122148_30 Putative RNA polymerase alpha subunit [Oryza sativa Japonica Group] gi|110288947|gb|ABB47310.2| DNA-directed RNA polymerase alpha chain, putative, expressed [Oryza sativa Japonica Group] Length = 446 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 130 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 189 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 190 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 249 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 250 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNAR-Y 305 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 306 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 365 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 366 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 422 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 423 MQDGKQIWDTLEKHLPMDLPK 443 >gi|91984023|ref|YP_567109.1| RNA polymerase alpha subunit [Vitis vinifera] gi|122230333|sp|Q0ZIY7|RPOA_VITVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|91701681|gb|ABE47565.1| RNA polymerase alpha subunit [Vitis vinifera] Length = 331 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 83/328 (25%), Positives = 160/328 (48%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + +N I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRVDNKRLCYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + I RGPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRGAFICARGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY R N G IDA++ P++ ++++ Sbjct: 131 DNTQHIARLMEPIDLCIGLQIERNRGY---SIKRPNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + + Sbjct: 188 SYGNGNER-QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEETLHLEYNQHKS 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++LEL R NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPPLTFHDRLAKLRKNKKEIELKYIFIDQLELPPRIYNCLKRSNIHTLLDLLNKSQKDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +++ +F + ++K +LG + ++ Sbjct: 307 MKIEDF---RIEDVKQLLGILEKHFTID 331 >gi|11465443|ref|NP_045166.1| RNA polymerase alpha subunit [Cyanidium caldarium] gi|12230610|sp|Q9TLV2|RPOA_CYACA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|6466346|gb|AAF12928.1|AF022186_50 unknown [Cyanidium caldarium] Length = 310 Score = 267 bits (684), Expect = 1e-69, Method: Composition-based stats. Identities = 100/302 (33%), Positives = 166/302 (54%), Gaps = 10/302 (3%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + E + EPL G A T+GNALRRVL+S + G I +V+I G+ HE S++KGV Sbjct: 17 VINSREIYGKFMIEPLSYGQAITVGNALRRVLLSDVPGVTIVSVRIAGINHEFSTVKGVK 76 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ +I+LN+K I LK + ++ + +GP +VT+G I+ DI V++P I + Sbjct: 77 EDVLEILLNLKNIVLKGNVLKNQIGRLKVQGPAIVTSGQIEFPLDITVVDPCQYIATISG 136 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + MEL V K GY + ++ P+ + ID+++ P+KKV+Y VE + +V Y+ Sbjct: 137 NDYLEMELKVEKSSGYKLVETF-SKKSPLDFLPIDSIFMPVKKVNYYVEEILDSKVA-YE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 KL + + T+GS++ + S+ AS L + ++ + + K Sbjct: 195 KLILELWTNGSLSPQQSINYASDNLVKLFNPLRV-----LDFSKESSSVYEQNSLIKQKL 249 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL LSVR+ NCL+ + +GDL++ + D+L + NFG+KS+ E+ L G+ Sbjct: 250 IEELCLSVRAYNCLKRVQVDSIGDLLEYSIGDLLEIKNFGQKSVEEVSKALY---KKFGV 306 Query: 320 NL 321 L Sbjct: 307 KL 308 >gi|118572712|sp|Q60F88|RPOA_TAKLE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|99653933|dbj|BAD60944.2| DNA-dependent RNA polymerase alpha subunit [Takakia lepidozioides] Length = 341 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 81/322 (25%), Positives = 151/322 (46%), Gaps = 24/322 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P G A T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSARLHYSRFAISPFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVTHEYSTILGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + D+++N+ I L+ ++ I GP VTA DI +++++ I + Sbjct: 81 QESVHDVLINLGEIVLRSDSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY ++ + G +DA++ PI+ V+Y+V S G Sbjct: 141 KAIHLDIELKIEKDFGYRIEDPIKSAD---GNFPVDAVFMPIRNVNYSVHSFENGNET-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP----------KKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L + F++ E+ + + + Sbjct: 197 EILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPS 256 Query: 249 SLPFNPALLK-------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + K +++LEL R+ NCL+ N + DL+ ++ D++++ NFG+K Sbjct: 257 LSADIDEMTKGVTFKHIFIDQLELPARAYNCLKRVNAHTISDLLNYSQDDLMKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S ++ VL + +NLP Sbjct: 317 S---VEQVLEALQKRFSINLPK 335 >gi|58491826|gb|AAW78552.1| RNA polymerase alpha subunit [Sphagnum fimbriatum] Length = 338 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 84/318 (26%), Positives = 154/318 (48%), Gaps = 20/318 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + P G A+T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 22 KVDSERLHYGRFAISPFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVTHEYSTILGI 81 Query: 79 HEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI++N+K I LK + ++ + GP VTA DI +EV++ I Sbjct: 82 QESVRDILINLKEIVLKSKSNSCETQKAFLSIFGPKEVTARDIIFPPSVEVIDTTQYIAT 141 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L + +EL + K GY ++ + G ++DA+++PI+ +Y+V S Sbjct: 142 LTKAIHLDIELKIEKDCGYRTQDSIKSAD---GYFSVDAVFTPIRNANYSVHSFENKNET 198 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----------- 245 + L + I T+GS+T ++++ ASR L D F++ E+ + ++ Sbjct: 199 -QEILFIEIWTNGSVTPKEALYEASRSLIDLFIPFLHAEKEEVMHDKNESNTLHFSSSPS 257 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 K +++LEL R+ NCL+ ++ + DL+ ++ D++++ NFG+KS Sbjct: 258 ENKMEKEMTFKHIFIDQLELPARAYNCLKRVDVHTISDLLSYSQDDLMKIKNFGKKS--- 314 Query: 306 IKGVLGTMGLFLGMNLPD 323 ++ VL + + LP Sbjct: 315 VEQVLEALQKRFSIKLPK 332 >gi|156598227|gb|ABU85377.1| RNA polymerase alpha subunit [Elaeis oleifera] Length = 339 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 156/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVAHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEILLNLKEIILRSNLYGVIDASICVRGPRYVTAQDIISPPYVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + N G IDA+ P++ ++++ S G Sbjct: 141 EPIDLCIELQIKRDRGY---RMKSANNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFPLPLFTFQNR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ EL R+ NCL+G NI + DL+ ++ D++R+ F Sbjct: 257 LTNLKKNKKGIPLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLSNSQEDLMRIKFF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +L T+ + ++L Sbjct: 314 IEDVKQILDTLQKYFAIDLSK 334 >gi|153799472|gb|ABS50511.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] gi|153799474|gb|ABS50512.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] gi|153799476|gb|ABS50513.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 102/243 (41%), Positives = 153/243 (62%), Gaps = 4/243 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGV Sbjct: 1 FEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGV 56 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VL Sbjct: 57 LHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VE Sbjct: 117 NPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 177 STRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKE 236 Query: 249 SLP 251 + Sbjct: 237 NDK 239 >gi|153799480|gb|ABS50515.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] gi|153799482|gb|ABS50516.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 102/243 (41%), Positives = 152/243 (62%), Gaps = 4/243 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGV Sbjct: 1 FEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGV 56 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VL Sbjct: 57 LHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VE Sbjct: 117 NPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 177 STRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKE 236 Query: 249 SLP 251 Sbjct: 237 DDK 239 >gi|115605053|ref|YP_784505.1| RNA polymerase alpha subunit [Piper cenocladum] gi|122164330|sp|Q06GM8|RPOA_PIPCE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|112253782|gb|ABI14503.1| RNA polymerase alpha subunit [Piper cenocladum] Length = 339 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 85/326 (26%), Positives = 158/326 (48%), Gaps = 25/326 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + I PL +G A +G A+RR L+ + G IT V+ + V HE S+I G+ Sbjct: 21 RIDSKRLYYSRFILSPLMKGQADMIGIAMRRALLGEIEGTCITRVKSEKVPHEFSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I RGP VTA DI +E+++ I NL Sbjct: 81 EESVHEIVMNLKEIVLRSNLYGTLDASICIRGPRYVTAQDIILPPSVEIVDATQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ++L + + GY H E+ G IDA++ P++ +++V S G Sbjct: 141 ERVDLCIKLQIERDRGYSMKTPHNDED---GSYPIDAIFMPVRNANHSVHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE + ++++ N L + Sbjct: 197 EILFIEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEREIHLEDNANGVPLALFTFHDE 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++ EL ++ NCL+ NI + DL+ ++ D+L++ +F Sbjct: 257 FAITNIRKNKKKMALKSIFIDQSELPSKTYNCLKKSNIHTLLDLLNNSQEDLLKIEHF-- 314 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPP 326 + ++K +L + G +LP Sbjct: 315 -CMEDVKRILDILQKHFGFDLPKNGK 339 >gi|296936704|gb|ADH94376.1| RNA polymerase alpha subunit [Syzygium cumini] Length = 337 Score = 267 bits (683), Expect = 2e-69, Method: Composition-based stats. Identities = 79/324 (24%), Positives = 157/324 (48%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRNASICVKGPGCVTAQDIILPTSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 131 DNTQYIASLTEPINLCIGLQIERNRGYHIKT---PKNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQYKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPLFTFHDRLVKLRKTKKEIALKSIFIDQFELPPRTYNCLKRYNIHTLFDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 ++M F + ++K +L ++ + Sbjct: 307 MKMEYF---RIEDVKQILNSLEIE 327 >gi|34500945|ref|NP_904130.1| RNA polymerase alpha subunit [Amborella trichopoda] gi|41688608|sp|P60314|RPOA_AMBTC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|34481660|emb|CAD45138.1| RNA polymerase alpha subunit [Amborella trichopoda] Length = 334 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 81/331 (24%), Positives = 157/331 (47%), Gaps = 31/331 (9%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + + PL +G A T+G A+RR L+ + G IT + + V Sbjct: 11 RTLQWKCVESKADSKRLYYGRFVLSPLMKGQADTIGTAMRRSLLGEIEGTCITCAKSERV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I ++ + I RGP VTA DI + ++++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIIVRSDLYGTRDAFICVRGPKYVTAQDIISPPSVKIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I ++ + L + + GY ++ IDA+ P++ +Y+++ Sbjct: 131 DTTQHIASITEPINFCIGLEIERNRGYRTRTTNQD-----ASYPIDAVSMPVRNANYSIQ 185 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L D F++ EE + +D N+ Sbjct: 186 CYGNENE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEERDLHLDDDQNIF 244 Query: 249 SLPFNPALL------------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + PF P +++LELS R+ NCL+ NI + DL+ +++ Sbjct: 245 TAPFFPFHEGLAYIGIGESKKRIALKRIFIDQLELSPRTYNCLKRSNIHTLLDLLSKSQE 304 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 D+ ++ +F + ++K VL + MNL Sbjct: 305 DLRKIQHF---RVEDVKRVLDILKKRFAMNL 332 >gi|170784739|ref|YP_001718655.1| RNA polymerase alpha subunit [Trachelium caeruleum] gi|156598871|gb|ABU85688.1| RNA polymerase alpha subunit [Trachelium caeruleum] gi|157267487|gb|ABV26480.1| RNA polymerase alpha subunit [Trachelium caeruleum] Length = 337 Score = 267 bits (682), Expect = 2e-69, Method: Composition-based stats. Identities = 79/328 (24%), Positives = 162/328 (49%), Gaps = 25/328 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A +G A+RR L+ L G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLLKGQADIIGIAMRRALLGELEGTCITRAKSEKL 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + +I++N+K I L+ + I +GPG VTA DI + +E++ Sbjct: 71 PHEYSTLVGIQESVHEILMNLKEIVLRSNLYGTCDAAICVKGPGYVTAQDIISPPYVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY+ +N G IDA++ P++ V++++ Sbjct: 131 DNTQHIASLTEPIELCIGLQIERNRGYLIKT---AKNFQDGSYPIDAVFMPVRNVNHSIY 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ A+R L D F++ EE +++++ ++ Sbjct: 188 SYGTGND-KHEILFLEIWTNGSLTPKEALHEAARNLIDLFIPFLHTEEENLDLEDNQHML 246 Query: 249 SLPFNPALLK--------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + K +++ EL R NCL+ NI + DL+ ++ D+++ Sbjct: 247 PFRPSILPEKFVKIKNKKISLKSIFIDQSELPPRVYNCLKRSNIYTLLDLLNNSQEDLMK 306 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLP 322 + +F + ++K +L + G++LP Sbjct: 307 IEHF---RVEDLKRILDILEKNFGIDLP 331 >gi|197294604|ref|YP_001799145.1| DNA-directed RNA polymerase subunit alpha [Candidatus Phytoplasma australiense] gi|171853931|emb|CAM11894.1| DNA-directed RNA polymerase alpha subunit [Candidatus Phytoplasma australiense] Length = 330 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 108/335 (32%), Positives = 182/335 (54%), Gaps = 12/335 (3%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KN + IKP +E + E+ I PL +G A ++GN+LRR L+SSL G AI V Sbjct: 2 KNLK-FIKPFFVEEL---DEKLTSGKFIFYPLVKGHATSIGNSLRRTLLSSLPGTAIVNV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQ 120 I+GV HE ++I GV+ED+ IILN+K I K+ D +++ I GP +TA Sbjct: 58 SIEGVEHEFTTISGVYEDVMTIILNLKKIIFKVDDESNDFEEKLKISLSGPQKITAASFG 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSP 179 ++++NP+ I + D M T+ KG GYV AK ++ + +G+I ID+L++P Sbjct: 118 LPEGVKIINPEAPIATISSDINFNMTATIKKGIGYVSAKDNKVHSENQLGVIPIDSLFTP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + V+Y VE ++ + ++L+M I T+G++ ++++A A++IL + + + Sbjct: 178 VVNVAYQVEK----KIGNKEELTMEITTNGALLAKEALATAAKILVEHFNVVSELSQQTP 233 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 V+ K N L ++E+L+LSVR N L+ I + DL++ +E +++++ + G Sbjct: 234 NVEFVSERKPEAHNYFLDLEIEQLDLSVRLFNSLKRAGINTVADLVKLSEREVVKLKSLG 293 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAK 334 RKS E+K GL L + S EE + Sbjct: 294 RKSFQELKDKFVEYGLEFNDCLKEALHNSDEEEKE 328 >gi|161513438|emb|CAP16862.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 234 Score = 266 bits (681), Expect = 3e-69, Method: Composition-based stats. Identities = 103/234 (44%), Positives = 153/234 (65%), Gaps = 2/234 (0%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IIL Sbjct: 1 GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIIL 60 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 NIK ++LK+ D K + I +GP VTAGDIQ +D+E+LNPD IC + L Sbjct: 61 NIKKVSLKIESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVL 120 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T G GYV A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + Sbjct: 121 TADTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 TDGSI+ ++ +L+++IL + L +F+N + ++ + + + L Sbjct: 181 WTDGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKMLEMS 234 >gi|292559539|ref|YP_003540963.1| DNA-directed RNA polymerase alpha chain [Phoenix dactylifera] gi|290790947|gb|ADD63202.1| DNA-directed RNA polymerase alpha chain [Phoenix dactylifera] gi|294620609|gb|ADF28178.1| DNA-directed RNA polymerase alpha chain [Phoenix dactylifera] Length = 337 Score = 266 bits (680), Expect = 3e-69, Method: Composition-based stats. Identities = 88/321 (27%), Positives = 156/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVAHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEILLNLKEIILRSNLYGVIDASICVRGPRYVTAKDIISPPYVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + N G IDA+ P++ ++++ S G Sbjct: 141 EPIDLCIELQIKRDRGY---RMKSANNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEDINFEENKNRFPLPLFTFQDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ EL R+ NCL+G NI + DL+ ++ D++R+ F Sbjct: 257 LTNLKKNKKGIPLKCIFIDQSELPSRTYNCLKGSNIHTLSDLLNNSQEDLMRIEFF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +L T+ + ++L Sbjct: 314 IEDVKQILDTLQKYFAIDLSK 334 >gi|290489676|gb|ADD31222.1| RNA polymerase alpha subunit protein [Ximenia americana] Length = 337 Score = 266 bits (680), Expect = 3e-69, Method: Composition-based stats. Identities = 81/321 (25%), Positives = 152/321 (47%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RRVL+ + G IT + + V HE S+ G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGRADTIGIAMRRVLLGEIEGTCITRAKSEQVPHEYSTAIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I RGP +TA DI + +E+++ I +L Sbjct: 81 QESIHEILMNLKEIVLRSNLYGTCNASICVRGPRYITAQDIISPPSVEIVDNTQYIASLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA++ P++ ++++ S G Sbjct: 141 EPIDFCIELQIERNRGYHIKM---PNNFQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T + ++ AS+ L D F++ EE ++++ + LP + Sbjct: 197 EILFLEIWTNGSLTPKKALYEASQNLIDLFIPFLHAEEENLHLEDNQHKVILPLFTPHDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ EL R NCL+ NI + DL ++ D++++ +F Sbjct: 257 LAKLRKNKEKIALKSIFIDQSELPSRIYNCLKRSNIHTLLDLFNNSQKDLMKIEHF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K +LG + ++LP Sbjct: 314 VEDGKQILGILEKHFAVDLPK 334 >gi|183217772|ref|YP_001837392.1| RNA polymerase alpha subunit [Guizotia abyssinica] gi|179366287|gb|ACB86558.1| RNA polymerase alpha subunit [Guizotia abyssinica] Length = 335 Score = 266 bits (680), Expect = 3e-69, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 163/331 (49%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + D + Sbjct: 11 RTLQWKCVESAADSKRLLYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSDKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 SHEYSTIMGIQESVHEILMNLKEIVLRSNLYGTYEASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++++ ++ Sbjct: 188 SYENGNK---EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLNLEDNQHIV 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F + ++K +LG + ++LP Sbjct: 305 MKIEHF---RIEDVKQILGILEKNFVIDLPK 332 >gi|150036782|emb|CAM98034.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 248 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 104/248 (41%), Positives = 158/248 (63%), Gaps = 2/248 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KKVVLAIDSDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 VKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +GSI D+++L ++IL + LG+F++ E + + + + + +E+L+LSV Sbjct: 181 NGSIKPSDALSLGAKILAEHLGLFMDISPVAAEASVMVEAEPVAASASDSAPIEDLDLSV 240 Query: 268 RSTNCLRG 275 RS NCL+ Sbjct: 241 RSYNCLKR 248 >gi|150020873|ref|YP_001306227.1| DNA-directed RNA polymerase subunit alpha [Thermosipho melanesiensis BI429] gi|172048670|sp|A6LLP1|RPOA_THEM4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|149793394|gb|ABR30842.1| DNA-directed RNA polymerase, alpha subunit [Thermosipho melanesiensis BI429] Length = 328 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 111/325 (34%), Positives = 181/325 (55%), Gaps = 14/325 (4%) Query: 7 QELIKPNNIEYIVLGQEEENR-TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + I P N++ + +E+ + PL +G+A T+GN LRRVL+SS+ AIT V+ Sbjct: 1 MDFIMPKNLKMEDHSETDEHYYARFVLSPLEKGYATTIGNTLRRVLLSSIPSLAITDVKF 60 Query: 66 --DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQT 121 HE +I+GV ED+ +I+LN+K + LKM ++ +TI +G G + AGDI Sbjct: 61 VRPEKYHEFDTIEGVKEDIIEILLNLKKVQLKMESYVNTPVELTIQHKGEGEIKAGDIVV 120 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 + V NP+ I L+ DA + +++ + G G+VPA R E IG I +D +Y+PI Sbjct: 121 PAGVTVTNPNLHIATLNEDADIEIKMYATVGKGFVPAAE-RNERPDIGWIVLDGVYNPIL 179 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV++ +E+ R G+ DYDKL + + T +I +++ A +I+ D + ++ Sbjct: 180 KVNWKIENVRVGKKTDYDKLILEVWTKKNIKPVEALKQAVKIINDHFKLIEESFGDMEDA 239 Query: 242 KEDINVKSLP-------FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 I N L KK++EL+LS+R+ NCL+ + I +GDL++R E ++L+ Sbjct: 240 GIVIETTKAEIVEEKIDENEILNKKIDELDLSMRALNCLKRDKIETIGDLLERGEEELLK 299 Query: 295 MANFGRKSLVEIKGVL-GTMGLFLG 318 + NFG+KSL E+K L G+ G Sbjct: 300 IKNFGQKSLDEVKEKLMEKFGISFG 324 >gi|317046205|ref|YP_004072494.1| RNA polymerase alpha subunit [Corynocarpus laevigata] gi|309252922|gb|ADO60342.1| RNA polymerase alpha subunit [Corynocarpus laevigata] Length = 331 Score = 266 bits (680), Expect = 4e-69, Method: Composition-based stats. Identities = 80/326 (24%), Positives = 152/326 (46%), Gaps = 25/326 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+R+ L+ + G IT + + + Sbjct: 11 RTLKWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRKALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I +N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEIFMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLCIELQIERNRGYRIKT---PNNFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE +K + + Sbjct: 188 SYVNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDFFIPFLHAEEENFHLKNNQHKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++ EL R NCL+ NI + DL+ + D+ Sbjct: 247 TLPLFTFHDRLAKLRKNKKEIALKYIFIDQSELPPRIYNCLKRSNIHTLLDLLNNSPDDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLG 318 +++ +F + + I +L + Sbjct: 307 MKIKHFRIEDVKHILDIL-EIEKHFA 331 >gi|269784296|emb|CBH50793.1| alpha subunit of RNA polymerase [Vibrio sp. Cmj 13.4] Length = 270 Score = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 118/273 (43%), Positives = 179/273 (65%), Gaps = 8/273 (2%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVV 114 G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V Sbjct: 1 PGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGL 170 AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIGR 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 LLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLDA 180 Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 FVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEV 237 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++L+ N G+KSL EIK VL + GL LGM L + Sbjct: 238 ELLKTPNLGKKSLTEIKDVLASRGLSLGMRLEN 270 >gi|254796670|ref|YP_003081506.1| DNA-directed RNA polymerase, alpha subunit [Neorickettsia risticii str. Illinois] gi|254589917|gb|ACT69279.1| DNA-directed RNA polymerase, alpha subunit [Neorickettsia risticii str. Illinois] Length = 333 Score = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 121/306 (39%), Positives = 175/306 (57%), Gaps = 6/306 (1%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 E + EPL GF T+GNA+RRVL+SSL G AI+AV I G+ HE S I GV ED Sbjct: 25 REGYSAEFVVEPLRGGFGLTIGNAMRRVLLSSLSGFAISAVGIKGLTHEFSCIPGVREDF 84 Query: 83 TDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 D+ LN+K + LK + + + G G V + I +D EV+N D +ICN+ Sbjct: 85 ADLALNLKKVVLKSVSGATCGNLHLSVTGGGAVFSNMISPSHDFEVVNADLLICNVAEGV 144 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + ME+ VS G GYV + R + G + IDA+Y+P++ V++TV+ G + +DK Sbjct: 145 SLEMEMKVSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGSFVGHDK 204 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK-- 258 L + ++T+G++ + +V AS+IL Q F+N +P+ V S Sbjct: 205 LILYVETNGAMDPKTAVLEASKILSTQARCFLNIADPEHRVHGVPYSVSTSDRNDTSDLL 264 Query: 259 --KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +++ L LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL E+K L + GL Sbjct: 265 SARIDRLYLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLEEVKKELFSKGLS 324 Query: 317 LGMNLP 322 LGMNL Sbjct: 325 LGMNLD 330 >gi|187233921|gb|ACD01207.1| RNA polymerase alpha subunit [Phyllostachys propinqua] Length = 339 Score = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 91/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 314 MEDGKQIWDTLEKHLPIDLPK 334 >gi|328813977|gb|AEB52104.1| DNA-directed RNA polymerase alpha chain [Lactobacillus helveticus] Length = 237 Score = 266 bits (679), Expect = 4e-69, Method: Composition-based stats. Identities = 100/237 (42%), Positives = 147/237 (62%) Query: 26 NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDI 85 + + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T I Sbjct: 1 SYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKI 60 Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + LK D K + + GP VTA D++ D++VLNPD IC + + M Sbjct: 61 ILNLKKLELKSFSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHM 120 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 E+ V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I Sbjct: 121 EIAVQNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEI 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSI D+++ A++IL + +F + + K + + + L +EE Sbjct: 181 WTDGSIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEE 237 >gi|165910441|gb|ABY73975.1| RNA polymerase alpha subunit [Cuscuta nitida] Length = 339 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 77/330 (23%), Positives = 154/330 (46%), Gaps = 28/330 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+ A+RR L+S + G IT V Sbjct: 11 RTLKWKCVESRTDSKRLSYGRFILSPLMKGQADTIAIAMRRALLSEIEGTCITRVTFQNA 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S I G+ E + DI++N+K I LK + +++ +GP VTA DI +E++ Sbjct: 71 SHEYSIIAGIQESVHDILMNLKEIVLKSNLYGTCDASLYIKGPRYVTAQDIILPPHVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY+ H +N ++DA++ P+ V++++ Sbjct: 131 DSTQHIASLTEPINLCIGLKIERNRGYLIKAHPPFQN---ETYSLDAVFMPVLNVNHSIY 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ A++ L D F+ EE +++ + Sbjct: 188 SYGNEKK---EILFLEIWTNGSLTPKEALHEAAQNLMDLFIPFLQMEEENLNLEDAEHQI 244 Query: 249 SLPFNPALLKK---------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K +++L + NCL NI + DL+ +++ D+L Sbjct: 245 PFSPFTFYDKVSKLIKKKKRSLKSIFIDQLAFPPKIYNCLTKSNIFTLLDLLNKSQEDLL 304 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++ +F + ++K +LG + ++LP Sbjct: 305 KIEHF---HIEDVKQILGILEKNFALDLPK 331 >gi|86438808|emb|CAJ43369.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 233 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 102/233 (43%), Positives = 155/233 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IK + LKM+ D K + I GP VTA DI T D+EVLNP+ IC + + +T Sbjct: 61 IKKLALKMNTDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+ Sbjct: 121 VKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 GSI+ ++++LA++IL + L +F+N + K + + + L +E Sbjct: 181 GSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIE 233 >gi|81301600|ref|YP_398896.1| RNA polymerase alpha subunit [Nicotiana tomentosiformis] gi|90110851|sp|Q33C00|RPOA_NICTO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|80750959|dbj|BAE48035.1| RNA polymerase alpha subunit [Nicotiana tomentosiformis] Length = 337 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 83/331 (25%), Positives = 158/331 (47%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + V Sbjct: 11 RTLKWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRVKSEKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIMGIQESVHEILMNLKEIVLRSNLYGTSDASICVKGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + L + + GY+ H N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTETIDFCIGLQIKRNRGYLIKTPH---NFQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHIEEDNLYLQDNQHTV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLSPFTFHDKLAKLIKNKKKIALKSIFIDQSELPSRIYNCLKMSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F ++K +LG + + ++L Sbjct: 307 MKIEHFRS---EDVKQILGILEKYFVIDLAK 334 >gi|290489658|gb|ADD31213.1| RNA polymerase alpha subunit protein [Dillenia indica] Length = 353 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 79/311 (25%), Positives = 151/311 (48%), Gaps = 20/311 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+++G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSTMRGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I RGPG VTA DI +E+++ I +L Sbjct: 81 QESVHEILMNLKEIVLRSNLYGTRNASICARGPGYVTAQDIILPPSVEIIDNTQHIASLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY N IDA++ P++ ++++ S G Sbjct: 141 EPINLYIELQIERNRGYHIKT---PNNFQDESYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR D FI+ E+ + ++ + + P + Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNFIDLFIPFIHVEKENLYLGDNQDKDTFPLFTFHDE 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R NCL+ NI + DL+ ++ D++++ F R+ Sbjct: 257 LAKLRKNKKEIALKYLFIDQLELPPRIYNCLKRSNIHTLLDLLNNSQEDLMKIEYFRRED 316 Query: 303 LVEIKGVLGTM 313 + +I G+L Sbjct: 317 VKQIFGILEKH 327 >gi|290489686|gb|ADD31227.1| RNA polymerase alpha subunit protein [Ficus sp. Moore 315] Length = 323 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 85/328 (25%), Positives = 158/328 (48%), Gaps = 23/328 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+Q+ +P +++ + + I PL RG A T+G A+RR L+ + Sbjct: 1 MVQEKVTVSTRP--LQWKCVESRADSKRLYYGRFILAPLMRGQADTIGIAMRRALLGEIE 58 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT V+ + + HE S+I G+ E + +I++N+K I L+ + + +I +GP VTA Sbjct: 59 GTCITRVKFEKLPHEYSTIIGIQESVHEILMNLKEIVLRSNLYGTRDASICVKGPRYVTA 118 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI +E+++ I NL + +EL + + GY N G IDA+ Sbjct: 119 QDIILPPSVEIVDNTQHIANLTEPITLCIELQIKRDRGYRIKT---PNNFQNGSYPIDAV 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S G + + L + I T+GS+T ++++ ASR L D F + EE Sbjct: 176 FMPVRNANHSIHSYVNGNE-NQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFFHAEE 234 Query: 237 PKKEVKEDINVKSLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGD 283 + + + F+ L K +++ EL+ R NCL+ NI D Sbjct: 235 HLENNQHKGTLPLFNFHGRLAKPRKTKKEKALKYIYIDQSELTPRVYNCLKRSNINTFLD 294 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLG 311 L+ ++ +++++ +F + + I VL Sbjct: 295 LLNNSQEELMKIKDFTIEDVKHILDVLE 322 >gi|71056814|emb|CAH58962.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 243 Score = 266 bits (679), Expect = 5e-69, Method: Composition-based stats. Identities = 107/243 (44%), Positives = 159/243 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED Sbjct: 1 DENRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVRED 60 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A Sbjct: 61 VTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGA 120 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 121 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 180 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI +++++LA++I+ + L +F+N + K + + + L +E Sbjct: 181 TMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 240 Query: 262 ELE 264 E + Sbjct: 241 ERD 243 >gi|194132131|gb|ACF33385.1| RNA polymerase alpha subunit [Gonystylus bancanus] Length = 329 Score = 265 bits (678), Expect = 5e-69, Method: Composition-based stats. Identities = 82/311 (26%), Positives = 152/311 (48%), Gaps = 20/311 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S I G+ Sbjct: 23 RIDSKHLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPHEYSIIAGI 82 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + I +GPG VTA DI +E+++ I +L Sbjct: 83 QESVHEILMNLKEIVLRSNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNTQHIASLT 142 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G ID ++ P++ V++++ S G Sbjct: 143 EPIDLCIGLQIERNRGYGIKT---PNNFHDGSYPIDVVFMPVRNVNHSIHSYGNGNE-KQ 198 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE ++ + +LPF P K Sbjct: 199 EILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENSHLENSQHKVTLPFFPFHDK 258 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ EL R NCL+ NI + DL+ +++ D++++ +F R+ Sbjct: 259 LTKLRKKKKEIALKYFFIDQSELPPRIYNCLKTSNIHTLFDLLNKSQEDLMKIEHFHRED 318 Query: 303 LVEIKGVLGTM 313 + +I G++ Sbjct: 319 VKQILGIIENK 329 >gi|317016849|gb|ADU85965.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fabifermentans] Length = 235 Score = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 105/234 (44%), Positives = 153/234 (65%), Gaps = 2/234 (0%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T II Sbjct: 1 YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVTEDVTAII 60 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LN+K + LK+ D K + I +GP VTAGDI D+EVLNPD IC + A M Sbjct: 61 LNVKKVALKLDSDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLAICTVADGAHFHMR 120 Query: 147 LTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ Sbjct: 121 MTANTGRGYVSAEDNKHREDDMPIGVLPVDSLYSPIERVNYQVENTRVGQRDDFDKLTLD 180 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + T+GSIT ++++L+++IL D L +F+N + K + + L Sbjct: 181 VWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEM 234 >gi|300431307|gb|ADK12618.1| RNA polymerase alpha subunit [Achnatherum chingii] Length = 339 Score = 265 bits (678), Expect = 6e-69, Method: Composition-based stats. Identities = 92/319 (28%), Positives = 154/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTTGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ NF Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDNF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|84874038|gb|ABC68042.1| RNA polymerase subunit [Oryza rhizomatis] Length = 317 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 94/321 (29%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ S G Y Sbjct: 121 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFSCGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENQNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|47679559|gb|AAT36723.1| RNA polymerase alpha subunit [Phaeodactylum sp. Bohlin BA153065] Length = 298 Score = 265 bits (677), Expect = 7e-69, Method: Composition-based stats. Identities = 95/298 (31%), Positives = 155/298 (52%), Gaps = 5/298 (1%) Query: 13 NNIEYIVLGQE----EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 NNI L E + L G T+GN LRRVL+ L G AI+AV+I G+ Sbjct: 2 NNISIKCLKSEKIQSGACHGQFLINSLNPGQGITIGNQLRRVLLGDLGGVAISAVRIAGI 61 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I GV ED+ +I+LN+KGI + + +GP VVTA IQ ++E++ Sbjct: 62 THEFSTIPGVREDILEILLNLKGIICTSQIQDTQFGHLKVQGPSVVTADLIQLPPEVEII 121 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+H I + ++ +E G GY A D + +D ++ P++KV + +E Sbjct: 122 NPNHYIATITTSNILEIEFKFVYGGGYHLASQKFCREDE-NYLQLDTIFMPVQKVDFKIE 180 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + + ++L + I T+GSI+ D++ A++++ D + IN + ++ Sbjct: 181 NIYDATNNISERLFLDIWTNGSISPNDALESAAQVIIDLFTLLINNTNINNNNRLVKAIR 240 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ P +EEL+LSVR+ NCL+ I +GDL+Q + + + NFGRKS E+ Sbjct: 241 AISIEPYTNIAIEELQLSVRAYNCLKKAQINTVGDLLQYSPEKLQELKNFGRKSADEV 298 >gi|253729586|ref|YP_003029770.1| RpoA [Bambusa oldhamii] gi|255961413|ref|YP_003097606.1| RNA polymerase a-subunit [Dendrocalamus latiflorus] gi|246367096|gb|ACS94707.1| RpoA [Bambusa oldhamii] gi|255040290|gb|ACT99950.1| RNA polymerase a-subunit [Dendrocalamus latiflorus] Length = 339 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 91/321 (28%), Positives = 156/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ G + Sbjct: 141 EPIDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVSMPVRNVNYSIFYCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 314 MEDGKQIWDTLEKHLPIDLPK 334 >gi|69215828|gb|AAZ03870.1| RNA polymerase alpha chain [Yucca schidigera] Length = 337 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 92/321 (28%), Positives = 158/321 (49%), Gaps = 25/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I +N+K I L + G + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEIFINLKEIVLNLYG--VRDASICVRGPRYVTAQDIISPPSVEIVDTTQHIANLT 138 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +R+EL + + GY + T N G IDA+ P++ ++++ S G Sbjct: 139 EPIDLRIELQIKRDRGYRI---NPTNNSQDGSYPIDAVSMPVRNANHSIHSYGNGNE-KQ 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N +LP + Sbjct: 195 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEGDIHFEENKNRFTLPLFTFQNR 254 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ ++ D++R+ F Sbjct: 255 LTNLKKNKKGIPLKCIFIDQLELPPRTYNCLKRSNIHTLLDLLSNSQEDLMRIEYFRT-- 312 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 ++K +L T+ +NLP Sbjct: 313 -EDVKQILDTLQKHFAINLPK 332 >gi|20160832|dbj|BAB89772.1| Chloroplast RNA polymerase alpha chain [Oryza sativa Japonica Group] Length = 337 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 141 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKRIPLSCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 314 MQDGKQIWDTLEKHLPMDLPK 334 >gi|153799470|gb|ABS50510.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 102/243 (41%), Positives = 154/243 (63%), Gaps = 4/243 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGV Sbjct: 1 IEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGV 56 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VL Sbjct: 57 LHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VE Sbjct: 117 NPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 177 STRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKE 236 Query: 249 SLP 251 + Sbjct: 237 NDK 239 >gi|300431329|gb|ADK12627.1| RNA polymerase alpha subunit [Achnatherum diegoense] Length = 339 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIQRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|81176283|ref|YP_398360.1| RNA polymerase alpha subunit [Lactuca sativa] gi|90110846|sp|Q332U5|RPOA_LACSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|78675201|dbj|BAE47627.1| RNA polymerase alpha chain [Lactuca sativa] Length = 335 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 162/331 (48%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESAADSKRLLYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E+L Sbjct: 71 SHEYSTIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIL 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++ + ++ Sbjct: 188 SYENGNK---EILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMV 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 305 MKMEHF---RIEDVKQILGILEKNFVIDLPK 332 >gi|153799484|gb|ABS50517.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 265 bits (677), Expect = 8e-69, Method: Composition-based stats. Identities = 102/242 (42%), Positives = 152/242 (62%), Gaps = 4/242 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGVL Sbjct: 2 EKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVL 57 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLN Sbjct: 58 HEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLN 117 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 118 PDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVES 177 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 178 TRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKED 237 Query: 250 LP 251 Sbjct: 238 DK 239 >gi|300431291|gb|ADK12610.1| RNA polymerase alpha subunit [Jarava plumosula] Length = 339 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ AS L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASHNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|153799478|gb|ABS50514.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 240 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 102/243 (41%), Positives = 153/243 (62%), Gaps = 4/243 (1%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + KPN I + ++E++ + EPL RGF TLGN+LRRVL++S+ G + VQIDGV Sbjct: 1 IEKPN----ITVVEQEDSYGKFVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGV 56 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VL Sbjct: 57 LHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VE Sbjct: 117 NPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVE 176 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G+ D+DKL+ I TDGSI D+++ A++IL + +F + + + + + + Sbjct: 177 STRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEHFKVFESADANTQFSEVMVEKE 236 Query: 249 SLP 251 Sbjct: 237 DDK 239 >gi|11466821|ref|NP_039417.1| RNA polymerase alpha subunit [Oryza sativa Japonica Group] gi|50234003|ref|YP_052781.1| RNA polymerase alpha subunit [Oryza nivara] gi|109156616|ref|YP_654235.1| RNA polymerase alpha subunit [Oryza sativa Indica Group] gi|68053137|sp|Q6ENE2|RPOA_ORYNI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|148839633|sp|P0C498|RPOA_ORYSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|148839634|sp|P0C499|RPOA_ORYSI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|148839635|sp|P0C500|RPOA_ORYSJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|12018|emb|CAA33979.1| RNA polymerase alpha subunit [Oryza sativa Japonica Group] gi|40253573|dbj|BAD05519.1| RNA polymerase alpha chain [Oryza sativa Japonica Group] gi|42795508|gb|AAS46075.1| RNA polymerase alpha chain [Oryza sativa Indica Group] gi|42795575|gb|AAS46141.1| RNA polymerase alpha chain [Oryza sativa Japonica Group] gi|42795639|gb|AAS46204.1| RNA polymerase alpha chain [Oryza sativa Japonica Group] gi|49615027|dbj|BAD26810.1| RNA polymerase alpha chain [Oryza nivara] gi|290790595|gb|ADD62855.1| RNA polymerase alpha subunit [Oryza sativa Japonica Group] gi|290790664|gb|ADD62923.1| RNA polymerase alpha subunit [Oryza meridionalis] gi|226639|prf||1603356BN RNA polymerase alpha Length = 337 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 141 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 314 MQDGKQIWDTLEKHLPMDLPK 334 >gi|328813959|gb|AEB52095.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 231 Score = 265 bits (677), Expect = 9e-69, Method: Composition-based stats. Identities = 101/230 (43%), Positives = 153/230 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IK + LKM+ D K + I GP VTA DI T D+EVLNP+ IC + + +T Sbjct: 61 IKKLALKMNTDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+ Sbjct: 121 VKKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 GSI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 GSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEM 230 >gi|13357817|ref|NP_078091.1| DNA-directed RNA polymerase subunit alpha [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|170762312|ref|YP_001752340.1| DNA-directed RNA polymerase subunit alpha [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|171920389|ref|ZP_02931716.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|183508783|ref|ZP_02958249.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186701955|ref|ZP_02971592.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|225550927|ref|ZP_03771876.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 2 str. ATCC 27814] gi|12230604|sp|Q9PQN4|RPOA_UREPA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|11261081|pir||B82918 DNA-directed RNA polymerase alpha chain UU257 [imported] - Ureaplasma urealyticum gi|6899227|gb|AAF30666.1|AE002122_35 DNA-directed RNA polymerase alpha chain [Ureaplasma parvum serovar 3 str. ATCC 700970] gi|168827889|gb|ACA33151.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 3 str. ATCC 27815] gi|171902824|gb|EDT49113.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 1 str. ATCC 27813] gi|182675728|gb|EDT87633.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 14 str. ATCC 33697] gi|186700710|gb|EDU18992.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma parvum serovar 6 str. ATCC 27818] gi|225380081|gb|EEH02443.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 2 str. ATCC 27814] Length = 327 Score = 264 bits (676), Expect = 9e-69, Method: Composition-based stats. Identities = 97/327 (29%), Positives = 172/327 (52%), Gaps = 14/327 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ +K ++ + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ Sbjct: 2 RKFLK-YQLDVPSINSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKFG 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGV 113 G HE +GV ED+T IILN+K + +K+ D ++ I +GPGV Sbjct: 61 GYSHEFQPYEGVKEDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPGV 120 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 +TA DI E++N D I + V +E+ G G V ++ + +I Sbjct: 121 ITAKDIVCPVGFEIVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIAT 180 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D+ YSP+ +Y VE ++ + + L++ I T+G+I+G +++A+A++I+Q L +N Sbjct: 181 DSNYSPVLHYAYNVEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHLEPIVN 240 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ E+ + +++L+L+VR+ N L+ I +LI+ T++ + Sbjct: 241 IDKTINEMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQLE 300 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ N GRKS+ EI L L L + Sbjct: 301 KIKNLGRKSVTEIIQKLTERSLELKKD 327 >gi|300431299|gb|ADK12614.1| RNA polymerase alpha subunit [Hesperostipa comata] Length = 339 Score = 264 bits (676), Expect = 9e-69, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPRFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|290790733|gb|ADD62991.1| RNA polymerase alpha subunit [Oryza australiensis] Length = 337 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 94/321 (29%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ S G Y Sbjct: 141 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFSCGNGNA-KY 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 314 MQDGKQIWDTLEKHLPMDLPK 334 >gi|91208933|ref|YP_538968.1| RNA polymerase alpha subunit [Gossypium hirsutum] gi|325210961|ref|YP_004286036.1| RNA polymerase alpha subunit [Gossypium thurberi] gi|109900621|sp|Q2L938|RPOA_GOSHI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|85687447|gb|ABC73659.1| RNA polymerase alpha subunit [Gossypium hirsutum] gi|290775823|gb|ADD62319.1| RNA polymerase alpha subunit [Gossypium thurberi] Length = 329 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 79/318 (24%), Positives = 152/318 (47%), Gaps = 24/318 (7%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + I PL +G A T+G A+RR L+ L G IT + + + HE Sbjct: 16 QWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHE 75 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E+++ Sbjct: 76 YSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNT 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 136 QHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAVFMPVRNANHSIHCYG 192 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + +LP Sbjct: 193 NDNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEEENLHLENNQHDVTLP 251 Query: 252 FNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 F P + +++ EL R NCL+ NI + DL+ + D++++ Sbjct: 252 FFPFHDRLVKLTKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSREDLMKI 311 Query: 296 ANFGRKSLVEIKGVLGTM 313 +F + + +I G+L Sbjct: 312 EHFRIEDVKQILGILEKK 329 >gi|300431293|gb|ADK12611.1| RNA polymerase alpha subunit [Piptatherum miliaceum] Length = 339 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S++ G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTLAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASISVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPVDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|307683477|dbj|BAJ19717.1| RNA polymerase alpha chain [Pseudotsuga sinensis var. wilsoniana] Length = 335 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 88/317 (27%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RRVL+ + G IT VQ D + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVQFDNIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILVNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLRIEKNRGY---IMHSPNNYKDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ---------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL R NCLR NI + DL+ + D++R+ N G++S+ + Sbjct: 260 TRETIEKIAFQYIFIDQLELPPRIYNCLRRANIHTLLDLLNYSREDLMRIENLGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|88608775|ref|YP_506180.1| DNA-directed RNA polymerase subunit alpha [Neorickettsia sennetsu str. Miyayama] gi|119366702|sp|Q2GEB6|RPOA_NEOSM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|88600944|gb|ABD46412.1| DNA-directed RNA polymerase, alpha subunit [Neorickettsia sennetsu str. Miyayama] Length = 333 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 120/301 (39%), Positives = 173/301 (57%), Gaps = 6/301 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 I EPL GF T+GNA+RRVL+SSL G AI+AV I G+ HE S I GV ED D+ L Sbjct: 30 AEFIVEPLRVGFGLTIGNAMRRVLLSSLSGFAISAVGIKGLTHEFSCIPGVREDFADLAL 89 Query: 88 NIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 N+K + LK + + + G V + I +D EV+N D +ICN+ + ME Sbjct: 90 NLKKVVLKSISGATCGNLHLSVTDGGAVFSNMISPSHDFEVVNGDLLICNVAEGVSLEME 149 Query: 147 LTVSKGHGYVPAKHHRTENDP-IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 + VS G GYV + R + G + IDA+Y+P++ V++TV+ G +DKL + + Sbjct: 150 MKVSSGFGYVSSVSVRKDEYDLEGAVPIDAIYNPVRAVNFTVKPTSAGSFAGHDKLILYV 209 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI----NVKSLPFNPALLKKVE 261 +T+G++ + +V AS+IL Q F+N +P+ V + L +++ Sbjct: 210 ETNGAMDPKTAVLEASKILSTQARCFLNIADPEHRVHGVPCGVSTSDRNDASDLLSARID 269 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L LS R+ CL GENIVY+ DL+ RTEAD+L+ NFGR+SL E+K L + GL LGMNL Sbjct: 270 RLYLSARARKCLNGENIVYIRDLVSRTEADLLKAPNFGRRSLEEVKKELFSKGLSLGMNL 329 Query: 322 P 322 Sbjct: 330 D 330 >gi|300431309|gb|ADK12619.1| RNA polymerase alpha subunit [Achnatherum psilantherum] Length = 339 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTGQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|300431276|gb|ADK12603.1| RNA polymerase alpha subunit [Nassella pampagrandensis] gi|300431282|gb|ADK12606.1| RNA polymerase alpha subunit [Nassella melanosperma] gi|300431318|gb|ADK12622.1| RNA polymerase alpha subunit [Amelichloa brachychaeta] gi|300431325|gb|ADK12625.1| RNA polymerase alpha subunit [Austrostipa nodosa] Length = 339 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|88657014|gb|ABD47264.1| RNA polymerase alpha subunit [Lactuca sativa] Length = 337 Score = 264 bits (676), Expect = 1e-68, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 162/331 (48%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 RTLQWKCVESAADSKRLLYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 72 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E+L Sbjct: 73 SHEYSTIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIL 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 133 DNTQHIASLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++ + ++ Sbjct: 190 SYENGNK---EILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHTKEENLNLEGNQHMV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 307 MKMEHF---RIEDVKQILGILEKNFVIDLPK 334 >gi|300431297|gb|ADK12613.1| RNA polymerase alpha subunit [Anatherostipa brevis] gi|300431301|gb|ADK12615.1| RNA polymerase alpha subunit [Aciachne pulvinata] gi|300431327|gb|ADK12626.1| RNA polymerase alpha subunit [Lorenzochloa erectifolia] Length = 339 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|300431303|gb|ADK12616.1| RNA polymerase alpha subunit [Aciachne flagellifera] Length = 339 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|84874028|gb|ABC68037.1| RNA polymerase subunit [Oryza sativa] Length = 317 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 92/321 (28%), Positives = 156/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 121 EPTDFHIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|171920602|ref|ZP_02931853.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|185179070|ref|ZP_02964804.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188024263|ref|ZP_02996959.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188518671|ref|ZP_03004106.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|188524445|ref|ZP_03004458.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195867590|ref|ZP_03079592.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198273610|ref|ZP_03206145.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209554135|ref|YP_002284656.1| DNA-directed RNA polymerase subunit alpha [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225551180|ref|ZP_03772126.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 8 str. ATCC 27618] gi|171903312|gb|EDT49601.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 13 str. ATCC 33698] gi|184209067|gb|EDU06110.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 5 str. ATCC 27817] gi|188018926|gb|EDU56966.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 7 str. ATCC 27819] gi|188997781|gb|EDU66878.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 11 str. ATCC 33695] gi|195659713|gb|EDX53093.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 12 str. ATCC 33696] gi|195660647|gb|EDX53902.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 9 str. ATCC 33175] gi|198249638|gb|EDY74419.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 4 str. ATCC 27816] gi|209541636|gb|ACI59865.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 10 str. ATCC 33699] gi|225378995|gb|EEH01360.1| DNA-directed RNA polymerase, alpha subunit [Ureaplasma urealyticum serovar 8 str. ATCC 27618] Length = 327 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 97/327 (29%), Positives = 172/327 (52%), Gaps = 14/327 (4%) Query: 7 QELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ +K ++ + E++NRT++ PL GF TLGNALRR+ +SS+ GA++ AV+ Sbjct: 2 RKFLK-YQLDVPSINSEDKNRTVVKIAPLEIGFGDTLGNALRRICLSSIPGASMFAVKFG 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGV 113 G HE +GV ED+T IILN+K + +K+ D ++ I +GPGV Sbjct: 61 GYSHEFQPYEGVKEDITHIILNLKNLAIKIDELIYSEDYFNNLLIDKWPKMKINFKGPGV 120 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 +TA DI E++N D I + V +E+ G G V ++ + +I Sbjct: 121 ITAKDIVCPVGFEIVNQDLYIAEVTKPIDVEIEIFAKTGRGRVDFNTNKDFVSTLHIIAT 180 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D+ YSP+ +Y VE ++ + + L++ I T+G+I+G +++A+A++I+Q L +N Sbjct: 181 DSNYSPVLHYAYNVEMIKDSKSSMSEILTIDIATNGTISGSEAIAIAAKIMQAHLEPIMN 240 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 ++ E+ + +++L+L+VR+ N L+ I +LI+ T++ + Sbjct: 241 IDKTINEMIIMREREEEEKRQNASISIDDLDLTVRAYNALKQSGINTTAELIELTKSQLE 300 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++ N GRKS+ EI L L L + Sbjct: 301 KIKNLGRKSVTEIIQKLTERSLELKKD 327 >gi|84874024|gb|ABC68035.1| RNA polymerase subunit [Oryza sativa] gi|84874026|gb|ABC68036.1| RNA polymerase subunit [Oryza sativa] gi|84874030|gb|ABC68038.1| RNA polymerase subunit [Oryza nivara] gi|84874034|gb|ABC68040.1| RNA polymerase subunit [Oryza sp. IRGC 81916] Length = 317 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 121 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|71056830|emb|CAH58970.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 243 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 108/241 (44%), Positives = 158/241 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED Sbjct: 3 DEDKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVRED 62 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 63 VAQIILNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGA 122 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 123 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 182 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI ++++L+++I+ + L +F+N + K + + + L +E Sbjct: 183 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 242 Query: 262 E 262 E Sbjct: 243 E 243 >gi|328813949|gb|AEB52090.1| DNA-directed RNA polymerase alpha chain [Lactobacillus casei] Length = 241 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 105/241 (43%), Positives = 159/241 (65%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K + Sbjct: 1 SLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A +++++ Sbjct: 61 IDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL Sbjct: 121 MPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILT 180 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 + L +F+N + K + + + L +EEL+LSVRS NCL+ I + +L Sbjct: 181 EHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQELT 240 Query: 286 Q 286 Sbjct: 241 N 241 >gi|84874036|gb|ABC68041.1| RNA polymerase subunit [Oryza officinalis] gi|84874042|gb|ABC68044.1| RNA polymerase subunit [Oryza australiensis] Length = 317 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 94/321 (29%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ S G Y Sbjct: 121 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFSCGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|149390385|ref|YP_001294384.1| RNA polymerase alpha subunit [Dioscorea elephantipes] gi|172048699|sp|A6MMN9|RPOA_DIOEL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|148668077|gb|ABR01461.1| RNA polymerase alpha subunit [Dioscorea elephantipes] Length = 337 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 85/321 (26%), Positives = 158/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ++RR L+ + G IT + + V HE S++ G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGISMRRALLGEIEGTCITRAKSEKVPHEYSTVVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+ N+K I L+ + + +I RGP VTA DI + +E+++ I NL Sbjct: 81 EESVHEILFNLKEIVLRSNLYEIRDASICVRGPRYVTAQDIISPPYVEIVDTTQYIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + N G IDA++ P++ ++++ S G Sbjct: 141 EPIDLCIELEIKRDRGY---RMKPITNSQDGSYPIDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFVPFLHAEEEDINFEENKNKFTLPPLTFQDR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ + + ++++M F Sbjct: 257 LSNLKKNKKGIPLKYIFIDQLELPSRTYNCLKRSNIHTLLDLLSKGQENLIKMEYF---H 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + ++K +L T+ ++LP Sbjct: 314 IEDVKQILDTLQKHFAVDLPK 334 >gi|300431322|gb|ADK12624.1| RNA polymerase alpha subunit [Amelichloa brevipes] Length = 339 Score = 264 bits (675), Expect = 1e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDLCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + + L +NL Sbjct: 314 MEDGKQIWDNLEKHLPINL 332 >gi|19702212|emb|CAD28795.1| RNA polymerase alpha subunit [Cuscuta reflexa] Length = 335 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 84/331 (25%), Positives = 156/331 (47%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L++ + G IT V+ Sbjct: 11 RTLQWKCVESRTDSKRPYYGRFILSPLTKGQADTIGIAMRRALLAEIEGTRITRVKFANT 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GPG VTA DI +E++ Sbjct: 71 SHEYSTIAGIQESVHEILMNLKEIVLRSNLYGTCDASISIKGPGYVTAEDIILPPHVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + L + + HGY H E+ G IDAL P++ ++++ Sbjct: 131 DSTQHIAWLTEPINFFIGLKIERNHGYFIKTHANFED---GSYPIDALLMPVRNANHSIN 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S + + L + I T+GS+T ++++ ASR L D F++ EE +++ + Sbjct: 188 SYGNEK---QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHMEEENLHLEDADHTI 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 L K +++LE + NCL+ NI + DL+ ++ D+ Sbjct: 245 PLSPFTVYDKVAKLRKNKKKLSLESIFIDQLEFPPKIYNCLKKSNIFTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +++ +F L ++K +LG +G ++ P Sbjct: 305 IKIEHF---HLEDVKQILGILGKHFALDSPK 332 >gi|154795220|ref|YP_588149.2| RNA polymerase alpha subunit [Helianthus annuus] gi|158518528|sp|Q1KXS7|RPOA_HELAN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha Length = 335 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 163/331 (49%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESAADSKRLLYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE ++I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 SHEYATIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++++ ++ Sbjct: 188 SYENGNK---EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIV 244 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 245 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 304 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 305 MKMEHF---RIEDVKQILGILEKNFVIDLPK 332 >gi|84874032|gb|ABC68039.1| RNA polymerase subunit [Oryza glumipatula] Length = 317 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 93/321 (28%), Positives = 156/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRTASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ + G Y Sbjct: 121 EPTDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFACGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T +++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPMEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|300431288|gb|ADK12609.1| RNA polymerase alpha subunit [Jarava leptostachya] Length = 339 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +++ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEKNKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|237688485|ref|YP_002905104.1| RNA polymerase alpha subunit [Picea sitchensis] gi|226875313|gb|ACO89052.1| RNA polymerase alpha subunit [Picea sitchensis] Length = 336 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 85/318 (26%), Positives = 153/318 (48%), Gaps = 24/318 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SERLHYGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T ++++ ASRIL + F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALSEASRILIELFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++LE R NCLR NI + DL+ + D++R+ FG++S+ Sbjct: 260 TGETKEKKIAFQHIFIDQLEFPPRVYNCLRRANIHTLSDLLNYSREDLMRIERFGKESVE 319 Query: 305 EIKGVLGTMGLFLGMNLP 322 ++ +L ++ P Sbjct: 320 QVFEILR---KRFAIDPP 334 >gi|118430333|ref|YP_874768.1| RNA polymerase alpha subunit [Agrostis stolonifera] gi|125987636|sp|A1EA40|RPOA_AGRST RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|118201242|gb|ABK79611.1| RNA polymerase alpha subunit [Agrostis stolonifera] Length = 339 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIESF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ +L M+L Sbjct: 314 MEDRKQIWDTLEKYLPMDL 332 >gi|54144446|dbj|BAD60947.1| DNA-dependent RNA polymerase alpha subunit [Sphagnum girgensohnii] Length = 341 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 83/321 (25%), Positives = 151/321 (47%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + P G A+T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 22 KVDSERLHYGRFAISPFRSGQANTVGIAVRRALLGGVEGTCITRAKSEKVTHEYSTILGI 81 Query: 79 HEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI++N+K I LK + ++ + GP VTA DI +EV++ I Sbjct: 82 QESVRDILINLKEIVLKSKSNSCETQKAFLSIFGPKEVTARDIVFPPSVEVIDTTQYIAT 141 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L + +EL + K GY ++ + G ++DA+++PI+ +Y+V S Sbjct: 142 LTKAIHLDIELKIEKDCGYRTQDSIKSAD---GYFSVDAVFTPIRNANYSVHSFENKNET 198 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE--------------VK 242 + L + I T+GS+T ++++ ASR L D F++ E+ + Sbjct: 199 -QEILFIEIWTNGSVTPKEALYEASRSLIDLFIPFLHAEKEEVMHGLGNKNESNTLHFSS 257 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K +++LEL R+ NC + ++ + DL+ ++ D++++ NFG+KS Sbjct: 258 SPSENKMEKEMTFKHIFIDQLELPARAYNCPKRVDVHTISDLLSYSQDDLMKIKNFGKKS 317 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 ++ VL + + LP Sbjct: 318 ---VEQVLEALQKRFSIKLPK 335 >gi|228016583|gb|ACP51413.1| RNA polymerase alpha subunit [Abies firma] Length = 336 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 88/318 (27%), Positives = 153/318 (48%), Gaps = 24/318 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V++D + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLCKGRADTIGIAMRRALLGEVEGTCITHVKLDNIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TFDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D L F++ EE + + S Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSSNMPPFPLSHVFT 259 Query: 255 ----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ Sbjct: 260 DTGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESIE 319 Query: 305 EIKGVLGTMGLFLGMNLP 322 ++ VL +NLP Sbjct: 320 QVLEVLR---KRFAINLP 334 >gi|300431278|gb|ADK12604.1| RNA polymerase alpha subunit [Piptochaetium montevidense] Length = 339 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|119662349|emb|CAJ33163.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 223 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 99/222 (44%), Positives = 151/222 (68%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 61 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 121 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 SI+ ++++LA++IL + L +F+N + K + + + Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETH 222 >gi|58758766|gb|AAW81772.1| RNA polymerase alpha subunit [Buxbaumia aphylla] Length = 340 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 86/321 (26%), Positives = 155/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + P G A+T+G A+RR L+ ++G +IT + + V HE S+I G+ Sbjct: 21 KIDNERLHYSRFAISPFRCGQANTVGIAMRRALLGEVKGTSITCAKFEKVTHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI +N K I L+ + ++ I GP +TA DI +++++ I L Sbjct: 81 QESVHDISINSKEIVLESNSSETQKAFISILGPKKITAQDIILPPSVKIIDGKQYIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K +GY +++ N IDA++ PI+ +Y+V S Sbjct: 141 KAIQLDIELEIEKDYGYRIQNSNKSTNSH---FFIDAIFMPIRNANYSVHSFENENKT-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GSIT +D++ ASR L D F++ E + + + K + Sbjct: 197 EMLFIEIWTNGSITPKDALYEASRSLIDLFIPFLHAERREIINELENEYKLSNISYFSSF 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ N+ + DL+ ++ D++++ NFG+KS Sbjct: 257 SPLADKITKEVSFKHIFIDQLELPARAYNCLKRVNVNTLADLLNYSQEDLMKIKNFGKKS 316 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 ++ VL + +NLP Sbjct: 317 ---VEQVLEALQKQFSINLPK 334 >gi|119662337|emb|CAJ33157.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. tolerans] Length = 230 Score = 264 bits (674), Expect = 2e-68, Method: Composition-based stats. Identities = 101/229 (44%), Positives = 152/229 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 61 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 121 KKGRGYVAADQNKSDDVPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLEM 229 >gi|307683665|dbj|BAJ19811.1| RNA polymerase alpha chain [Picea morrisonicola] Length = 336 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 86/318 (27%), Positives = 154/318 (48%), Gaps = 24/318 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SERLHYGRFALSPLRKGRADTIGIAMRRVLLGEVEGTCITHVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIRGASICIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGNGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T ++++ ASRIL + F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALSEASRILIELFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++LEL R NCLR NI + DL+ + D++R+ FG++S+ Sbjct: 260 TGETKEKKIAFQHIFIDQLELPPRVYNCLRRANIHTLSDLLNYSREDLMRIERFGKESVE 319 Query: 305 EIKGVLGTMGLFLGMNLP 322 ++ +L ++ P Sbjct: 320 QVFEILR---KRFAIDPP 334 >gi|300431284|gb|ADK12607.1| RNA polymerase alpha subunit [Nassella arcuata] Length = 339 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPMDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|290489680|gb|ADD31224.1| RNA polymerase alpha subunit protein [Bulnesia arborea] Length = 352 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 82/320 (25%), Positives = 156/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RRVL+ + G +IT+ + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFLLSPLKKGQADTIGIAMRRVLLGEIEGTSITSAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE SSI GV E + +I++N+K I L+ +I +GPG VTA DI + +E++ Sbjct: 71 PHEYSSIVGVEESVHEILMNLKEIVLRSHLYGICDASICVKGPGCVTAQDIILPSYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + L + + GY ++ G+ IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPIDFCIRLQIERNRGYRIKTPNQF---QEGIYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++ + N Sbjct: 188 SYGNGSET-QEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENNQNKY 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++LEL+ + NCL+ NI + DL+ + D+ Sbjct: 247 TLPLFSFHDQFNQIKKNQKEIEFKSIFIDQLELTPKIYNCLKRSNIHTLFDLLNNRKEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGT 312 +R+ +F + + I +L Sbjct: 307 MRIEHFRIEDINHIFHILEK 326 >gi|88656926|gb|ABD47177.1| RNA polymerase alpha subunit [Helianthus annuus] Length = 337 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 163/331 (49%), Gaps = 29/331 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 13 RTLQWKCVESAADSKRLLYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 72 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE ++I G+ E + +I++N+K I L+ + +I RGPG VTA DI +E++ Sbjct: 73 SHEYATIMGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPGYVTAQDIILPPYVEIV 132 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + K GY+ + ++ G ID ++ P++ ++++ Sbjct: 133 DNTQHIASLTEPIELVIGLQIEKNRGYLIKAPNTFQD---GSYPIDPVFMPVRNANHSIH 189 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D L F++ +E ++++ ++ Sbjct: 190 SYENGNK---EILFLEIWTNGSLTPKEALHEASRNLIDLLIPFLHTKEENLSLEDNQHIV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 LP K +++ EL R NCL+ NI + DL+ ++ D+ Sbjct: 247 PLPPFTFYDKLAKLTKNKKKMALKSIFIDQSELPPRIYNCLKRSNIYTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + ++K +LG + ++LP Sbjct: 307 MKMEHF---RIEDVKQILGILEKNFVIDLPK 334 >gi|300431280|gb|ADK12605.1| RNA polymerase alpha subunit [Piptochaetium napostaense] Length = 339 Score = 263 bits (673), Expect = 2e-68, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL ++ NCL+ NI + DL+ +TE D++++ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSKTYNCLKRANIHTLLDLLSKTEEDLMKIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|118614523|ref|YP_899439.1| RNA polymerase alpha subunit [Sorghum bicolor] gi|125987638|sp|A1E9V6|RPOA_SORBI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|118201157|gb|ABK79527.1| RNA polymerase alpha subunit [Sorghum bicolor] Length = 339 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 93/331 (28%), Positives = 160/331 (48%), Gaps = 27/331 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +E+ + + I PL +G A T+G ALRR L+ + G IT + V Sbjct: 11 QKLEWKCVESRVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E++ Sbjct: 71 PHEYSTIVGIEESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL +EL + + GY +N G IDA++ P++ V+Y++ Sbjct: 131 DTAQPIANLREPIDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVFMPVRNVNYSIF 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ ASR L D FI+ EE +E N Sbjct: 188 SCGNGNE-KHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEESKNRL 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 + P + +++LEL R+ NCL+ NI + DL+ +TE D+ Sbjct: 247 TPPLLTFQKRFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +R+ +F + + K + T+ L ++LP Sbjct: 307 MRINSF---RMEDGKLIWDTLEKHLPIDLPK 334 >gi|71056838|emb|CAH58974.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 237 Score = 263 bits (673), Expect = 3e-68, Method: Composition-based stats. Identities = 107/236 (45%), Positives = 154/236 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ II Sbjct: 2 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQII 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 62 LNIKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHAR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I Sbjct: 122 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIW 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 182 TDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 237 >gi|283945407|dbj|BAI66457.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 260 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 119/262 (45%), Positives = 177/262 (67%), Gaps = 8/262 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 60 Query: 93 NLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVS 150 +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 61 AVKVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVE 120 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPASSRIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ ++ IL +QL F++ + + +++ + P LL+ V++LEL+V Sbjct: 181 NGTLDPEEAIRRSATILAEQLDAFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIVYMGDLIQRTE 289 RS NCL+ E I Y+GDL+QRTE Sbjct: 238 RSANCLKAEAIHYIGDLVQRTE 259 >gi|114329687|ref|YP_740508.1| RNA polymerase alpha subunit [Citrus sinensis] gi|122166151|sp|Q09ME5|RPOA_CITSI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|113952653|gb|ABI49051.1| RNA polymerase alpha subunit [Citrus sinensis] Length = 328 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 153/321 (47%), Gaps = 23/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RRVL+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRVLLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKDIVLRSNLYGTCDALICVKGPGYVTAQDILLPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY + ++ IDA++ P++ +++++ Sbjct: 131 DNTQHIASLTEPIDLSIGLQIERSRGYNIKTPNTFQD--GNCYPIDAVFMPVRNANHSIQ 188 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F+ E+ ++ + Sbjct: 189 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRSLIDLFIPFLQAEDENLPLENNQYKV 247 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ E+S R NCL+ NI + DL+ + D+ Sbjct: 248 TLPFFTFHDRLAKLTKKKKEIALKSIFIDQSEMSPRIYNCLKKSNIHTLFDLLNTRQEDL 307 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 308 MKIEHFRIEDVKQIMSILEKK 328 >gi|119662385|emb|CAJ33181.1| RNA polymerase alpha subunit [Lactobacillus zeae] Length = 227 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 100/226 (44%), Positives = 152/226 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI T D+EVLNP+ IC + + +TV Sbjct: 61 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 121 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI+ ++++LA++IL + L +F+N + K + + + Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKM 226 >gi|290489684|gb|ADD31226.1| RNA polymerase alpha subunit protein [Euonymus americanus] Length = 338 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 82/331 (24%), Positives = 158/331 (47%), Gaps = 26/331 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G +IT + + + Sbjct: 11 RTLQWKCVESRTDSKRLFYGRFILSPLMKGQADTIGIAMRRALLGEIEGTSITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S++ G+ E + ++++N+K I L+ + + +I +GPG VTA D+ +E++ Sbjct: 71 PHEYSTVVGIQETVHELLMNLKEIVLRGNLYGIQNGSICIKGPGYVTAQDLVLPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L +EL + + GY N G IDA++ P++ +Y+++ Sbjct: 131 DNTQHIAILTEPIYFCIELQIERHRGYHIKT---PNNFQEGSFPIDAVFMPVRNTNYSIQ 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S R G + L + I T+GS+T ++++ ASR L D F++ EE ++ D Sbjct: 188 SYRNGSE-KEEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEENLHLENDWYKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP + +++LEL+ R+ NCL+ NI + DL+ ++ + Sbjct: 247 TLPLFTFHDRLTKLKKNQKEMALKYIFIDQLELTSRTYNCLKRSNIHTLFDLLNKSHEYL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 ++M +F + + I +L +LP Sbjct: 307 MKMEHFHIEDVKHILNILEK--KKFATDLPK 335 >gi|114804296|ref|YP_762293.1| RNA polymerase alpha subunit [Morus indica] gi|122166773|sp|Q09WY5|RPOA_MORIN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|78100348|gb|ABB20989.1| RNA polymerase alpha subunit [Morus indica] Length = 323 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 80/316 (25%), Positives = 151/316 (47%), Gaps = 21/316 (6%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL RG A T+G A+RR L+ + G IT + + + Sbjct: 11 RPLQWKCVESRADSKRLYYGRFLLAPLMRGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPITLCIELQIERNRGYRIKT---PNNFQNGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + + L + I T+GS+T ++++ ASR L D F + EE + + + Sbjct: 188 SYVNGNE-NQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFFHAEEHLENNQHKGTLP 246 Query: 249 SLPFNPALLKK-------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 F+ L K +++ EL R NCL+ NI +L+ ++ +++++ Sbjct: 247 LFNFHGRLAKPRKTKKEIALKYIYIDQSELPPRVYNCLKRSNINTFLELLNNSQEELMKI 306 Query: 296 ANFGRKSLVEIKGVLG 311 +F + + I VL Sbjct: 307 QDFRIEDVKHILDVLE 322 >gi|228016968|gb|ACP51792.1| RNA polymerase alpha subunit [Pinus banksiana] Length = 335 Score = 263 bits (672), Expect = 3e-68, Method: Composition-based stats. Identities = 83/317 (26%), Positives = 152/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL + N LR NI + DL+ + D++R+ NFG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIKNFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|167957552|ref|ZP_02544626.1| DNA-directed RNA polymerase subunit alpha [candidate division TM7 single-cell isolate TM7c] Length = 294 Score = 262 bits (671), Expect = 3e-68, Method: Composition-based stats. Identities = 101/283 (35%), Positives = 154/283 (54%), Gaps = 3/283 (1%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + EPL G+ +TLGN+LRRVLMSS+ GAA+ + +I+G HE +++ G+ Sbjct: 13 IEDYSSTSAAFTVEPLRGGYGNTLGNSLRRVLMSSIHGAAVISFKIEGATHEFTTVPGIK 72 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ DI LN+K + +KM D + + K G G VTAGDIQ+ D+E++NP+ VIC +D Sbjct: 73 EDVVDISLNLKSVKIKMHTDDPIELRLEKHGAGQVTAGDIQSHADVEIINPEQVICTVDD 132 Query: 140 D-AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 A ++L + G GY+ + I +DA++SP+ +V Y VES R GQ + Sbjct: 133 PSAKAVIDLVIDSGRGYLSIEDSSETRLHSDHIALDAVFSPVIRVRYKVESTRVGQETNL 192 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +KL + IDTDGSIT D+ A+ IL +Q + + L Sbjct: 193 EKLIVVIDTDGSITPRDAFEEAAAILVNQYTALAGSTVVESAPALGQER--EEESNELNT 250 Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 +E+L+L+ R+ N L +I + DL+ TE D+ + FG K Sbjct: 251 SIEDLDLTARTANALINNDIRTVQDLVTLTEQDLRELKGFGSK 293 >gi|71056822|emb|CAH58966.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 245 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 108/243 (44%), Positives = 158/243 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED Sbjct: 3 DEDRDYGQFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVRED 62 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 63 VVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGA 122 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL Sbjct: 123 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKL 182 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +M I TDGSI +++++LA++IL + L +F+N + K + + + L +E Sbjct: 183 TMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 242 Query: 262 ELE 264 E + Sbjct: 243 ERD 245 >gi|228017404|gb|ACP52221.1| RNA polymerase alpha subunit [Larix occidentalis] Length = 335 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 86/317 (27%), Positives = 155/317 (48%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D L F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ---------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TRETKEKIAFKHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVL---QKRFAIDPP 333 >gi|229577786|ref|YP_002836122.1| RNA polymerase alpha subunit [Megaleranthis saniculifolia] gi|226933914|gb|ACO92047.1| RNA polymerase alpha subunit [Megaleranthis saniculifolia] Length = 328 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 81/321 (25%), Positives = 160/321 (49%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESVHEILMNLKEIVLRSNLYGTRDASICVKGPGYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + +EL + + GY + N IDA++ P++ ++++ Sbjct: 131 DITQHIASLTEPIDLCIELQIERNRGY---RMKTPNNAQERSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I TDGS+T ++++ ASR L D F++ EE +++++ + Sbjct: 188 SYGNGNE-KQEILFLEIWTDGSLTPKEALYEASRNLIDLFIPFLHAEEQDTKLEDNQSRV 246 Query: 249 SLPFNPALL----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF +++ EL R+ NCL+ NI + DL+ +++ D+ Sbjct: 247 TLPFFTFHDGLDKVRKNKKEIELKCIFIDQSELPSRTYNCLKRFNIHTLLDLLNKSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 ++M +F + + I G++ + Sbjct: 307 MKMEHFRIEDVRRILGIIKNI 327 >gi|309322375|ref|YP_003934455.1| RNA polymerase alpha chain [Cathaya argyrophylla] gi|307683301|dbj|BAJ19608.1| RNA polymerase alpha chain [Cathaya argyrophylla] Length = 335 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 85/320 (26%), Positives = 155/320 (48%), Gaps = 23/320 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + PL +G A T+G A+RR L+ ++G IT V+++ + HE S+I G+ Sbjct: 21 RVYSKRFHYGRFVLSPLRKGRADTIGIAMRRALLGEVKGTCITHVKLENIKHEYSAIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 81 EESVHDILMNLKEIVLRSDSYGIQEASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + K GY H N G+ IDA++ P++ +Y++ S G + Sbjct: 141 KSITFDIRLRIEKNRGY---LIHSPTNYGDGIFPIDAVFMPVRDANYSIHSYGSGNEI-R 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP---- 254 + L + I T+G +T +++ ASR L + F++ EE + ++P P Sbjct: 197 EVLFLEIWTNGGLTPREALYEASRNLINFFIPFLHGEEQNIDGMNSRKGSNIPSFPLSHV 256 Query: 255 ------------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R NCLR NI + DL+ ++ D++R+ FG+KS Sbjct: 257 LTNTGETKEIFEFQHIFIDQLELPSRIYNCLRRANIYTLLDLLNYSQEDLMRIEQFGKKS 316 Query: 303 LVEIKGVLGTMGLFLGMNLP 322 + ++ +L ++LP Sbjct: 317 VEQVLEILR---KRFAIDLP 333 >gi|84874040|gb|ABC68043.1| RNA polymerase subunit [Oryza punctata] Length = 317 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 94/321 (29%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRNASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ S G Y Sbjct: 121 EPEDFRIELRIKRDRGYHTEVR---KNTQDGSYPIDAVSMPVRNVNYSIFSCGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L M+LP Sbjct: 294 MQDGKQIWDTLEKHLPMDLPK 314 >gi|309322294|ref|YP_003934145.1| RNA polymerase alpha chain [Cedrus deodara] gi|228017091|gb|ACP51913.1| RNA polymerase alpha subunit [Cedrus deodara] gi|307683220|dbj|BAJ19528.1| RNA polymerase alpha chain [Cedrus deodara] Length = 335 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 85/317 (26%), Positives = 155/317 (48%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGVREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ++L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIKLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ---------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|139387284|ref|YP_001123405.1| RNA polymerase alpha subunit [Capsella bursa-pastoris] gi|158513962|sp|A4QKM4|RPOA_CAPBU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286605|dbj|BAF50229.1| RNA polymerase alpha subunit [Capsella bursa-pastoris] Length = 327 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 155/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHNRLVNLRKKTKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHVEDVKKILDILEKK 327 >gi|300431320|gb|ADK12623.1| RNA polymerase alpha subunit [Amelichloa caudata] Length = 339 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSSTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|296126891|ref|YP_003634143.1| DNA-directed RNA polymerase, alpha subunit [Brachyspira murdochii DSM 12563] gi|296018707|gb|ADG71944.1| DNA-directed RNA polymerase, alpha subunit [Brachyspira murdochii DSM 12563] Length = 324 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 110/324 (33%), Positives = 179/324 (55%), Gaps = 5/324 (1%) Query: 1 MIQKNWQELIK-PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAA 59 M K E IK P+ + + IA+P RG+A T+GNALRRVL+SS+ G A Sbjct: 1 MALKEILESIKHPHRVTFEK-KDLTPTYGKFIAQPFERGYAVTVGNALRRVLLSSIPGYA 59 Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGD 118 ITA++IDGV +E ++ G+ ED +I+++K + + + K + + K GP +TAGD Sbjct: 60 ITAIKIDGVSNEFENVPGMKEDTIVMIMHLKNVVVSLPDRLETKTIHMKKEGPCTITAGD 119 Query: 119 IQT-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 + N+ +V NPD+ I + M++ + G+ YVPA+ + + + I IDA+Y Sbjct: 120 LVANDNEAQVHNPDYYIATIAEGYTFEMDIQIEGGYSYVPAEMNIELVEDVNAIAIDAIY 179 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI V Y V+ R GQ +DY KL++ I+T G+I E +++ A++IL+D L F++ EE Sbjct: 180 SPIVSVKYNVDPIRVGQRIDYGKLTLEIETKGNIAPEKALSQAAKILRDNLKHFMDPEEA 239 Query: 238 KKEVKEDINVKSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + ++ + K +EE+E SVR+ N L ++ + + ++E+D+LR+ Sbjct: 240 NGDDEKIEETPKDSVLDSLKGKHIEEVEFSVRTANFLMASDLKTLDKVAVKSESDLLRLI 299 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMN 320 + EIK L G LGM Sbjct: 300 GANEMIIEEIKEKLAEYGAHLGMR 323 >gi|119668363|emb|CAK95475.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 228 Score = 262 bits (671), Expect = 4e-68, Method: Composition-based stats. Identities = 100/228 (43%), Positives = 152/228 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV Sbjct: 61 KKLALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 121 KKGRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 SI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETHKEKMLE 228 >gi|332144686|dbj|BAK19503.1| RNA polymerase alpha subunit [Lactobacillus camelliae] Length = 228 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 104/228 (45%), Positives = 150/228 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA++ +QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVSNIQIDGVLHEFSTIDGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM D K V I GP VTA DI T D+EVLNP+ IC + + +TV Sbjct: 61 KKLALKMHSDEDKTVEIDVDGPATVTAADIVTDADVEVLNPEQYICTVAEGGHFHVRMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++TEN PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+G Sbjct: 121 RTGRGYVAADQNKTENMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 SI+ ++++LA++IL + L +F+N + K + + + L Sbjct: 181 SISPREAISLAAKILTEHLDIFVNLTDSAKNAEIMVEKEETHKEKMLE 228 >gi|139389450|ref|YP_001123147.1| RNA polymerase alpha subunit [Olimarabidopsis pumila] gi|158513629|sp|A4QJW3|RPOA_OLIPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286344|dbj|BAF49971.1| RNA polymerase alpha subunit [Olimarabidopsis pumila] Length = 327 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 155/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETVYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|289524818|emb|CBJ94465.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 16.2] Length = 267 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 117/270 (43%), Positives = 178/270 (65%), Gaps = 8/270 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++L+ N G+KSL EIK VL + GL LGM Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLGM 267 >gi|300431270|gb|ADK12600.1| RNA polymerase alpha subunit [Piptochaetium medium] Length = 339 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTCFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|124020697|gb|ABM88794.1| DNA-directed RNA polymerase alpha chain [Enterococcus camelliae] Length = 223 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 104/221 (47%), Positives = 149/221 (67%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ II Sbjct: 2 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQII 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 62 LNIKGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSDGATFHAR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I Sbjct: 122 LTVKPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIW 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 TDGSI D+++LA++I+ + L +F+N + K + + Sbjct: 182 TDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 222 >gi|11497558|ref|NP_054966.1| RNA polymerase alpha subunit [Spinacia oleracea] gi|12644101|sp|P06505|RPOA_SPIOL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|7636139|emb|CAB88759.1| RNA polymerase alpha subunit [Spinacia oleracea] Length = 335 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 86/329 (26%), Positives = 162/329 (49%), Gaps = 28/329 (8%) Query: 15 IEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +++ + + + I PL +G A T+G A+RR L+ + G IT + + + H Sbjct: 13 LQWKCVESRTDSKCLHYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + +I++N+K I L+ + +I RGP VTA DI +E+++ Sbjct: 73 EYSTILGIQESVHEILMNLKEIVLRSNLYGTCEASICVRGPRGVTAQDIILPPYVEIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I +L + + L + + GY N G IDAL+ P++ V++++ S Sbjct: 133 TQHIASLTEPIDLCIGLQLERNRGY---HIKAPNNFQDGSFPIDALFMPVRNVNHSIHSY 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G + L + I T+GS+T ++++ ASR L D L F++ EE ++++ + SL Sbjct: 190 GNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVSL 247 Query: 251 PFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 P + +++LEL R NCL+ NI + DL+ ++ D+++ Sbjct: 248 PLFTFHNRLAEIRKNKKKIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIK 307 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 M +F + ++K + GT+ ++L + Sbjct: 308 MKHF---RIEDVKQIFGTLEKHFVIDLKN 333 >gi|300431335|gb|ADK12628.1| RNA polymerase alpha subunit [Achnatherum eminens] Length = 339 Score = 262 bits (670), Expect = 5e-68, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+G +T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGRLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|190411117|gb|ACE78313.1| RpoA [Vibrio parahaemolyticus] gi|190411119|gb|ACE78314.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 116/266 (43%), Positives = 179/266 (67%), Gaps = 8/266 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---H 160 T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 61 TLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIH 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A Sbjct: 121 NEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >gi|300431295|gb|ADK12612.1| RNA polymerase alpha subunit [Aciachne acicularis] Length = 339 Score = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 154/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D+ R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLRRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|139389833|ref|YP_001123494.1| RNA polymerase alpha subunit [Crucihimalaya wallichii] gi|158513969|sp|A4QKW3|RPOA_CRUWA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286695|dbj|BAF50318.1| RNA polymerase alpha subunit [Crucihimalaya wallichii] Length = 327 Score = 262 bits (669), Expect = 6e-68, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 155/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT V+ + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEMEGTCITRVKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLKIERNRGYSLKISNNLEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHNRFFNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHVEDVKKILDILEKK 327 >gi|60117163|ref|YP_209497.1| RNA polymerase alpha subunit [Huperzia lucidula] gi|68053058|sp|Q5SD25|RPOA_HUPLU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|50659971|gb|AAT80693.1| RNA polymerase alpha subunit [Huperzia lucidula] Length = 336 Score = 262 bits (669), Expect = 7e-68, Method: Composition-based stats. Identities = 89/318 (27%), Positives = 159/318 (50%), Gaps = 21/318 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + I PL G A+T+G +RR L+ ++G IT + + + HE S++ G+ Sbjct: 24 KVESERLFYSRFILSPLKVGQANTIGLVMRRALLGEIKGTCITCAKFENITHEYSTMDGI 83 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N K I LK ++ I GP VTA DI+ +EV++P I + Sbjct: 84 QESVHDILINSKEIVLKSKSSEAQKAFISIVGPRRVTAQDIELPTSVEVIDPMQHIATIT 143 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVLD 197 + +EL + K GY ++ G T+DA+++PI+ V+Y++ + + Sbjct: 144 KKVKLNIELKIEKDSGYRRQNIVEYKD---GNFTVDAVFTPIRSVNYSIHCFESHDKSIM 200 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP--- 254 + L I ++GSIT E+++ ASR + F+ E+ K++ K + +S +P Sbjct: 201 KEMLLYEIWSNGSITPEEAIYEASRSSINLFLPFLQAEKEKEDFKGEDIHESNALHPSVS 260 Query: 255 -----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +E+LELS ++ N L+ N+ + DL+ ++ D+++M NFG+KS+ Sbjct: 261 IVVDQMAKKVTFQHIFIEQLELSPKAYNFLKKINVHTISDLLDYSQDDLMKMKNFGKKSV 320 Query: 304 VEIKGVLGTMGLFLGMNL 321 +I L + GM L Sbjct: 321 EQI---LEALQKRFGMRL 335 >gi|91214173|ref|YP_538797.1| RNA polymerase alpha subunit [Glycine max] gi|90110869|sp|Q2PMQ3|RPOA_SOYBN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|83595774|gb|ABC25155.1| RNA polymerase alpha subunit [Glycine max] Length = 333 Score = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 83/318 (26%), Positives = 153/318 (48%), Gaps = 23/318 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RRVL+ + G IT V+ + + HE S+I G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKSEKIPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ I N+ Sbjct: 81 EESVHEILMNLKEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY +N G IDA + P++ V++++ S G Sbjct: 141 EPVNLCIELKIERNRGYRIKT---LKNFQDGSYPIDATFMPVRNVNHSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVTLPLFTFHDI 256 Query: 258 -----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ NI + +L+ ++ D+L++ +F Sbjct: 257 LAKEKLRKKKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEDLLKIEHFRV 316 Query: 301 KSLVEIKGVLGTMGLFLG 318 + + I L + Sbjct: 317 EDVKYILDFL-EIEKHFA 333 >gi|160902228|ref|YP_001567809.1| DNA-directed RNA polymerase subunit alpha [Petrotoga mobilis SJ95] gi|160359872|gb|ABX31486.1| DNA-directed RNA polymerase, alpha subunit [Petrotoga mobilis SJ95] Length = 353 Score = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 113/331 (34%), Positives = 182/331 (54%), Gaps = 27/331 (8%) Query: 9 LIKPNNIEYIVLGQEEE-NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 LIKP + +++E N + PL +G+A TLGNALRRVL+SS+ AIT ++I G Sbjct: 4 LIKPEKFRIVQKEEQDEYNYSKYELFPLEKGYAITLGNALRRVLLSSIPSLAITGLRIPG 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSG-------DSHKRVTIFKRGP--GVVTAGD 118 LHE +++G+ ED+ +I LN+K + LK+ D +++ K+ V+ +GD Sbjct: 64 KLHEYDTVEGIKEDIIEITLNLKKVQLKVDDIEKINEIDYPILLSLRKKYKAGQVIKSGD 123 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I+T ++EV NPD VI +++ D V EL G G++PA+ ++D I I ID ++S Sbjct: 124 IKTPAELEVANPDFVIAHVNKDMEVDFELYAQAGKGFIPAQELTFQSD-IEYIFIDGVFS 182 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ KV+Y E+ R G+ DYDKL + I T +IT +++ A++IL + E + Sbjct: 183 PVLKVNYLTENIRVGRRTDYDKLILEIWTKKNITPTEALKEATKILMEHFDFISRLWERE 242 Query: 239 KEVKEDINVKSLP----------------FNPALLKKVEELELSVRSTNCLRGENIVYMG 282 +V + + +++ L+L+ R+ NCL+ E I +G Sbjct: 243 GQVGAIEQTEVSVEKEEEEEEEEENIFGLPKDLMETQLDSLDLTKRAKNCLKREKIDTIG 302 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +L++R AD+L++ NFGRKSL EIK L Sbjct: 303 ELLKRKPADLLKIKNFGRKSLDEIKNELKEK 333 >gi|228017032|gb|ACP51855.1| RNA polymerase alpha subunit [Pinus canariensis] Length = 335 Score = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 82/317 (25%), Positives = 153/317 (48%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I + + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ V+Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDVNYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLSDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|71056806|emb|CAH58958.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus DSM 15952] Length = 234 Score = 261 bits (668), Expect = 8e-68, Method: Composition-based stats. Identities = 105/232 (45%), Positives = 150/232 (64%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ II Sbjct: 2 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQII 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A Sbjct: 62 LNIKGLALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHAR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I Sbjct: 122 LTVKPGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIW 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 TDGSI D+++LA++I+ + L +F+N + K + + + L Sbjct: 182 TDGSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 233 >gi|12265|emb|CAA27214.1| unnamed protein product [Spinacia oleracea] Length = 335 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 86/329 (26%), Positives = 162/329 (49%), Gaps = 28/329 (8%) Query: 15 IEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 +++ + + + I PL +G A T+G A+RR L+ + G IT + + + H Sbjct: 13 LQWKCVESRTDSKCLHYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSEKIPH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + +I++N+K I L+ + +I RGP VTA DI +E+++ Sbjct: 73 EYSTILGIQESVHEILMNLKEIVLRSNLYGACEASICVRGPRGVTAQDIILPPYVEIVDN 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I +L + + L + + GY N G IDAL+ P++ V++++ S Sbjct: 133 TQHIASLTEPIDLCIGLQLERNRGY---HIKAPNNFQDGSFPIDALFMPVRNVNHSIHSY 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 G + L + I T+GS+T ++++ ASR L D L F++ EE ++++ + SL Sbjct: 190 GNGNE-KQEILFLEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEE-NVNLEDNQHKVSL 247 Query: 251 PFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 P + +++LEL R NCL+ NI + DL+ ++ D+++ Sbjct: 248 PLFTFHNRLAEIRKNKKKIALKFIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDLIK 307 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 M +F + ++K + GT+ ++L + Sbjct: 308 MKHF---RIEDVKQIFGTLEKHFVIDLKN 333 >gi|48478801|ref|YP_024408.1| RNA polymerase alpha subunit [Saccharum hybrid cultivar SP-80-3280] gi|50812559|ref|YP_054661.1| RNA polymerase alpha subunit [Saccharum officinarum] gi|68053147|sp|Q6ENT2|RPOA_SACOF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|75261480|sp|Q6L370|RPOA_SACHY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|48478703|gb|AAT44723.1| RNA polymerase alpha chain [Saccharum hybrid cultivar SP80-3280] gi|49659543|dbj|BAD27324.1| RNA polymerase alpha subunit [Saccharum hybrid cultivar NCo 310] Length = 339 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 92/321 (28%), Positives = 158/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWNVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLR 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA++ P++ V+Y++ S G + Sbjct: 141 EPVDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVFMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D FI+ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLTPPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 FTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRINSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 314 MEDGKLIWDTLEKHLPIDLPK 334 >gi|283945397|dbj|BAI66454.1| RNA polymerase alpha subunit [Lactobacillus similis] Length = 248 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 110/252 (43%), Positives = 162/252 (64%), Gaps = 7/252 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 KPN I +E ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVL Sbjct: 1 EKPN----IHKIEESDDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVL 56 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE S+++GV ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ V Sbjct: 57 HEFSTVEGVVEDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTV 116 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYT 186 LNPD I + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y Sbjct: 117 LNPDLYIATVAEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQ 176 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ DYDKL++ + TD SIT +S++LA++IL + L MF++ + K + + Sbjct: 177 VENTRVGQRDDYDKLTLDVWTDSSITPSESISLAAKILTEHLAMFVDLTDEAKNAEIMVE 236 Query: 247 VKSLPFNPALLK 258 + L Sbjct: 237 KEETHKEKMLEM 248 >gi|49574614|ref|NP_848091.2| RNA polymerase alpha subunit [Adiantum capillus-veneris] gi|60393869|sp|Q85FJ1|RPOA_ADICA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|48476025|gb|AAP29422.2| RNA polymerase alpha chain [Adiantum capillus-veneris] Length = 345 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 87/344 (25%), Positives = 156/344 (45%), Gaps = 30/344 (8%) Query: 2 IQKNWQELIKPNNIEYI----VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRG 57 ++KN K I++ + + + + P RG A T+G A+RR L+ + G Sbjct: 1 MRKNEMSTSK-QAIQWKCLESKIESKRLHYGRFLVSPFKRGQASTVGIAMRRALLQEIEG 59 Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTA 116 +IT + GV+HE S+I G+ E + D+++N+K I L+ + + + GP VTA Sbjct: 60 TSITCARFCGVVHEYSTITGLQETIHDVLVNLKEIVLRGDSKEDIQEAFLSVTGPKEVTA 119 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GD+ +E ++ I + + +EL + K GY + G IDA+ Sbjct: 120 GDLSLPPGVEAIDNSQYIATITQPISLTIELEIEKDCGYRIENLAK---SGKGQFPIDAV 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ V+Y++ G+ + L + I T+GS+T +++ AS L D L F+ Sbjct: 177 FMPVRNVNYSIHLFGSGRAT-QEILFIEIWTNGSLTPHEALRKASEKLMDLLTTFLYVRG 235 Query: 237 PKKEVKEDIN-----------------VKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 + E+ +L + +++LEL R+ NCL+ I Sbjct: 236 GDVSLFENGEDSLDLTKSPSLQPQFGDTNNLEERVLENRFIDQLELPARAFNCLKRAEIY 295 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + DL+ + D+ ++ NFGRKS+ ++ L LPD Sbjct: 296 TIADLLNYSREDLSKLKNFGRKSVDQVSEALWDR---FAKELPD 336 >gi|307697293|gb|ADN86101.1| RNA polymerase alpha subunit [Chasmanthium latifolium] Length = 339 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 91/320 (28%), Positives = 157/320 (49%), Gaps = 23/320 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLR 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGSSFEENKNRFTPPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 FTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLP 322 + + K + T+ L ++LP Sbjct: 314 MEDGKLIWDTLEKHLPIDLP 333 >gi|260677450|ref|YP_003208218.1| RNA polymerase alpha subunit [Coix lacryma-jobi] gi|209361388|gb|ACI43303.1| RNA polymerase alpha subunit [Coix lacryma-jobi] Length = 339 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 92/321 (28%), Positives = 158/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLR 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA++ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYHTELR---KNSQDGSYPIDAVFMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D FI+ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFIHTEEEGTSFEENKNRLTPPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 FTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRSNIHTLLDLLSKTEEDLMRINSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 314 MEDGKLIWDTLEKHLPIDLPK 334 >gi|71056824|emb|CAH58967.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 235 Score = 261 bits (668), Expect = 9e-68, Method: Composition-based stats. Identities = 107/234 (45%), Positives = 154/234 (65%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ Sbjct: 1 KDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQ 60 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 61 IILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFH 120 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M Sbjct: 121 ARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTME 180 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 I TDGSI ++++LA++I+ + L +F+N + K + + + L Sbjct: 181 IWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 234 >gi|237688548|ref|YP_002905166.1| RNA polymerase alpha subunit [Pinus contorta] gi|226875376|gb|ACO89114.1| RNA polymerase alpha subunit [Pinus contorta] Length = 335 Score = 261 bits (668), Expect = 1e-67, Method: Composition-based stats. Identities = 82/317 (25%), Positives = 152/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL + N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIKHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|139389982|ref|YP_001123582.1| RNA polymerase alpha subunit [Draba nemorosa] gi|158513976|sp|A4QL51|RPOA_DRANE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286784|dbj|BAF50406.1| RNA polymerase alpha subunit [Draba nemorosa] Length = 327 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 74/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWRCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I + + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATVTESIDLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNG-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFHLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|30468203|ref|NP_849090.1| RNA polymerase alpha subunit [Cyanidioschyzon merolae strain 10D] gi|41688691|sp|Q85FU3|RPOA_CYAME RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|30409303|dbj|BAC76252.1| DNA-directed RNA polymerase alpha chain [Cyanidioschyzon merolae strain 10D] Length = 316 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 91/298 (30%), Positives = 152/298 (51%), Gaps = 12/298 (4%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I +PL A T+GN+LRRVL+S L +ITAV+I G HE++++KGV Sbjct: 18 TINHARDIYAKFILQPLSYTQALTMGNSLRRVLLSELESISITAVRIAGASHELATLKGV 77 Query: 79 HEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQ--TVNDIEVLNPDHVIC 135 ED+ I+LN+K I + + +GP +VTA Q + +++ I Sbjct: 78 REDVLQIMLNLKQIVWRGQLKKQPTITRLKVQGPAIVTAAAFQSEANSSANIIDTCQYIA 137 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 +D ++ ME + + GY AK + + ID ++ P+K+V++ V+ A +V Sbjct: 138 TIDTQDILEMECQLEQSSGYRLAKPSEMID----WLPIDGVFMPVKRVNFWVDKALVDKV 193 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 L L + I T+GSI+ ++++ A+RIL E K + + L Sbjct: 194 LVDKALHLEIWTNGSISPQEALHQAARILTHWFNPLQTLEWKTSHTKNEQTMAQL----- 248 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +EEL+LSVR+ NCL+ I + DL+Q T+ ++L + NFG+KS+ E+ L Sbjct: 249 SNMLIEELDLSVRAYNCLKRAQIHSVADLMQYTQEELLALKNFGQKSVEEVNKALEQK 306 >gi|283945395|dbj|BAI66453.1| RNA polymerase alpha subunit [Lactobacillus odoratitofui] Length = 247 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 110/251 (43%), Positives = 162/251 (64%), Gaps = 7/251 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 KPN I +E ++ + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLH Sbjct: 1 KPN----IHKIEESDDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLH 56 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 E S+I+GV ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ +L Sbjct: 57 EFSTIEGVVEDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTIL 116 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTV 187 NPD I + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y V Sbjct: 117 NPDLYIATVAEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQV 176 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL++ + TD SIT +S++LA++IL + L MF++ + K + + Sbjct: 177 ENTRVGQRDDYDKLTLDVWTDSSITPSESISLAAKILTEHLAMFVDLTDEAKNAEIMVEK 236 Query: 248 KSLPFNPALLK 258 + L Sbjct: 237 EETHKEKMLEM 247 >gi|161513430|emb|CAP16858.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 101/224 (45%), Positives = 152/224 (67%), Gaps = 2/224 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ + K + I +GP VTAGDIQ +D+E+LNPD IC + LT Sbjct: 61 KKVSLKIESNDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GYV A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + T Sbjct: 121 DTGRGYVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 DGSI+ ++ +L+++IL + L +F+N + ++ + + + Sbjct: 181 DGSISPSEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETH 224 >gi|290489698|gb|ADD31233.1| RNA polymerase alpha subunit protein [Quercus nigra] Length = 331 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 83/319 (26%), Positives = 154/319 (48%), Gaps = 24/319 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRGDSNSLYYGRFILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI ++++ Sbjct: 71 PHEYSTIIGIQESVHEILMNLKEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY T N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLYIELQIERDRGYRIKT---TNNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE K ++ + Sbjct: 188 SYVNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ EL R NCL+G NI + DL+ ++ D Sbjct: 247 TLPFFTCHDRLAKLNKNSTEIALKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDF 306 Query: 293 LRMANFGRKSLVEIKGVLG 311 ++M +F R+ + I +L Sbjct: 307 MKMKHFRREDIKHILDILE 325 >gi|157493287|gb|ABV58009.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 259 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 114/267 (42%), Positives = 178/267 (66%), Gaps = 13/267 (4%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ + Sbjct: 1 LERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAV 60 Query: 95 KM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSKG 152 ++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V +G Sbjct: 61 RVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVERG 120 Query: 153 HGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 GYVPA H + PIG + +DA +SP+ K++Y+VE Q D DKL + ++T+G Sbjct: 121 RGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVE-----QRTDLDKLVIDMETNG 175 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 ++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS Sbjct: 176 TLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRS 232 Query: 270 TNCLRGENIVYMGDLIQRTEADMLRMA 296 NCL+ E I Y+GDL+QRTE ++L+ Sbjct: 233 ANCLKAEAIHYIGDLVQRTEVELLKTP 259 >gi|41688710|sp|Q8MAJ0|RPOA_AEGUN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22657234|gb|AAM97420.1| RNA polymerase alpha subunit [Aegilops uniaristata] Length = 339 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 91/319 (28%), Positives = 158/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + GA IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGACITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|190411121|gb|ACE78315.1| RpoA [Vibrio parahaemolyticus] Length = 263 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 116/266 (43%), Positives = 178/266 (66%), Gaps = 8/266 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---H 160 T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 61 TLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIH 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A Sbjct: 121 NEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + IL +QL F++ + + +++ + P LL+ V +LEL+VRS NCL+ E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVNDLELTVRSANCLKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEI 306 +GDL+QRTE ++L+ N G+KSL EI Sbjct: 238 IGDLVQRTEVELLKTPNLGKKSLTEI 263 >gi|149390299|ref|YP_001294130.1| RNA polymerase alpha subunit [Chloranthus spicatus] gi|172048690|sp|A6MMF4|RPOA_CHLSC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|146744219|gb|ABQ43291.1| RNA polymerase alpha subunit [Chloranthus spicatus] Length = 334 Score = 261 bits (667), Expect = 1e-67, Method: Composition-based stats. Identities = 80/330 (24%), Positives = 156/330 (47%), Gaps = 29/330 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + PL +G A T+G A+RR L+ + G IT ++D V Sbjct: 11 RTLQWKCVESRADSKRLYYGRFMLSPLMKGQADTIGIAMRRALLGEIEGTCITRAKLDKV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I +N+K I L+ + + +I RGP VTA DI + +E++ Sbjct: 71 PHEYSTIVGIEESIHEIFMNLKEIVLRSNLYGTRNASICVRGPRYVTAQDIISPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + +EL + + GY + G IDA+ P++ ++++ Sbjct: 131 DTTQHIASLTEPIDLCIELQIQRDRGY---RMKTPNKYQNGSYPIDAVSMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE ++++ N Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEGIRLEDNPNRF 246 Query: 249 SLPFNPALL------------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 ++PF +++ EL R+ N L+ NI + DL+ ++ Sbjct: 247 NIPFFTFHDGLANTNIRKKKKGIALKCIFIDQSELPPRTYNYLKRSNINTLLDLLSNSQE 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 D L++ +F + ++K +L + ++ Sbjct: 307 DFLKIEHF---RIEDVKQILDILQKHFTID 333 >gi|3122776|sp|P92439|RPOA_THIBE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771793|emb|CAB01384.1| alpha subunit of RNA polymerase [Thinopyrum bessarabicum] gi|22657340|gb|AAM97473.1| RNA polymerase alpha subunit [Thinopyrum bessarabicum] gi|22657344|gb|AAM97475.1| RNA polymerase alpha subunit [Thinopyrum scirpeum] Length = 339 Score = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPPFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|313184025|ref|YP_004021182.1| RNA polymerase alpha subunit [Castanea mollissima] gi|309321552|gb|ADO65092.1| RNA polymerase alpha subunit [Castanea mollissima] Length = 331 Score = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 83/319 (26%), Positives = 154/319 (48%), Gaps = 24/319 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRGDSNSLYYGRFILSPLMKGQADTIGIAVRRALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + +I +GP VTA DI ++++ Sbjct: 71 PHEYSTIIGIQESVHEILMNLKEIVLRSNLYGISGASICVKGPRYVTAQDIILPPSVQIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY T N G IDA++ P++ ++++ Sbjct: 131 DNTQHIANLTEPINLYIELQIERDRGYRIKT---TNNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE K ++ + Sbjct: 188 SYVNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIELFIPFLHAEEEKLHLENNQQKV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF + +++ EL R NCL+G NI + DL+ ++ D Sbjct: 247 TLPFFTCHDRLAKLNKNSTEITLKSIFIDQSELPPRIYNCLKGSNIHTLLDLLNNSQTDF 306 Query: 293 LRMANFGRKSLVEIKGVLG 311 ++M +F R+ + I +L Sbjct: 307 MKMKHFRREDIKHILDILE 325 >gi|169142742|ref|YP_001687169.1| RNA polymerase alpha subunit [Oenothera argillicola] gi|169143063|ref|YP_001687483.1| RNA polymerase alpha subunit [Oenothera parviflora] gi|159792980|gb|ABW98736.1| RNA polymerase alpha subunit [Oenothera argillicola] gi|159895589|gb|ABX10153.1| RNA polymerase alpha subunit [Oenothera parviflora] Length = 366 Score = 261 bits (666), Expect = 1e-67, Method: Composition-based stats. Identities = 79/309 (25%), Positives = 147/309 (47%), Gaps = 20/309 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GPG VTA DI +E+++ I +L Sbjct: 81 QESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIIDNTQHIASLM 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G IDA++ P++ ++++ S Q Sbjct: 141 EPIHLCIGLQIERNRGY---HIKSPNNFQDGSYPIDAVFMPVRNANHSIHSYGN-QNEKQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE + + + P K Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGNNKYNVTFPLFTFHKK 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R N L+G I + DL+ +++ D+++M +F + Sbjct: 257 LAKLRKPKNEIALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLMKMKHFRIED 316 Query: 303 LVEIKGVLG 311 + +I +L Sbjct: 317 VKQILDILE 325 >gi|313292082|gb|ADR51230.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 241 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 109/236 (46%), Positives = 156/236 (66%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED Sbjct: 6 DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + IILNIKG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A Sbjct: 66 VAQIILNIKGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL Sbjct: 126 SFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +M I TDGSI ++++LA++I+ + L +F+N + K + + + L Sbjct: 186 TMEIWTDGSIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 >gi|262400792|gb|ACY66281.1| RNA polymerase alpha subunit [Brassica napus] Length = 327 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I LK + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLKSNLYGTRNALICVQGPGYITARDIVLPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPINLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 ++M +F + + +I +L Sbjct: 307 IKMEHFHIEDVKKILDILEKK 327 >gi|78103281|ref|YP_358613.1| RNA polymerase alpha subunit [Phalaenopsis aphrodite subsp. formosana] gi|90110856|sp|Q3BAK5|RPOA_PHAAO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|58802811|gb|AAW82531.1| RNA polymerase alpha chain [Phalaenopsis aphrodite subsp. formosana] Length = 337 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL +G A T+G A+RR L+ + G IT + VLHE S+I G+ Sbjct: 21 RVDSKRLYYGRFVLSPLMKGQADTIGIAIRRALLGEIEGTCITRATSENVLHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I RGP +TA DI + +E+++ I NL Sbjct: 81 EESVHEILLNLKDIVLRSNLYGVRNASICVRGPKYITAQDIISPPSVEIVDTTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + T + G ID + P++ ++++ S G Sbjct: 141 EPINLCIELQIKRDRGY---RMKSTNDSHDGSYPIDIVSMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D L F++ EE KE+ N +LP K Sbjct: 197 EILFIEIWTNGSLTPKEALYEASRNLIDLLIPFLHAEEEDMNFKENENRWNLPPFSFQDK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ ELS R+ NCL+ NI + DL+ ++ D+++M F Sbjct: 257 FTNFKKNKKGIPLTCIFIDQSELSSRTYNCLKRSNIHTLLDLLSHSQEDLMKMEYFRT-- 314 Query: 303 LVEIKGVLGTMGLFLGMNL 321 ++K +L T+ +NL Sbjct: 315 -EDVKQILSTVQKHFAINL 332 >gi|164597832|ref|NP_084725.2| RNA polymerase alpha subunit [Oenothera elata subsp. hookeri] gi|169142892|ref|YP_001687315.1| RNA polymerase alpha subunit [Oenothera glazioviana] gi|169142977|ref|YP_001687399.1| RNA polymerase alpha subunit [Oenothera biennis] gi|172045760|sp|Q9MTJ3|RPOA_OENEH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|159793150|gb|ABW98904.1| RNA polymerase alpha subunit [Oenothera biennis] gi|159895504|gb|ABX10069.1| RNA polymerase alpha subunit [Oenothera glazioviana] gi|162423699|emb|CAB67191.2| RNA polymerase alpha subunit [Oenothera elata subsp. hookeri] Length = 366 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 79/309 (25%), Positives = 148/309 (47%), Gaps = 20/309 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKFEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GPG VTA DI +E+++ I +L Sbjct: 81 QESVHEILMNLKEIVLRSNLYGTCNASICVKGPGCVTAQDILLPPSVEIIDNTQHIASLM 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY N G IDA++ P++ ++++ S Q Sbjct: 141 EPIHLCIGLQIERNRGY---HIKSPNNFQDGSYPIDAVFMPVRNANHSIHSYGN-QNEKQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE + ++ + P K Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLFLPFLHAEEENLHLGKNKYNVTFPLFTFHKK 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R N L+G I + DL+ +++ D+++M +F + Sbjct: 257 LAKLRKPKNEIALKSIFIDQLELPPRIYNSLKGSKIHTLSDLLNKSQEDLMKMKHFRIED 316 Query: 303 LVEIKGVLG 311 + +I +L Sbjct: 317 VKQILDILE 325 >gi|84874044|gb|ABC68045.1| RNA polymerase subunit [Oryza granulata] Length = 317 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 94/321 (29%), Positives = 158/321 (49%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGETEGTCITHAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 R+EL + + GY +N G IDA+ P++ V+Y++ S G Y Sbjct: 121 EPMDFRIELRIKRDRGYHTEVR---KNAQDGSYPIDAVSMPVRNVNYSIFSCGNGNA-KY 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTRFQENKNRFTSPLLSFQKR 236 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKRIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ +L M+LP Sbjct: 294 MQDGKQIWDTLEKYLPMDLPK 314 >gi|139388126|ref|YP_001123318.1| RNA polymerase alpha subunit [Barbarea verna] gi|158513955|sp|A4QKD7|RPOA_BARVE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286517|dbj|BAF50142.1| RNA polymerase alpha subunit [Barbarea verna] Length = 327 Score = 261 bits (666), Expect = 2e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKEQGFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|197294143|ref|YP_002149764.1| RNA polymerase alpha subunit [Cicer arietinum] gi|197089831|gb|ACH41101.1| RNA polymerase alpha subunit [Cicer arietinum] Length = 333 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 79/316 (25%), Positives = 158/316 (50%), Gaps = 25/316 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGIAMRRILLGEIEGTCITRAKSEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ I NL Sbjct: 81 QESIHEILMNLKEIVLRSNLYGTRDASICFKGPGSVTAQDIILPPSVEIVDNTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + MEL + + GY + +++ IDA++ P++ ++++ S G Sbjct: 141 EPINLCMELKLERNRGYRIKTLNNIQDESYT---IDAVFMPVRNANHSIHSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE K ++ + +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALFEASRNLIDLFIPFLHAEEDKLNLENNQQKVTLPLFTFHDR 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ NI + +L+ +++ +++++ +F Sbjct: 257 FVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKKSNIHTLLELLNKSQEELMKIEHF-- 314 Query: 301 KSLVEIKGVLGTMGLF 316 + ++K +L + + Sbjct: 315 -RVEDVKNILNLLQIE 329 >gi|139389128|ref|YP_001123846.1| RNA polymerase alpha subunit [Nasturtium officinale] gi|158513997|sp|A4QLW5|RPOA_NASOF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134287051|dbj|BAF50670.1| RNA polymerase alpha subunit [Nasturtium officinale] Length = 327 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|22657270|gb|AAM97438.1| RNA polymerase alpha subunit [Elymus canadensis] gi|22657294|gb|AAM97450.1| RNA polymerase alpha subunit [Elymus virginicus] gi|22657296|gb|AAM97451.1| RNA polymerase alpha subunit [Elymus virginicus] gi|22657298|gb|AAM97452.1| RNA polymerase alpha subunit [Elymus virginicus] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNPKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|14017603|ref|NP_114289.1| RNA polymerase alpha subunit [Triticum aestivum] gi|17380278|sp|P12073|RPOA_WHEAT RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053005|sp|P92892|RPOA_AEGSP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053170|sp|Q6YLW2|RPOA_SECCE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053185|sp|Q7GED0|RPOA_TAECM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053186|sp|Q7GED9|RPOA_AEGCM RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1769857|emb|CAB01345.1| alpha subunit of RNA polymerase [Amblyopyrum muticum] gi|1770118|emb|CAB01303.1| alpha subunit of RNA polymerase [Aegilops comosa] gi|1770176|emb|CAB01348.1| alpha subunit of RNA polymerase [Triticum monococcum] gi|1771730|emb|CAB01375.1| alpha subunit of RNA polymerase [Aegilops speltoides] gi|1771811|emb|CAB01357.1| alpha subunit of RNA polymerase [Taeniatherum caput-medusae] gi|13928236|dbj|BAB47065.1| RNA polymerase alpha subunit [Triticum aestivum] gi|22657228|gb|AAM97417.1| RNA polymerase alpha subunit [Aegilops markgrafii] gi|22657230|gb|AAM97418.1| RNA polymerase alpha subunit [Aegilops speltoides] gi|22657332|gb|AAM97469.1| RNA polymerase alpha subunit [Secale montanum] gi|22657334|gb|AAM97470.1| RNA polymerase alpha subunit [Secale cereale] gi|22657336|gb|AAM97471.1| RNA polymerase alpha subunit [Secale montanum] gi|22657338|gb|AAM97472.1| RNA polymerase alpha subunit [Taeniatherum caput-medusae] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|297837931|ref|XP_002886847.1| RNA polymerase alpha subunit [Arabidopsis lyrata subsp. lyrata] gi|297841001|ref|XP_002888382.1| RNA polymerase alpha subunit [Arabidopsis lyrata subsp. lyrata] gi|297332688|gb|EFH63106.1| RNA polymerase alpha subunit [Arabidopsis lyrata subsp. lyrata] gi|297334223|gb|EFH64641.1| RNA polymerase alpha subunit [Arabidopsis lyrata subsp. lyrata] Length = 327 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 77/321 (23%), Positives = 156/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESKRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTETIDLCIELKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVENANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LPF P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPFFPFHNRLVNLRKKTKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHVEDVKKILDILEKK 327 >gi|99024202|dbj|BAE94567.1| plastid DNA-dependent RNA polymerase subunit alpha [Takakia lepidozioides] Length = 341 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 79/322 (24%), Positives = 149/322 (46%), Gaps = 24/322 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P G A T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSARLHYSRFAISPFRSGQASTVGIAMRRALLGEVEGTCITCAEFKRVTHEYSTILGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + D+++N+ I L+ ++ I GP VTA DI +++++ I + Sbjct: 81 QESVHDVLINLGEIVLRSDSYETQKAFISILGPKKVTAQDIILPPSVKIIDTTQYIATVX 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY ++ + G +DA++ PI+ V+Y+V S G Sbjct: 141 KAIHLDIELKIEKDFGYRIEDPIKSAD---GNFPVDAVFMPIRNVNYSVHSFENGNET-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP----------KKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L + F++ E+ + + + Sbjct: 197 EILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPS 256 Query: 249 SLPFNPALLK-------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + K +++LEL R+ NC + N + DL+ ++ D++++ NFG+K Sbjct: 257 LSADIDEMTKGVTFKHIFIDQLELPARAYNCXKRVNXHTISDLLNYSQDDLMKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S ++ VL + +N P Sbjct: 317 S---VEQVLEALQKRFSINXPK 335 >gi|51859683|gb|AAU11121.1| RNA polymerase alpha subunit [Psathyrostachys fragilis subsp. secaliformis] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIXIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|32171671|sp|Q8MAI6|RPOA_LOPEL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22657342|gb|AAM97474.1| RNA polymerase alpha subunit [Lophopyrum elongatum] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPPFTFKKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|68053188|sp|Q7H6F6|RPOA_PSAJU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770335|emb|CAB01363.1| alpha subunit of RNA polymerase [Hordeum murinum subsp. glaucum] gi|1771433|emb|CAB01336.1| alpha subunit of RNA polymerase [Psathyrostachys fragilis] gi|22657248|gb|AAM97427.1| RNA polymerase alpha subunit [Hordeum brevisubulatum] gi|22657256|gb|AAM97431.1| RNA polymerase alpha subunit [Hordeum murinum] gi|22657258|gb|AAM97432.1| RNA polymerase alpha subunit [Hordeum murinum] gi|22657346|gb|AAM97476.1| RNA polymerase alpha subunit [Psathyrostachys fragilis] gi|22657348|gb|AAM97477.1| RNA polymerase alpha subunit [Psathyrostachys juncea] gi|51859675|gb|AAU11117.1| RNA polymerase alpha subunit [Psathyrostachys juncea] gi|51859677|gb|AAU11118.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] gi|51859685|gb|AAU11122.1| RNA polymerase alpha subunit [Psathyrostachys fragilis subsp. villosus] gi|51859687|gb|AAU11123.1| RNA polymerase alpha subunit [Psathyrostachys fragilis subsp. villosus] gi|51859689|gb|AAU11124.1| RNA polymerase alpha subunit [Psathyrostachys huashanica] gi|51859693|gb|AAU11126.1| RNA polymerase alpha subunit [Psathyrostachys rupestris subsp. rupestris] gi|193885480|gb|ACF28432.1| RNA polymerase alpha subunit [Leymus angustus] gi|193885484|gb|ACF28435.1| RNA polymerase alpha subunit [Leymus chinensis] gi|193885488|gb|ACF28438.1| RNA polymerase alpha subunit [Leymus paboanus] gi|193885492|gb|ACF28441.1| RNA polymerase alpha subunit [Leymus racemosus] gi|193885496|gb|ACF28444.1| RNA polymerase alpha subunit [Leymus karelinii] gi|193885500|gb|ACF28447.1| RNA polymerase alpha subunit [Leymus sabulosus] gi|193885504|gb|ACF28450.1| RNA polymerase alpha subunit [Leymus mollis] gi|193885508|gb|ACF28453.1| RNA polymerase alpha subunit [Leymus secalinus] gi|307696913|gb|ADN85913.1| RNA polymerase alpha subunit [Leymus erianthus] gi|307696921|gb|ADN85919.1| RNA polymerase alpha subunit [Leymus arenarius] gi|307696925|gb|ADN85922.1| RNA polymerase alpha subunit [Leymus salinus] gi|307696929|gb|ADN85925.1| RNA polymerase alpha subunit [Leymus cinereus] gi|307696933|gb|ADN85928.1| RNA polymerase alpha subunit [Leymus pseudoracemosus] gi|307696937|gb|ADN85931.1| RNA polymerase alpha subunit [Leymus akmolinensis] gi|307696941|gb|ADN85934.1| RNA polymerase alpha subunit [Leymus karelinii] gi|307696945|gb|ADN85937.1| RNA polymerase alpha subunit [Leymus paboanus] gi|307696949|gb|ADN85940.1| RNA polymerase alpha subunit [Leymus angustus] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|307696909|gb|ADN85910.1| RNA polymerase alpha subunit [Leymus innovatus] gi|307696917|gb|ADN85916.1| RNA polymerase alpha subunit [Leymus triticoides] Length = 339 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---H 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|139390184|ref|YP_001123757.1| RNA polymerase alpha subunit [Lobularia maritima] gi|158513990|sp|A4QLM6|RPOA_LOBMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286961|dbj|BAF50581.1| RNA polymerase alpha subunit [Lobularia maritima] Length = 327 Score = 260 bits (665), Expect = 2e-67, Method: Composition-based stats. Identities = 76/321 (23%), Positives = 155/321 (48%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + ++ I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRKDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITAQDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHMEDVKKILDILEKK 327 >gi|228016017|gb|ACP50856.1| RNA polymerase alpha subunit [Pinus resinosa] Length = 335 Score = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 81/317 (25%), Positives = 152/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I + + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|222084117|ref|YP_002519569.1| RNA polymerase alpha chain [Keteleeria davidiana] gi|220983669|dbj|BAH11435.1| RNA polymerase alpha chain [Keteleeria davidiana] Length = 336 Score = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 86/318 (27%), Positives = 151/318 (47%), Gaps = 24/318 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V ++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVTLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TFDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D F++ EE + + S Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDFFIPFLHGEEQNIDGINNRKGSSNMPPFPLLHVLT 259 Query: 255 ----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++LEL R+ NCLR NI + DL+ + D++RM +FG++S+ Sbjct: 260 DTGETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRMEHFGKESVE 319 Query: 305 EIKGVLGTMGLFLGMNLP 322 ++ VL ++LP Sbjct: 320 QVLEVLR---KRFAIDLP 334 >gi|7525065|ref|NP_051090.1| RNA polymerase alpha subunit [Arabidopsis thaliana] gi|6685903|sp|P56762|RPOA_ARATH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|5881726|dbj|BAA84417.1| RNA polymerase alpha subunit [Arabidopsis thaliana] Length = 329 Score = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 77/323 (23%), Positives = 156/323 (48%), Gaps = 26/323 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESKRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIAGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITARDIILPPAVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + +EL + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIELKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVENANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHQASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 +LPF P + +++LEL R NCL+ NI + DL+ ++ Sbjct: 247 TLPFFPFHNRLVNLRKKKKTKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQE 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTM 313 D++++ +F + + +I +L Sbjct: 307 DLIKIEHFHVEDVKKILDILEKK 329 >gi|68053189|sp|Q7H6G1|RPOA_PSEPI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053190|sp|Q7H6I5|RPOA_ELYCA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1769861|emb|CAB01378.1| alpha subunit of RNA polymerase [Australopyrum retrofractum] gi|1770228|emb|CAB01300.1| alpha subunit of RNA polymerase [Dasypyrum villosum] gi|1770247|emb|CAB01316.1| alpha subunit of RNA polymerase [Eremopyrum triticeum] gi|1770348|emb|CAB01321.1| alpha subunit of RNA polymerase [Henrardia persica] gi|1771184|emb|CAB01306.1| alpha subunit of RNA polymerase [Lophopyrum elongatum] gi|1771497|emb|CAB01309.1| alpha subunit of RNA polymerase [Pseudoroegneria spicata] gi|1771501|emb|CAB01324.1| alpha subunit of RNA polymerase [Peridictyon sanctum] gi|22657242|gb|AAM97424.1| RNA polymerase alpha subunit [Australopyrum retrofractum] gi|22657244|gb|AAM97425.1| RNA polymerase alpha subunit [Australopyrum velutinum] gi|22657264|gb|AAM97435.1| RNA polymerase alpha subunit [Dasypyrum villosum] gi|22657268|gb|AAM97437.1| RNA polymerase alpha subunit [Elymus canadensis] gi|22657272|gb|AAM97439.1| RNA polymerase alpha subunit [Elymus canadensis] gi|22657274|gb|AAM97440.1| RNA polymerase alpha subunit [Elymus ciliaris] gi|22657276|gb|AAM97441.1| RNA polymerase alpha subunit [Elymus elymoides] gi|22657278|gb|AAM97442.1| RNA polymerase alpha subunit [Elymus glaucus] gi|22657280|gb|AAM97443.1| RNA polymerase alpha subunit [Elymus glaucus] gi|22657282|gb|AAM97444.1| RNA polymerase alpha subunit [Elymus glaucus] gi|22657286|gb|AAM97446.1| RNA polymerase alpha subunit [Elymus lanceolatus] gi|22657288|gb|AAM97447.1| RNA polymerase alpha subunit [Elymus lanceolatus] gi|22657290|gb|AAM97448.1| RNA polymerase alpha subunit [Elymus trachycaulus] gi|22657292|gb|AAM97449.1| RNA polymerase alpha subunit [Elymus trachycaulus] gi|22657300|gb|AAM97453.1| RNA polymerase alpha subunit [Elymus wawawaiensis] gi|22657302|gb|AAM97454.1| RNA polymerase alpha subunit [Elymus wawawaiensis] gi|22657304|gb|AAM97455.1| RNA polymerase alpha subunit [Eremopyrum bonaepartis] gi|22657306|gb|AAM97456.1| RNA polymerase alpha subunit [Eremopyrum bonaepartis] gi|22657310|gb|AAM97458.1| RNA polymerase alpha subunit [Eremopyrum orientale] gi|22657312|gb|AAM97459.1| RNA polymerase alpha subunit [Henrardia persica] gi|22657316|gb|AAM97461.1| RNA polymerase alpha subunit [Peridictyon sanctum] gi|22657318|gb|AAM97462.1| RNA polymerase alpha subunit [Pseudoroegneria strigosa] gi|22657320|gb|AAM97463.1| RNA polymerase alpha subunit [Pseudoroegneria strigosa] gi|22657322|gb|AAM97464.1| RNA polymerase alpha subunit [Pseudoroegneria tauri subsp. libanotica] gi|22657324|gb|AAM97465.1| RNA polymerase alpha subunit [Pseudoroegneria spicata] gi|22657326|gb|AAM97466.1| RNA polymerase alpha subunit [Pseudoroegneria spicata] gi|22657328|gb|AAM97467.1| RNA polymerase alpha subunit [Pseudoroegneria spicata] gi|22657330|gb|AAM97468.1| RNA polymerase alpha subunit [Pseudoroegneria spicata] gi|34329585|gb|AAQ63942.1| RNA polymerase alpha subunit [Elymus repens] gi|34329587|gb|AAQ63943.1| RNA polymerase alpha subunit [Elymus repens] gi|34329589|gb|AAQ63944.1| RNA polymerase alpha subunit [Elymus repens] gi|34329591|gb|AAQ63945.1| RNA polymerase alpha subunit [Elymus repens] gi|34329593|gb|AAQ63946.1| RNA polymerase alpha subunit [Elymus repens] gi|34329595|gb|AAQ63947.1| RNA polymerase alpha subunit [Elymus repens] gi|73747864|gb|AAZ82833.1| RNA polymerase subunit a [Elymus abolinii] gi|73747866|gb|AAZ82834.1| RNA polymerase subunit a [Elymus caucasicus] gi|317017396|gb|ADU86100.1| RNA polymerase alpha subunit [Elymus caucasicus] gi|317017398|gb|ADU86101.1| RNA polymerase alpha subunit [Elymus canadensis] gi|317017400|gb|ADU86102.1| RNA polymerase alpha subunit [Elymus semicostatus] gi|317017402|gb|ADU86103.1| RNA polymerase alpha subunit [Elymus sibiricus] Length = 339 Score = 260 bits (664), Expect = 2e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|228016469|gb|ACP51301.1| RNA polymerase alpha subunit [Pinus torreyana subsp. insularis] gi|228016530|gb|ACP51361.1| RNA polymerase alpha subunit [Pinus torreyana subsp. torreyana] Length = 335 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 82/318 (25%), Positives = 153/318 (48%), Gaps = 23/318 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLPD 323 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPPK 334 >gi|22657232|gb|AAM97419.1| RNA polymerase alpha subunit [Aegilops tauschii] Length = 339 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|7388094|sp|P93968|RPOA_FESFE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770264|emb|CAB01387.1| alpha subunit of RNA polymerase [Festucopsis festucoides] Length = 339 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ ++Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNLNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|2500619|sp|P92418|RPOA_PSAFR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771429|emb|CAB01333.1| alpha subunit of RNA polymerase [Psathyrostachys fragilis] Length = 339 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|165910445|gb|ABY73977.1| RNA polymerase alpha subunit [Cuscuta europaea] Length = 329 Score = 260 bits (664), Expect = 3e-67, Method: Composition-based stats. Identities = 80/316 (25%), Positives = 147/316 (46%), Gaps = 25/316 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ Sbjct: 21 RIDSKRLFYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GP VTA DI +++++ I L Sbjct: 81 QESVHEILMNLKEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + + GY ++ G IDAL+ P++ ++++ S + Sbjct: 141 EPIDFFIGLKIERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHSYGNEK---Q 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ++RIL D F EE + + + LP K Sbjct: 195 EILFLEIWTNGSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIPLPPLIFYNK 254 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LE + NCL+ NI + DL + + D+L++ +F Sbjct: 255 VTTLIKKKKKLSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLLKIEHF---Q 311 Query: 303 LVEIKGVLGTMGLFLG 318 L +IK +LG +G + Sbjct: 312 LEDIKHILGILGKYFA 327 >gi|2500618|sp|P92429|RPOA_AEGTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771509|emb|CAB01351.1| alpha subunit of RNA polymerase [Aegilops tauschii] Length = 339 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNSIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|219674007|ref|YP_002456491.1| RNA polymerase alpha subunit [Trifolium subterraneum] gi|193788976|gb|ACF20572.1| RNA polymerase alpha subunit [Trifolium subterraneum] Length = 337 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 75/316 (23%), Positives = 152/316 (48%), Gaps = 23/316 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G +RR+L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ I NL Sbjct: 81 QESIHEILMNLKQIVLRSNLYGTRDASICFKGPGYVTARDIILPPSVEIVDNTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY ++ I +D ++ P+ +Y++ S Sbjct: 141 EPINLCIELQIERARGYRKKTIDNIQD-GSYTIDVDPVFMPVIHANYSIHSYLNANE-KQ 198 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ A+R L D F++ EE + + + +LP + Sbjct: 199 EILFLEIWTNGSLTPKEALYEAARNLIDLFIPFLHAEEENFHFENNQHKVTLPLFAFHDR 258 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ +I + L+ +++ D++++ +F Sbjct: 259 LVKDKLRKNKKQIELKSVFIDQLELPPRIYNCLKKSDIHTLYQLLNKSQEDLMKIEDF-- 316 Query: 301 KSLVEIKGVLGTMGLF 316 S+ ++K +L + + Sbjct: 317 -SVEDVKNILNILQID 331 >gi|161511773|emb|CAP16897.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 249 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 107/248 (43%), Positives = 154/248 (62%), Gaps = 2/248 (0%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I E +N + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+ Sbjct: 2 KIHKIDENDNYGRFVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIE 61 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC Sbjct: 62 GVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICT 121 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + LT G GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 122 VAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQ 181 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + KE + + + Sbjct: 182 RDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEK 241 Query: 255 ALLKKVEE 262 L +EE Sbjct: 242 MLEMTIEE 249 >gi|269784302|emb|CBH50796.1| alpha subunit of RNA polymerase [Vibrio sp. C 2.4] gi|289524814|emb|CBJ94463.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 14.14] Length = 266 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 116/269 (43%), Positives = 177/269 (65%), Gaps = 8/269 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++L+ N G+KSL EIK VL + GL LG Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLG 266 >gi|300431272|gb|ADK12601.1| RNA polymerase alpha subunit [Piptochaetium lasianthum] Length = 339 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 152/319 (47%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYXXXXXGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + + T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLELWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMKIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|7388095|sp|P93974|RPOA_EREDI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770241|emb|CAB01312.1| alpha subunit of RNA polymerase [Eremopyrum distans] gi|22657308|gb|AAM97457.1| RNA polymerase alpha subunit [Eremopyrum orientale] Length = 339 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFKKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|228015949|gb|ACP50789.1| RNA polymerase alpha subunit [Pinus ponderosa] gi|228016842|gb|ACP51668.1| RNA polymerase alpha subunit [Pinus attenuata] Length = 335 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 82/317 (25%), Positives = 153/317 (48%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|58758777|gb|AAW81780.1| RNA polymerase alpha subunit [Dendroligotrichum dendroides] Length = 340 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 85/321 (26%), Positives = 153/321 (47%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + P G A+T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 KVDSERLHYSRFAISPFRCGQANTVGIAMRRALLGEIEGTCITCARSKKVTHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E DI++N+K I LK + ++ + GP +TA DI +++++ I + Sbjct: 81 QESAHDILINLKEIVLKSNSYETQKAFLSILGPKKITAQDIILPPSVKIIDTTQYIATIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY ++ + G +IDA++ PI+ +Y+V S + Sbjct: 141 KPIHLDIELEIDKDCGYRIXDSVKSID---GYFSIDAIFMPIRNANYSVHSFENNNKI-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GSIT ++++ ASR L D F++ E+ + KS + Sbjct: 197 EILFIEIWTNGSITPKEALYEASRSLIDLFIPFLHTEKKETINGLKTEYKSNDMSDFSSF 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ N+ + DL+ + D +++ NFG+KS Sbjct: 257 SPLADKLTKEIKFKHIFIDQLELPARAYNCLKRVNVHPISDLLNYXQDDFMKIKNFGKKS 316 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 ++ VL + +NLP+ Sbjct: 317 ---VEQVLEALQKQFSINLPE 334 >gi|7388091|sp|P93960|RPOA_PSARU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771473|emb|CAB01342.1| alpha subunit of RNA polymerase [Psathyrostachys rupestris] Length = 339 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNYIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|7388080|sp|P93993|RPOA_AUSVE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1769912|emb|CAB01381.1| alpha subunit of RNA polymerase [Australopyrum velutinum] Length = 339 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVXMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|7524684|ref|NP_042438.1| RNA polymerase alpha subunit [Pinus thunbergii] gi|1173147|sp|P41629|RPOA_PINTH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1262678|dbj|BAA04395.1| RNA polymerase alpha subunit [Pinus thunbergii] gi|228016402|gb|ACP51235.1| RNA polymerase alpha subunit [Pinus thunbergii] Length = 335 Score = 259 bits (663), Expect = 3e-67, Method: Composition-based stats. Identities = 81/317 (25%), Positives = 152/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLHKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I + + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|119662335|emb|CAJ33156.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 213 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 100/213 (46%), Positives = 148/213 (69%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LKM+ D K + I GP VTA DI D+EVLNP+ IC + + +TV K Sbjct: 61 LALKMNTDEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKK 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI Sbjct: 121 GRGYVAADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + ++++LA++IL + L +F+N + K + Sbjct: 181 SPREAISLAAKILTEHLDIFVNLTDEAKNAEIM 213 >gi|73747868|gb|AAZ82835.1| RNA polymerase subunit a [Elymus dentatus] Length = 339 Score = 259 bits (663), Expect = 4e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|313292084|gb|ADR51231.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 241 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 107/240 (44%), Positives = 155/240 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKG Sbjct: 2 ITKIDEDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + Sbjct: 62 VREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D Sbjct: 122 SEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDD 181 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + L Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 >gi|313292086|gb|ADR51232.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 241 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 107/240 (44%), Positives = 155/240 (64%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I E+ + + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKG Sbjct: 2 ITKIDEDRDYGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKG 61 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + Sbjct: 62 VREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTV 121 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A LTV G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D Sbjct: 122 AEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDD 181 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +DKL+M I TDGSI +++++LA++IL + L +F+N + K + + + L Sbjct: 182 FDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 >gi|41688709|sp|Q8MAI9|RPOA_ELYCL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22657266|gb|AAM97436.1| RNA polymerase alpha subunit [Leymus californicus] Length = 339 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---H 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|296877834|ref|ZP_06901856.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile NAP07] gi|296431134|gb|EFH16959.1| DNA-directed RNA polymerase subunit alpha [Clostridium difficile NAP07] Length = 252 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 102/251 (40%), Positives = 161/251 (64%), Gaps = 2/251 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP ++ + L E+ + EPL RG+ T+GNALRR+L+SSL G A+ A++IDG Sbjct: 3 EIEKP-KVDIVEL-SEDYRYGKFVIEPLERGYGITIGNALRRILLSSLPGVAVNAIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV ED+T+IIL +K ++ + G+ + + I +GP +T DI D+E+ Sbjct: 61 VLHEFSTIPGVKEDVTEIILTLKELSATIDGEGSRTLKIEAQGPCSITGADIICSPDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 L+ D I LD +A + ME+ V KG GYV A+ ++TEN PIG++ +D++Y+P++KVSY V Sbjct: 121 LSKDLAIATLDDNAKLNMEIFVDKGRGYVSAEENKTENVPIGVLPVDSIYTPVEKVSYHV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ DYDKL + + T+GSI ++ ++LA+++L + L +FI+ E V+ + Sbjct: 181 ENTRVGQKTDYDKLVLEVWTNGSINPQEGISLAAKVLVEHLNLFIDLTEHVSSVEIMVEK 240 Query: 248 KSLPFNPALLK 258 + L Sbjct: 241 EEDQKEKVLEM 251 >gi|7388090|sp|P93956|RPOA_FESSE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770282|emb|CAB01778.1| alpha subunit of RNA polymerase [Festucopsis serpentini] gi|22657262|gb|AAM97434.1| RNA polymerase alpha subunit [Dasypyrum villosum] Length = 339 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|66876504|gb|AAY58043.1| RpoA [Cuscuta europaea] Length = 329 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 80/316 (25%), Positives = 147/316 (46%), Gaps = 25/316 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ Sbjct: 21 RIDSKRLFYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GP VTA DI +++++ I L Sbjct: 81 QESVHEILMNLKEIVLRSNLYESCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + + GY ++ G IDAL+ P++ ++++ S + Sbjct: 141 EPIDFFIGLKIERNRGYFNKVDLHFDD---GSYPIDALFMPVQNANHSIHSYGNEK---Q 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ++RIL D F EE + + + LP K Sbjct: 195 EILFLEIWTNGSLTPKEALHESARILIDFFIPFFQMEEENLYLADAKHTIXLPPLIFYNK 254 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LE + NCL+ NI + DL + + D+L++ +F Sbjct: 255 VTTLIKKKKKLSLKLIFIDQLEFPPKIYNCLKKSNIFTLFDLFNQKQEDLLKIEHF---Q 311 Query: 303 LVEIKGVLGTMGLFLG 318 L +IK +LG +G + Sbjct: 312 LEDIKHILGILGKYFA 327 >gi|307683571|dbj|BAJ19764.1| RNA polymerase alpha chain [Larix decidua] Length = 335 Score = 259 bits (662), Expect = 4e-67, Method: Composition-based stats. Identities = 85/317 (26%), Positives = 153/317 (48%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P+ +Y++ S + + L Sbjct: 144 TSDIRLRIEKNRGYII---HSPNNYQDGIFPIDAVFMPVPDANYSIHSYG-SRNEIREVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP------- 254 + I T+G +T +++ ASR L D L F++ EE + + ++P P Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLLIPFLHGEEQNIDGMNNRKGSNMPPFPLSHVLTD 259 Query: 255 ---------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL R+ NCLR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TRETKEKIAFQHIFIDQLELPPRTYNCLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVL---QKRFAIDPP 333 >gi|7388079|sp|P92209|RPOA_AGRCR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1769834|emb|CAB01390.1| alpha subunit of RNA polymerase [Agropyron cristatum] gi|22657236|gb|AAM97421.1| RNA polymerase alpha subunit [Agropyron cristatum] gi|22657238|gb|AAM97422.1| RNA polymerase alpha subunit [Agropyron cristatum] gi|22657240|gb|AAM97423.1| RNA polymerase alpha subunit [Agropyron mongolicum] Length = 339 Score = 259 bits (662), Expect = 5e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDRAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|139388942|ref|YP_001123669.1| RNA polymerase alpha subunit [Lepidium virginicum] gi|158513983|sp|A4QLD8|RPOA_LEPVR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286872|dbj|BAF50493.1| RNA polymerase alpha subunit [Lepidium virginicum] Length = 327 Score = 259 bits (661), Expect = 5e-67, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGTRNALICVQGPGYITAQDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLMEPIDLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|223038488|ref|ZP_03608782.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter rectus RM3267] gi|222880345|gb|EEF15432.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter rectus RM3267] Length = 328 Score = 259 bits (661), Expect = 5e-67, Method: Composition-based stats. Identities = 105/329 (31%), Positives = 170/329 (51%), Gaps = 11/329 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P I + EN + A P G+A TL + LRR+L SS G A T V+I+GV H Sbjct: 1 MPTEI---SVESISENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+ I+N+K I K+ +S + V +GP + AGD+++ ++++N Sbjct: 58 EFDSMRGMLEDVAQFIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKSDV-VDIVN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + ++ DA ++ + + KG GYVP++ R + G I +DA ++P+KK Y + + Sbjct: 117 PDAYLATINEDAELKFSVIIQKGIGYVPSEEIRG-DTEEGYIALDAFFTPVKKAVYELVN 175 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 DY+K+ T+ TDG + ++ A + Q+ +F + Sbjct: 176 VLVEDNPDYEKIIFTVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNIDISAGLNAQTSG 235 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + LL+ VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V Sbjct: 236 SE-HAKLLQSVEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLEEIKAV 294 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 + +G +G +L E+L KK D Sbjct: 295 MQEIGYPVGGDLGG----GKEQLKKKIAD 319 >gi|159106895|ref|YP_001531313.1| RNA polymerase alpha subunit [Lolium perenne] gi|172048163|sp|A8Y9B8|RPOA_LOLPR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|158934429|emb|CAO86007.1| RNA polymerase alpha subunit [Lolium perenne] Length = 341 Score = 259 bits (661), Expect = 5e-67, Method: Composition-based stats. Identities = 89/321 (27%), Positives = 156/321 (48%), Gaps = 25/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G I + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTSQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF-- 314 Query: 301 KSLVEIKGVLGTMGLFLGMNL 321 + + K + T+ +L ++L Sbjct: 315 -HMEDGKQIWDTLEKYLPIDL 334 >gi|118430418|ref|YP_874684.1| RNA polymerase alpha subunit [Hordeum vulgare subsp. vulgare] gi|68053191|sp|Q7H6J0|RPOA_HORMA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053192|sp|Q7H6J1|RPOA_HORJU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|68053193|sp|Q7H6J2|RPOA_HORBU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|126302597|sp|P92392|RPOA_HORVU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770313|emb|CAB01360.1| alpha subunit of RNA polymerase [Hordeum brachyantherum subsp. californicum] gi|1770331|emb|CAB01774.1| alpha subunit of RNA polymerase [Hordeum erectifolium] gi|1770339|emb|CAB01366.1| alpha subunit of RNA polymerase [Hordeum marinum subsp. gussoneanum] gi|22657246|gb|AAM97426.1| RNA polymerase alpha subunit [Hordeum brachyantherum] gi|22657250|gb|AAM97428.1| RNA polymerase alpha subunit [Hordeum bulbosum] gi|22657252|gb|AAM97429.1| RNA polymerase alpha subunit [Hordeum jubatum] gi|22657254|gb|AAM97430.1| RNA polymerase alpha subunit [Hordeum marinum] gi|22657260|gb|AAM97433.1| RNA polymerase alpha subunit [Hordeum pusillum] gi|118201072|gb|ABK79443.1| RNA polymerase alpha subunit [Hordeum vulgare subsp. vulgare] gi|317017394|gb|ADU86099.1| RNA polymerase alpha subunit [Elymus enysii] gi|317017404|gb|ADU86104.1| RNA polymerase alpha subunit [Stenostachys gracilis] Length = 339 Score = 259 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E ++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|228017468|gb|ACP52284.1| RNA polymerase alpha subunit [Pinus merkusii] Length = 335 Score = 259 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 81/317 (25%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I + + +I+ GP VTA DI ++ ++ I L Sbjct: 84 VHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKTIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|22657314|gb|AAM97460.1| RNA polymerase alpha subunit [Heteranthelium piliferum] Length = 339 Score = 259 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTEL---IKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|51859695|gb|AAU11127.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 259 bits (661), Expect = 6e-67, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKNLPIDL 332 >gi|119663518|emb|CAK22330.1| RNA polymerase alpha subunit [Lactobacillus algidus] Length = 230 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 102/229 (44%), Positives = 153/229 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GA+IT +QIDGVLHE S+I+GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGASITNIQIDGVLHEFSTIEGVLEDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK++ D + + I +GP VTAGDI +D+EVLNPD IC + A + + Sbjct: 61 KKVALKLAADEDQSIEIDVKGPAEVTAGDIIGNSDVEVLNPDLYICTVAEGASFHVRMNA 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 S G GYV A ++ E+ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+G Sbjct: 121 SNGRGYVSADQNKAEDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKDDYDKLTLDVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SIT ++++L+++IL + L +F++ + K + + + L Sbjct: 181 SITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMVEKEETHKEKMLEM 229 >gi|71056828|emb|CAH58969.1| DNA-directed RNA polymerase alpha chain [Enterococcus sulfureus] Length = 234 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 108/234 (46%), Positives = 153/234 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILN Sbjct: 1 QFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LKM G+ K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKMYGEDEKTLEIDIAGPATVTAGDILVDSDVEILNKDMYICTVSEGATFNARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TD Sbjct: 121 VRPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 GSI D+++LA++I+ + L +F+N + K + + + L +EE Sbjct: 181 GSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKHAEIMVEKEETQKEKMLEMTIEE 234 >gi|225621052|ref|YP_002722310.1| DNA-directed RNA polymerase subunit alpha [Brachyspira hyodysenteriae WA1] gi|225215872|gb|ACN84606.1| DNA-directed RNA polymerase alpha subunit [Brachyspira hyodysenteriae WA1] Length = 324 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 104/313 (33%), Positives = 173/313 (55%), Gaps = 4/313 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P+ + + IA+P RG+A T+GNALRRVL+SS+ G AIT ++IDGV + Sbjct: 12 HPHRVTFEK-KDLTPTYGKFIAQPFERGYAVTVGNALRRVLLSSIPGYAITTIKIDGVSN 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVN-DIEVL 128 E ++ G+ ED +I+++K + + + K + + K GP V+TAGD+ + + +V Sbjct: 71 EFENVPGMKEDTIVMIMHLKNVVVSLPSHMDTKTIHMKKEGPCVITAGDLVADDTEAQVH 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD+ I + M++ + G+ YVPA+ + + I I IDA+YSPI V Y V+ Sbjct: 131 NPDYYIATIAEGYTFEMDIQIEGGYSYVPAEMNIELLEDINAIAIDAIYSPIVSVKYNVD 190 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 R GQ +DY KL++ I+T G+I + +++ A++IL+D L F++ EE + ++ Sbjct: 191 PIRVGQRIDYGKLTLEIETKGNIAPDKALSQAAKILRDNLKHFMDPEEANGDDEKIEETP 250 Query: 249 SLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + K +EE+E SVR+ N L ++ + + +T+AD+LR+ + EIK Sbjct: 251 KDSVLDSLKGKHIEEVEFSVRTANFLMASDLKTLDKVAVKTDADLLRLIGANEMIIEEIK 310 Query: 308 GVLGTMGLFLGMN 320 L LGM Sbjct: 311 EKLAEYNAHLGMR 323 >gi|68164836|ref|YP_247632.1| RNA polymerase alpha subunit [Cucumis sativus] gi|75317292|sp|Q4VZK3|RPOA_CUCSA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|67511431|emb|CAJ00791.1| RNA polymerase alpha chain [Cucumis sativus] gi|74027132|gb|AAZ94682.1| RNA polymerase alpha subunit [Cucumis sativus] gi|115432835|gb|ABI97448.1| RNA polymerase alpha subunit [Cucumis sativus] gi|115498335|gb|ABI98777.1| RNA polymerase alpha subunit [Cucumis sativus] Length = 333 Score = 258 bits (660), Expect = 7e-67, Method: Composition-based stats. Identities = 78/328 (23%), Positives = 150/328 (45%), Gaps = 27/328 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G T+G A+R+ L+ + G IT + + + Sbjct: 11 RTLKWKCVESRADSKRLYYGRFILSPLMKGQGDTIGIAMRKALLGEIEGTCITRAKSEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N+K I L+ + + +I +GPG VTA DI +E++ Sbjct: 71 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRDASICVKGPGCVTAQDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL + +EL + + GY N +DA++ P++ V++++ Sbjct: 131 DNTQHIANLMEPINLCIELKIERNRGY---HIQTPNNFQDASYPMDAIFMPVRNVNHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L D F++ EE K+ N K Sbjct: 188 SYVNGNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEEKENFHLKNNKK 246 Query: 249 SLPFNPALLKK------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + + +++ EL R NCL+ NI + DL+ + Sbjct: 247 KVTLPLFTFHEKLAKLRKKKKEIALKYIFIDQSELPPRIYNCLKRCNIHTLFDLLNNSPD 306 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLG 318 +++++ +F + + I +L M Sbjct: 307 ELMKIKHFRIEDVKHILDIL-EMEKNFA 333 >gi|269784256|emb|CBH50773.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 6.8] gi|269784258|emb|CBH50774.1| alpha subunit of RNA polymerase [Vibrio sp. Rd2L5] gi|269784260|emb|CBH50775.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 16.13] Length = 268 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 115/269 (42%), Positives = 176/269 (65%), Gaps = 8/269 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++L+ N G+KSL EIK VL + GL L Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSLA 266 >gi|169788447|emb|CAP58145.1| RNA polymerase [Lactobacillus rossiae] Length = 235 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 113/235 (48%), Positives = 163/235 (69%), Gaps = 2/235 (0%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K ++LKM Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNMKKVSLKM 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + D K + I +GP VTAGD QT D+EV+NPD IC + A M LT +KG GYV Sbjct: 61 ATDEEKGMDIDVKGPATVTAGDFQTDADVEVMNPDLYICTVADGATFHMHLTANKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT Sbjct: 121 SADENKARQDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 ++++LA++IL + L MF++ + K + + + L +EEL+LSVRS Sbjct: 181 EAISLAAKILTEHLAMFVDLTDTAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 235 >gi|71056812|emb|CAH58961.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 237 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 107/236 (45%), Positives = 154/236 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T II Sbjct: 2 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQII 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 62 LNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHAR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I Sbjct: 122 LTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIW 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 182 TDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 237 >gi|311990458|gb|ADQ26359.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 242 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 108/242 (44%), Positives = 161/242 (66%), Gaps = 2/242 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K Sbjct: 1 VVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + LK+ + K + I +GP VTA DIQ D+ +LN D I + A + +++T Sbjct: 61 QVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTAD 120 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+ Sbjct: 121 KGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GS+T ++++LA++IL + L MF+N E + + + + L K +EEL+LSVR Sbjct: 181 GSLTPTEAISLAAKILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKTIEELDLSVR 240 Query: 269 ST 270 S Sbjct: 241 SY 242 >gi|161513428|emb|CAP16857.1| DNA-directed RNA polymerase subunit alpha [Pediococcus argentinicus] Length = 225 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 103/225 (45%), Positives = 149/225 (66%), Gaps = 2/225 (0%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAA+T+VQID VLHE S++KGV ED+T IILN Sbjct: 1 RFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTSVQIDDVLHEFSTVKGVVEDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K ++LK+ D K + I +GP VTAGDI +D+ +LNPD IC + A LT Sbjct: 61 LKKVSLKIDSDDEKSMEIDVKGPATVTAGDISADSDVTILNPDLAICTVAEGATFHAHLT 120 Query: 149 VSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GY A R + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I Sbjct: 121 AEKGRGYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 TDGSIT ++ +L+++IL + L +F+N + K+ + + + Sbjct: 181 TDGSITPSEATSLSAKILTEHLAIFVNLNDQAKDTEIMVEKEESH 225 >gi|22711961|ref|NP_683832.1| RNA polymerase alpha subunit [Chaetosphaeridium globosum] gi|25009134|sp|Q8M9V7|RPOA_CHAGL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22416965|gb|AAM96565.1| alpha subunit of RNA polymerase [Chaetosphaeridium globosum] Length = 334 Score = 258 bits (660), Expect = 8e-67, Method: Composition-based stats. Identities = 84/321 (26%), Positives = 153/321 (47%), Gaps = 25/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + I PL +G A+T+G ALRR L+S + G IT+V+I +HE SS+ GV Sbjct: 21 KIEKSTLHYGRFIISPLWKGQANTIGLALRRTLLSEVEGTCITSVKIKNAIHEYSSLSGV 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L S + GP V A D+ + I+++NPD I ++ Sbjct: 81 QESVHDILINLKKIILSSSFSGIFEGFLSVVGPKTVLASDLNLPSFIKIVNPDQYIATVN 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +++ + KG GY + G +D ++ PI+ V+Y++ S + + Sbjct: 141 KPINFNLQIYIQKGKGYSLKNPISIK---QGFFLVDPVFIPIRSVNYSIHSFEDEKAT-K 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK------------------KE 240 + L + + T+GSI ++++ AS L + ++ E + + Sbjct: 197 EFLIVEVWTNGSIEPKEAIKEASYNLVNLFTPLVSQEYQQLKNQLFKEDEKNKELNFIET 256 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 I+ +N +++LELS R+ N L+ NI + DL++ + D+L++ NFG+ Sbjct: 257 NSNAISDNENSYNLYNQIFLDQLELSSRAYNSLKKNNINTISDLLKYSYEDLLKIKNFGK 316 Query: 301 KSLVEIKGVLGTMGLFLGMNL 321 KS ++ L + L Sbjct: 317 KSADQVIEQLK---KRFKIQL 334 >gi|124302938|ref|YP_001023733.1| RNA polymerase alpha subunit [Angiopteris evecta] gi|158512827|sp|A2T365|RPOA_ANGEV RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|110628336|gb|ABG79632.1| RNA polymerase alpha subunit [Angiopteris evecta] Length = 341 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 84/321 (26%), Positives = 152/321 (47%), Gaps = 24/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P +G A+T+G A+RR L+ + G AIT + V+HE S+I G+ Sbjct: 21 KIESKRLHYGRFAISPFRKGQANTVGIAIRRSLLGEIEGTAITYAKSKNVIHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N K I L+ ++ I GP +TA DI ++ ++ I + Sbjct: 81 EESINDILINFKEIVLRSDSYETQKAYISITGPKDITAEDILLPPSVQAIDDSQHIATIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D + +E+ + K GY ++ G IDA++ PI+K +Y+V S + Sbjct: 141 KDITLDIEIEIQKDRGYRI---QDSKESQAGEFFIDAVFMPIRKANYSVHSFGNNKKF-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV----------- 247 + L + I TDGS+T ++++ ASR L D F++ EE + D Sbjct: 197 EILFIEIWTDGSLTPKEALYEASRNLIDLFLPFLHTEEEEIISDRDEKSESNGNILLSNS 256 Query: 248 ------KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + +++LEL R+ NCL+ ++ + DL++ ++ D+ ++ NFG+K Sbjct: 257 ISTDIDRMAKEVAFKHIFIDQLELPARAYNCLKKVDVHTISDLLKYSQDDLRKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLP 322 S+ ++ L +NLP Sbjct: 317 SVDQVLEALQER---FAINLP 334 >gi|71056884|emb|CAH58998.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 236 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 108/236 (45%), Positives = 156/236 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 GSI +++++LA++IL + L +F+N + K + + + L +EEL+ Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELD 236 >gi|71056888|emb|CAH59000.1| DNA-directed RNA polymerase alpha chain [Enterococcus mundtii] Length = 238 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 107/238 (44%), Positives = 156/238 (65%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T Sbjct: 1 KDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQ 60 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 61 IILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFH 120 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M Sbjct: 121 ARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTME 180 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 I TDGSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 181 IWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 238 >gi|311990563|gb|ADQ26408.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus helveticus] Length = 243 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 103/243 (42%), Positives = 151/243 (62%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K + + Sbjct: 1 LRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIEL 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VTA D++ D++VLNPD IC + + ME+ V G GYV A +++++ Sbjct: 61 DVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++IL + Sbjct: 121 PIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVE 180 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 +F + + K + + + L +EEL+LSVRS NCL+ I + +L Sbjct: 181 HFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELTD 240 Query: 287 RTE 289 TE Sbjct: 241 MTE 243 >gi|11467223|ref|NP_043055.1| RNA polymerase alpha subunit [Zea mays] gi|1173146|sp|P09562|RPOA_MAIZE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|902253|emb|CAA60317.1| RNA polymerase alpha subunit [Zea mays] Length = 339 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 89/321 (27%), Positives = 157/321 (48%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTTQPIANLR 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + Y +N G IDA++ P++ V+Y++ S G + Sbjct: 141 EPVDFCIELQIKRDRAYHTELR---KNSQDGSYPIDAVFMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHTEEEGTSFEENKNRLTPPLLTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++++ +F Sbjct: 257 FTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMQINSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 314 MEDGKLIWDTLEKHLPIDLPK 334 >gi|7388093|sp|P93964|RPOA_SECST RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771726|emb|CAB01374.1| alpha subunit of RNA polymerase [Secale strictum] Length = 339 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLX 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDXF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|228016331|gb|ACP51165.1| RNA polymerase alpha subunit [Pinus taeda] Length = 335 Score = 258 bits (659), Expect = 9e-67, Method: Composition-based stats. Identities = 82/317 (25%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKXIVLRSDSYGIXEASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL + N LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKIYNSLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|169142819|ref|YP_001687243.1| RNA polymerase alpha subunit [Aneura mirabilis] gi|153973845|gb|ABS54505.1| RNA polymerase alpha subunit [Aneura mirabilis] Length = 342 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 95/344 (27%), Positives = 161/344 (46%), Gaps = 29/344 (8%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 MIQ+ E+ + + + E+ P +G A+T+G A+RR L++ + Sbjct: 1 MIQEEI-EISTRTLLRWRCIESRTESKRLLYGRFAISPFRKGQANTVGIAMRRALLNEIE 59 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GA+IT+ I G+ HE S+I G+ E + DI++N+K I L+ ++ I GP VTA Sbjct: 60 GASITSATIRGIKHEYSAINGIRESIHDILINLKEIILRSDSPEPQKAYICVSGPSEVTA 119 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DIQ + I V++ + + + +EL + K GY + + G IDA+ Sbjct: 120 RDIQGSSLIHVIDNTQYVATITGKISLDIELDIEKDRGY---RMENSRKYREGFFPIDAV 176 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF-- 234 + PI+ +Y+V S + + L + I T+GS+T E ++ ASR L D +N Sbjct: 177 FMPIRNANYSVHSFGSREKT-KEILLLEIWTNGSLTPEKALYEASRNLIDLFIPSMNPGG 235 Query: 235 EEPKKEVKEDINVKSLPFNPALLKK---------------VEELELSVRSTNCLRGENIV 279 EE KE L +++LEL R+ NCL+ N+ Sbjct: 236 EEKNSGTKEKPESDLSHSTVQFLSTDMEQMTRDVAPKHIFIDQLELPARAYNCLKRVNVH 295 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + DL+ E D++++ NFG++S+ ++ L +NLP Sbjct: 296 TVADLLDYGENDLMKIKNFGKESIKQVSEALK---KRFLVNLPK 336 >gi|311990464|gb|ADQ26362.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 243 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 102/243 (41%), Positives = 151/243 (62%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K + Sbjct: 1 SLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 + GP VTA D++ D++VLNPD IC + + ME+ V G GYV A +++++ Sbjct: 61 LDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++IL Sbjct: 121 MPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILV 180 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 + +F + + K + + + L +EEL+LSVRS NCL+ I + +L Sbjct: 181 EHFKVFESADADTKFSEVMVEKEDDKKEKKLEMTIEELDLSVRSYNCLKRAGINTLQELT 240 Query: 286 QRT 288 T Sbjct: 241 DMT 243 >gi|73747870|gb|AAZ82836.1| RNA polymerase subunit a [Elymus mutabilis] Length = 339 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 158/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICIKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNG-IEKH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|1771084|emb|CAB01369.1| alpha subunit of RNA polymerase [Hordeum vulgare subsp. spontaneum] Length = 339 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E ++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVETVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDXF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|156598719|gb|ABU85614.1| RNA polymerase alpha subunit [Scaevola aemula] Length = 332 Score = 258 bits (659), Expect = 1e-66, Method: Composition-based stats. Identities = 84/333 (25%), Positives = 161/333 (48%), Gaps = 26/333 (7%) Query: 10 IKPNNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 + P + + + +N I PL +G A T+G ALRR L++ + G AIT + Sbjct: 8 VSPRGLHWRCVESRADNKRRLYGRFILSPLMKGQADTIGIALRRALLAEIEGTAITRAKF 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 + V HE S+I+G+ E + +I++N+K I L+ + +I +GPG VTA DI + + Sbjct: 68 EKVPHEYSTIRGIQESVHEILMNLKEIVLRSNLYGTCEASICVKGPGYVTAQDIISPPYV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E+++ I +L + + L + K + + ++ G I A+ P++ ++Y Sbjct: 128 EIVDNTQHIASLTEPIELIIRLQIEKNRFIQLKERNTFQD---GSYAIGAVLMPVRHMNY 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED- 244 ++ S+ G+ + L + I T+GS+T ++++ A R L D F++ EE E +D Sbjct: 185 SIHSSGNGK---QEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEGNLENNQDR 241 Query: 245 ------------INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +K +++ EL NCL+ NI + DL+ ++ D+ Sbjct: 242 IPFPSFTFYDKLSKLKKNKKMALKSIFIDQSELPPSIYNCLKRSNIYTLFDLLNNSQEDL 301 Query: 293 LRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 ++ A+ + ++K +LG + ++LP P Sbjct: 302 MKKAHL---HIEDVKRILGLLEKNCVIDLPKNP 331 >gi|169788419|emb|CAP58131.1| RNA polymerase [Lactobacillus rossiae] gi|169788421|emb|CAP58132.1| RNA polymerase [Lactobacillus rossiae] gi|169788423|emb|CAP58133.1| RNA polymerase [Lactobacillus rossiae] gi|169788425|emb|CAP58134.1| RNA polymerase [Lactobacillus rossiae] gi|169788427|emb|CAP58135.1| RNA polymerase [Lactobacillus rossiae] gi|169788429|emb|CAP58136.1| RNA polymerase [Lactobacillus rossiae] gi|169788431|emb|CAP58137.1| RNA polymerase [Lactobacillus rossiae] gi|169788433|emb|CAP58138.1| RNA polymerase [Lactobacillus rossiae] gi|169788435|emb|CAP58139.1| RNA polymerase [Lactobacillus rossiae] gi|169788437|emb|CAP58140.1| RNA polymerase [Lactobacillus rossiae] gi|169788439|emb|CAP58141.1| RNA polymerase [Lactobacillus rossiae] gi|169788441|emb|CAP58142.1| RNA polymerase [Lactobacillus rossiae] gi|169788443|emb|CAP58143.1| RNA polymerase [Lactobacillus rossiae] gi|169788445|emb|CAP58144.1| RNA polymerase [Lactobacillus rossiae] gi|169788449|emb|CAP58146.1| RNA polymerase [Lactobacillus rossiae] gi|169788451|emb|CAP58147.1| RNA polymerase [Lactobacillus rossiae] gi|169788453|emb|CAP58148.1| RNA polymerase [Lactobacillus rossiae] Length = 235 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 114/235 (48%), Positives = 164/235 (69%), Gaps = 2/235 (0%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K ++LKM Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNMKKVSLKM 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + D K + I +GP VTAGDIQT D+EV+NPD IC + A M LT +KG GYV Sbjct: 61 ATDEEKGMDIDVKGPATVTAGDIQTDADVEVMNPDLYICTVADGATFHMHLTANKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT Sbjct: 121 SADENKARQDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 ++++LA++IL + L MF++ + K + + + L +EEL+LSVRS Sbjct: 181 EAISLAAKILTEHLAMFVDLTDTAKNAEIMVEKEETHKEKMLEMTIEELDLSVRS 235 >gi|228017724|gb|ACP52536.1| RNA polymerase alpha subunit [Pinus pinaster] Length = 335 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 81/317 (25%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I + + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVFRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++LEL ++ N LR NI + DL+ + D++R+ FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIERFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|158512705|sp|A0ZZ67|RPOA_GOSBA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha Length = 330 Score = 257 bits (658), Expect = 1e-66, Method: Composition-based stats. Identities = 77/319 (24%), Positives = 149/319 (46%), Gaps = 25/319 (7%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + I PL +G A T+G A+RR L+ L G IT + + + HE Sbjct: 16 QWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHE 75 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E+++ Sbjct: 76 YSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNT 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 136 QHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAVFMPVRNANHSIHCYG 192 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + L + I T+GS+T ++++ ASR L D F++ +E ++ + + +L Sbjct: 193 NDNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIHFLHAKEENLHLENNQHDVTLH 251 Query: 252 FNPALL-----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 F +++ EL R NCL+ NI + DL+ + D+++ Sbjct: 252 FFFPFHYRLVKLTKKKKEIALKYIFIDQSELPPRIYNCLKKSNIHTLLDLLNNSREDLMK 311 Query: 295 MANFGRKSLVEIKGVLGTM 313 M +F + + +I G+L Sbjct: 312 MEHFRIEDVKQILGILEKK 330 >gi|71056876|emb|CAH58993.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 235 Score = 257 bits (657), Expect = 1e-66, Method: Composition-based stats. Identities = 105/235 (44%), Positives = 154/235 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ K + I GP VTAGDI +D+E+LN D +C + A LT Sbjct: 61 IKGLALKLYAQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLYLCTVSEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGNRQDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 GSI +++++L+++IL + L +F+N + K + + + L +EEL Sbjct: 181 GSIIPQEALSLSAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEEL 235 >gi|324986527|ref|YP_004276397.1| RNA polymerase alpha subunit [Pinus nelsonii] gi|323522715|gb|ADX94963.1| RNA polymerase alpha subunit [Pinus nelsonii] Length = 335 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 80/317 (25%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIKES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGNGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|41688708|sp|Q8MAI8|RPOA_ELYHY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22657284|gb|AAM97445.1| RNA polymerase alpha subunit [Elymus hystrix] Length = 339 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAESMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|51859679|gb|AAU11119.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 89/319 (27%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGXVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDMAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLRIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|300431286|gb|ADK12608.1| RNA polymerase alpha subunit [Nassella novarae] Length = 339 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGXXFEENKNRFTPPLFTFQKK 256 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++ + +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTILDLLSKTEEDLMXIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPIDL 332 >gi|139390380|ref|YP_001122978.1| RNA polymerase alpha subunit [Aethionema cordifolium] gi|158513605|sp|A4QJE7|RPOA_AETCO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286173|dbj|BAF49802.1| RNA polymerase alpha subunit [Aethionema cordifolium] Length = 333 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 76/324 (23%), Positives = 155/324 (47%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEMEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N++ I L+ + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLQEIVLRSNLYGTCNALICVQGPGSITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ G IDAL+ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLQIERNRGYSLKMPNHFED---GSYPIDALFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+G++T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGTGNE-KQEILFLEIWTNGNLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHKV 246 Query: 249 SLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVKLRKKKKELVFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 +++ +F + ++K +L + Sbjct: 307 IKIEHF---HIEDVKKILEILEKN 327 >gi|257429027|ref|ZP_05605414.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus 68-397] gi|257279508|gb|EEV10095.1| DNA-directed RNA polymerase subunit alpha [Staphylococcus aureus subsp. aureus 68-397] Length = 253 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 98/248 (39%), Positives = 159/248 (64%), Gaps = 2/248 (0%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE I + ++ + + EPL RG+ TLGN+LRR+L+SSL GAA+ ++I+G Sbjct: 3 EIEKPR-IETIEISEDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVKYIEIEG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S++ V ED++ II+NIK + LK+ + K + I R G VTA DI +D+E+ Sbjct: 61 VLHEFSAVDNVVEDVSTIIMNIKQLALKIYSEEDKTLEIDVRDEGEVTASDITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 LNP+ I + +++ L +KG GY A+ + T + PIG+I +D+LYSP+++V+YTV Sbjct: 121 LNPELKIATVSKGGHLKIRLVANKGRGYALAEQNNTSDLPIGVIPVDSLYSPVERVNYTV 180 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ R GQ D+DKL++ + T+GSIT ++SV+LA++I+ + L +F+ + + + I Sbjct: 181 ENTRVGQSSDFDKLTLDVWTNGSITPQESVSLAAKIMTEHLNIFVGLTDEAQNAEIMIEK 240 Query: 248 KSLPFNPA 255 + Sbjct: 241 EEDQKEKV 248 >gi|51859681|gb|AAU11120.1| RNA polymerase alpha subunit [Psathyrostachys lanuginosa] Length = 339 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 154/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ ++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMXVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKR 256 Query: 259 KVE----------------ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIXQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|118475267|ref|YP_891269.1| DNA-directed RNA polymerase subunit alpha [Campylobacter fetus subsp. fetus 82-40] gi|158512499|sp|A0RM36|RPOA_CAMFF RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|118414493|gb|ABK82913.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter fetus subsp. fetus 82-40] Length = 332 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 110/329 (33%), Positives = 176/329 (53%), Gaps = 10/329 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P IE + + EN +IA P G+A TL + LRR+L +S G A TAV+IDGV H Sbjct: 10 MPTEIEVVNV---SENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPTAVKIDGVAH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+T I+N+K + K+ D + + +GP +T D+ +E++N Sbjct: 67 EFDSMRGMLEDVTLFIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLNNDI-VEIVN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + ++ DA ++ L V KG GYVP++ R D I +DA ++P+KK Y +E+ Sbjct: 126 PDSYLATINEDAELKFSLIVEKGIGYVPSEEIRDYIDS-EYIALDAFFTPVKKAVYEIEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 DY+K+ +T+ TDG ++ ++ + + Q+ +F N + + S Sbjct: 185 VLVEDNPDYEKIVLTVTTDGQVSPIEAFKHSIEAMYKQMSIFNNVLNIDVNMALTSSQNS 244 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + LL+ VE L LS RS NCL +I Y+G+L E+++ + N G+KSL EIK V Sbjct: 245 NEHSK-LLESVENLNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGKKSLDEIKAV 303 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 + +G G + +S E L KK + Sbjct: 304 MAEIGYPFG---ENTLGDSKEALRKKISE 329 >gi|71056800|emb|CAH58955.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 233 Score = 257 bits (657), Expect = 2e-66, Method: Composition-based stats. Identities = 107/233 (45%), Positives = 154/233 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 KGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 SI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 233 >gi|300431268|gb|ADK12599.1| RNA polymerase alpha subunit [Poa holciformis] Length = 341 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 91/321 (28%), Positives = 154/321 (47%), Gaps = 25/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIGGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI IE+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSIEIVDTSQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLLTFQKR 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSFRM 316 Query: 301 KSLVEIKGVLGTMGLFLGMNL 321 + +I L L ++L Sbjct: 317 EDRKQIWDTLENY---LPIDL 334 >gi|139389296|ref|YP_001123062.1| RNA polymerase alpha subunit [Aethionema grandiflorum] gi|158513623|sp|A4QJN1|RPOA_AETGR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286258|dbj|BAF49886.1| RNA polymerase alpha subunit [Aethionema grandiflorum] Length = 333 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 76/320 (23%), Positives = 155/320 (48%), Gaps = 24/320 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEMEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N++ I L+ + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLQEIVLRSNLYGTCNALICVQGPGYITARDIILPPSVEIM 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ G IDAL+ P++ ++++ Sbjct: 131 DNTQHIATLTEPIDLCIGLQIERNRGYSLKMPNPFED---GSYPIDALFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + + L + I T+G++T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGTGNE-NQEILFLEIWTNGNLTPKEALHEASRNLINLFIPFLHVEEETFYLENNEDKV 246 Query: 249 SLPFNPALLKK----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVKLRKKKKELVFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGT 312 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEK 326 >gi|313292080|gb|ADR51229.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 241 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 108/236 (45%), Positives = 155/236 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED Sbjct: 6 DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A Sbjct: 66 VTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL Sbjct: 126 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +M I TDGSI ++++L+++I+ + L +F+N + K + + + L Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 >gi|28202204|ref|NP_777445.1| RNA polymerase alpha subunit [Anthoceros formosae] gi|41688674|sp|Q85A01|RPOA_ANTFO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|27807906|dbj|BAC55381.1| RNA polymerase alpha subunit [Anthoceros formosae] gi|27808054|dbj|BAC55478.1| RNA polymerase alpha subunit [Anthoceros formosae] Length = 340 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 78/320 (24%), Positives = 154/320 (48%), Gaps = 22/320 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + PL G A+T+G A+RR L+ + G IT V+ + V HE S+I G+ Sbjct: 21 KIDSERLHYGRFAISPLRPGQANTVGIAIRRALLGEIEGTCITYVKFEKVTHEYSTIMGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I LK + + +I GP VTA DI + +EV++ I + Sbjct: 81 QESVHDILINLKEIVLKSNSYKTQEASISILGPKRVTAEDIVLPSSVEVIDATQHIATIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + K GY + E+ G ++A ++PI+ +Y+V S + Sbjct: 141 KAVYFNIKLGIRKDRGYRIENPVKYED---GNFAVNAAFTPIRNANYSVHSFENEKE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + + T+GS+T ++++ AS+ L + ++ ++ ++ K + + Sbjct: 197 EILFIEVWTNGSLTPKEALREASQSLINLFIPLLHEKKERENRKLENKDEYNVLRSCFSL 256 Query: 258 --------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +++LEL R+ N L+ ++ + DL+ ++ D++++ NFG+KS+ Sbjct: 257 TNIGEVRKEISFKHIFIDQLELPARAYNGLKKVDVHTISDLLNYSQEDLMKIKNFGKKSI 316 Query: 304 VEIKGVLGTMGLFLGMNLPD 323 ++ L ++LP Sbjct: 317 QQVVEAL---QKHFAIHLPK 333 >gi|289524822|emb|CBJ94467.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 5.9] Length = 265 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 115/268 (42%), Positives = 176/268 (65%), Gaps = 8/268 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++L+ N G+KSL EIK VL + GL L Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASRGLSL 265 >gi|197131698|gb|ACH47367.1| RNA polymerase alpha subunit [Sarcocaulon vanderietiae] Length = 333 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 81/323 (25%), Positives = 156/323 (48%), Gaps = 14/323 (4%) Query: 1 MIQKNWQ-ELIKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 MI++ + P + I PL +G A +G A+RR L+ + G Sbjct: 1 MIREKVRVSTQTPRWKCVESRADDKRLYYGRFILSPLKKGQADIIGIAMRRALLVEIEGT 60 Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 IT + + HE +++ G+ E + +I++N+K I L+ + + +I RGP VTA D Sbjct: 61 CITHAKFAKIPHEYTTMAGIKESIYEILMNLKEIVLRSNLYGTRDASICVRGPRDVTAQD 120 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE---NDPIGLITIDA 175 I +++ I L +EL + +G GY T +D I IDA Sbjct: 121 IILPPSTAIVDNTQHIVTLTEPIDFCVELKIERGRGYSIKIPMPTNPFHHDSGYPIPIDA 180 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++ P++ V++++ S + G + L + I T+GS+T ++++ ASR L + F++ E Sbjct: 181 VFMPVRNVNHSIYSYKRGSR---EILFLEIWTNGSLTPKEALREASRKLINLFIPFLHAE 237 Query: 236 EPK---KEVKEDINVKSLPFNPALLKKV---EELELSVRSTNCLRGENIVYMGDLIQRTE 289 E E ++ + + LP + LK++ + +EL R NCL+ I + DL+ ++ Sbjct: 238 EENFYLLENNQNQHTEELPIDSCGLKEIYIDQLVELPPRFYNCLKRSGIHTVMDLLDKSR 297 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 D++++ +F ++ + + +L Sbjct: 298 DDLMKITHFRQEDVERVMNILNN 320 >gi|86438804|emb|CAJ43367.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] gi|119662307|emb|CAJ33141.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 217 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 97/217 (44%), Positives = 141/217 (64%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 61 KKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 121 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 SI D+++ A++IL + +F + + K + + Sbjct: 181 SIKPNDALSFAAKILVEHFKVFESADADTKFSEVMVE 217 >gi|71056886|emb|CAH58999.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 231 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 105/230 (45%), Positives = 150/230 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LKM G+ K + I GP VTAGDI +D+E+LN D IC + LT Sbjct: 61 IKGLALKMYGEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGTTFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VRPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 GSI D+++LA++I+ + L +F+N + K + + + L Sbjct: 181 GSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 230 >gi|71056912|emb|CAH59015.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 235 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 108/235 (45%), Positives = 156/235 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 SI +++++LA++IL + L +F+N + K + + + L +EEL+ Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEELD 235 >gi|162955838|gb|ABY25294.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF28] gi|167077375|gb|ABZ10909.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF2] Length = 256 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 114/259 (44%), Positives = 172/259 (66%), Gaps = 8/259 (3%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+ Sbjct: 1 HAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEIL 60 Query: 87 LNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVR 144 LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A V Sbjct: 61 LNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDGNAEVA 120 Query: 145 MELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Q D DKL Sbjct: 121 MRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRTDLDKL 180 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P LL+ V+ Sbjct: 181 VIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVD 237 Query: 262 ELELSVRSTNCLRGENIVY 280 +LEL+VRS NCL+ E I Y Sbjct: 238 DLELTVRSANCLKAEAIHY 256 >gi|71056880|emb|CAH58996.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 235 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 108/235 (45%), Positives = 155/235 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 GSI +++++LA++IL + L +F+N + K + + + L +EEL Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEEL 235 >gi|165910443|gb|ABY73976.1| RNA polymerase alpha subunit [Cuscuta epilinum] Length = 330 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 81/319 (25%), Positives = 148/319 (46%), Gaps = 25/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + I PL +G A T+G A+RR L+ + G IT V+ + HE S+I G+ Sbjct: 21 RIDSKRLSYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRVKSEKASHEYSTIGGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I +GP VTA DI +++++ I L Sbjct: 81 QESVHEILMNLKEIVLRSNLYGTCDASICIKGPRHVTAQDIILPPHVQIVDNTQHIAWLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + + GY ++ G+ IDAL+ P++ ++++ S + Sbjct: 141 EPIDFFIGLKIERNRGYFNKVDLHFDD---GIYPIDALFMPVQNANHSIHSYGNEK---Q 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ A+RIL D F + EE + + + L K Sbjct: 195 EILFLEIWTNGSLTPKEALHEAARILIDFFIPFFHMEEENLYLADAEHTIPLSSLIFYNK 254 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LE + NCL NI + DL E D+L++ +F Sbjct: 255 VTKLIKKKKKLSLKLIFIDQLEFPPKIYNCLTKSNIFTLFDLFNHKEEDLLKIEHF---Q 311 Query: 303 LVEIKGVLGTMGLFLGMNL 321 L +IK +LG + + + L Sbjct: 312 LEDIKKILGILAKYFALYL 330 >gi|139389674|ref|YP_001123231.1| RNA polymerase alpha subunit [Arabis hirsuta] gi|158513635|sp|A4QK50|RPOA_ARAHI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|134286429|dbj|BAF50055.1| RNA polymerase alpha subunit [Arabis hirsuta] Length = 337 Score = 257 bits (656), Expect = 2e-66, Method: Composition-based stats. Identities = 75/321 (23%), Positives = 153/321 (47%), Gaps = 24/321 (7%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 11 RTLQWRCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I L+ + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLRSNLYGARNAIICVQGPGYITARDIILPPSVEII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTESIDLCIGLKIERNRGYSLKILNTFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNG-KQEILFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHHV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P + +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPLFPFHNRLVNLRKKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTM 313 +++ +F + + +I +L Sbjct: 307 IKIEHFHIEDVKKILDILEKK 327 >gi|7388087|sp|P92220|RPOA_BROIN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1769950|emb|CAB01354.1| alpha subunit of RNA polymerase [Bromus inermis] Length = 339 Score = 256 bits (655), Expect = 2e-66, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 156/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G I + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCIARAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFKKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|71056890|emb|CAH59001.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 235 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 105/232 (45%), Positives = 152/232 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 + I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ II Sbjct: 3 YGMFIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQII 62 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R Sbjct: 63 LNIKGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRAR 122 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L V G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I Sbjct: 123 LKVKAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIW 182 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 TDGSI D+++LA++IL + L +F+N + + + + + L Sbjct: 183 TDGSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKMLEM 234 >gi|13518470|ref|NP_084829.1| RNA polymerase alpha subunit [Lotus japonicus] gi|22654080|sp|Q9BBQ4|RPOA_LOTJA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|13359011|dbj|BAB33228.1| RNA polymerase alpha subunit [Lotus japonicus] Length = 333 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 77/317 (24%), Positives = 153/317 (48%), Gaps = 23/317 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAMRRILLGEMEGTCITRAKSEKISHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I LK + + +I +GPG VTA +I + +++ I N+ Sbjct: 81 QEPVHEILMNLKEIVLKSNLYGIRDASICFKGPGYVTAQNIILPPSVVIVDNTQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY + +N G IDA++ P++ ++++ S G Sbjct: 141 EPIQLCIGLQIERDRGYRI---NTLKNFQDGSYNIDAIFMPVRNANHSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE K + + + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEEKLNFENNEHKVTLPLFTCHDL 256 Query: 259 K------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL + NCL+ NI + +L+ +++ D++++ +F Sbjct: 257 LAKTKLKKKKKEIAFKSIFIDQLELPPKIYNCLKKSNIHTLLELLTKSKEDLMKIEHFRV 316 Query: 301 KSLVEIKGVLGTMGLFL 317 + + I +L + Sbjct: 317 EDVKHILDIL-EIEKHF 332 >gi|71833746|emb|CAH59013.1| DNA-directed RNA polymerase alpha chain [Enterococcus canintestini] Length = 233 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 108/233 (46%), Positives = 153/233 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT++QIDGVLHE S++KGV ED+ IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDGVLHEFSTVKGVREDVAQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 KGLALKMYTQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG+I +D++Y+P+ +V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 RPGRGYVQADENKREDMPIGVIPVDSIYTPVNRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 SI ++++LA++I+ + L +F+N + K + I + L +EE Sbjct: 181 SIMPMEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMIEKEETQKEKMLEMTIEE 233 >gi|315320586|ref|YP_004072643.1| DNA-directed RNA polymerase subunit alpha [Thalassiosira oceanica CCMP1005] gi|283569059|gb|ADB27596.1| DNA-directed RNA polymerase subunit alpha [Thalassiosira oceanica CCMP1005] Length = 332 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 97/302 (32%), Positives = 153/302 (50%), Gaps = 6/302 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + L G T GN LRRVL+ L G AIT V+I GV E S I GV ED Sbjct: 34 DSGAMYGQFLIDSLNSGQGITNGNLLRRVLLGDLEGIAITGVRIAGVKDEFSLIPGVRED 93 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + +I+LN+KG+ LK + + + + +GP V+TA IQ +IE +NP+H I + Sbjct: 94 ILEILLNLKGVILKSNIVTRQFGRLRIQGPAVITASSIQLPPEIETINPNHYIATISTSD 153 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 +V +E + G Y A ++ I DA++ P++KV + VE+ + ++L Sbjct: 154 IVEIEFKIESGRQYRLANELFSDKFE-DFIETDAIFMPVQKVDFKVENVYDNSNNIKERL 212 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED--INVKSLPFNPALLKK 259 + + T+GSI +D++ AS + + KE+ + P +P + Sbjct: 213 FLDVWTNGSIAPQDAIISASNSIIAFFQSISEQKVKNALEKENIIEKNQVKPIDPYIHIA 272 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL+LSVR NCL+ I +GDL++ + +L + NFGRKS E+ L LG+ Sbjct: 273 IEELQLSVRPYNCLKRARINTIGDLLEYSPEKLLELKNFGRKSADEVFATLKNK---LGI 329 Query: 320 NL 321 L Sbjct: 330 VL 331 >gi|228016715|gb|ACP51543.1| RNA polymerase alpha subunit [Pinus aristata] Length = 335 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 80/317 (25%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLRKL---FAIDPP 333 >gi|7388089|sp|P92389|RPOA_HETPI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770352|emb|CAB01327.1| alpha subunit of RNA polymerase [Heteranthelium piliferum] Length = 339 Score = 256 bits (655), Expect = 3e-66, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 157/319 (49%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFWSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPKYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTEL---IKNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTXNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|76563869|gb|ABA46366.1| RNA polymerase alpha subunit [Photobacterium halotolerans] Length = 252 Score = 256 bits (654), Expect = 3e-66, Method: Composition-based stats. Identities = 110/253 (43%), Positives = 168/253 (66%), Gaps = 7/253 (2%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+K Sbjct: 3 TLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNLK 62 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTV 149 G+ +K+ G +++ K G G V AGDI D+E+ NP+HVIC+L D A + M + V Sbjct: 63 GLAVKVEGKDEVILSLSKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIKV 122 Query: 150 SKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +G GYVPA H + PIG + +DA +SP+ +++Y+VE+AR Q D DKL + ++ Sbjct: 123 ERGRGYVPASARIHSDEDERPIGRLLVDATFSPVDRIAYSVEAARVEQRTDLDKLVIDME 182 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+ Sbjct: 183 TNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELT 239 Query: 267 VRSTNCLRGENIV 279 VRS NCL+ E I Sbjct: 240 VRSANCLKAEAIH 252 >gi|119662309|emb|CAJ33142.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 232 Score = 256 bits (654), Expect = 3e-66, Method: Composition-based stats. Identities = 104/232 (44%), Positives = 152/232 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G A++ +QIDGVLHE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSIPGTALSYIQIDGVLHEFSTVPGVREDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K I GP +VTA D++ +DIEVLNPD IC++ + M + + Sbjct: 61 KKLELKSLSDEEKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAI 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYVPA ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDG Sbjct: 121 KNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 SIT D+++ A++IL + +F++ + + + + L +E Sbjct: 181 SITPNDALSFAAKILVEHFKVFMSTDMDAQFDDVMVEKEDDKNEKKLEMTIE 232 >gi|324986455|ref|YP_004276326.1| RNA polymerase alpha subunit [Pinus monophylla] gi|228016086|gb|ACP50924.1| RNA polymerase alpha subunit [Pinus rzedowskii] gi|323522550|gb|ADX94892.1| RNA polymerase alpha subunit [Pinus monophylla] Length = 335 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 80/317 (25%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++R+ + G++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPQTYNSLRRANIHTLLDLLNYSREDLMRIEHLGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|71056840|emb|CAH58975.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 235 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 105/234 (44%), Positives = 153/234 (65%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTD 84 ++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T Sbjct: 1 KDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQ 60 Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 61 IILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFH 120 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M Sbjct: 121 ARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTME 180 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 I TDGSI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 IWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 234 >gi|328813941|gb|AEB52086.1| DNA-directed RNA polymerase alpha chain [Lactobacillus brevis] Length = 248 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 109/248 (43%), Positives = 163/248 (65%), Gaps = 4/248 (1%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRV 104 LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I LK++G D + + Sbjct: 1 LRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKIALKLNGSDDQEETM 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHR 162 I +GP +TAGDI D+++LNPD I + A M +T KG GYV A R Sbjct: 61 EINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRMTADKGRGYVSADENKTR 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI +++ALA++ Sbjct: 121 NTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSEAIALAAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG 282 IL + L MF++ + K + + + L +EEL+LSVRS NCL+ I + Sbjct: 181 ILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRAGINTVQ 240 Query: 283 DLIQRTEA 290 +L +TEA Sbjct: 241 ELNNKTEA 248 >gi|289066858|ref|YP_003434376.1| RNA polymerase alpha subunit [Vigna radiata] gi|259020045|gb|ACV90243.1| RNA polymerase alpha subunit [Vigna radiata] Length = 333 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 80/311 (25%), Positives = 151/311 (48%), Gaps = 22/311 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ Sbjct: 21 RIESKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I +N+K I LK + + +I +GPG +TA DI +E+++ I N+ Sbjct: 81 EESVHEIFMNLKEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY +++ IDA + P++ V+Y++ S G Sbjct: 141 EPVNFCIELKIERNRGYRIKTLKNFQDESYD---IDARFMPVRNVNYSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + I T+GS+T ++++ AS+ L D F++ EE ++++ + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKNKDKVTLPLFTFHDI 256 Query: 258 -----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ NI + +L+ ++ D+L++ +F Sbjct: 257 LVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEDLLKIEHFRV 316 Query: 301 KSLVEIKGVLG 311 + I +L Sbjct: 317 EDGKSILDILK 327 >gi|153012181|ref|YP_001381697.1| RNA polymerase alpha subunit [Medicago truncatula] Length = 333 Score = 256 bits (654), Expect = 4e-66, Method: Composition-based stats. Identities = 80/316 (25%), Positives = 157/316 (49%), Gaps = 25/316 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTIGIAMRRILLGEIEGTCITRAKSEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I LK + + +I +GPG VTA DI +E+++ I NL Sbjct: 81 QESIHEILMNLKEIVLKSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + ++ IDA++ P++ ++++ S G Sbjct: 141 EPINLCIELQIERKRGYRIKTLNNIQDGSYT---IDAVFMPVRNANHSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE + + + +LP + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKVTLPLFTFHDR 256 Query: 259 ------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LELS R NCL+ NI + +L+ +++ D++++ +F Sbjct: 257 LLKDKLRKNKKEIALKSIFIDQLELSPRIYNCLKKSNIHTLLELLNKSQEDLMKIEHF-- 314 Query: 301 KSLVEIKGVLGTMGLF 316 + ++K +L + + Sbjct: 315 -RVEDVKNILNILQIE 329 >gi|158564066|sp|Q06RA0|RPOA_JASNU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha Length = 355 Score = 256 bits (653), Expect = 4e-66, Method: Composition-based stats. Identities = 80/335 (23%), Positives = 153/335 (45%), Gaps = 31/335 (9%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + E+ I PL +G A T+ +RR L+ + G IT V+ V Sbjct: 11 RTLQWKCVESREDSKRLYYGRFILSPLRKGQADTIAIGIRRALLGEIEGTCITRVKSKNV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 PHEYSTIAGIQESVHEILMNFKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGY---LMKMPHNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ A R L D F++ EE ++++ + Sbjct: 188 SYGSGNE-KHEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEETSPLEDNHHTV 246 Query: 249 SLPFNPALLK--------------------KVEELELSVRSTNCLRGENIVYMGDLIQRT 288 L K +++ EL + NCL+G N+ + DL+ ++ Sbjct: 247 PLSPLTFHDKADKLRKRKKEIKKKIALKSIFIDQSEL-PKVYNCLKGSNLYTLLDLLNKS 305 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + D+++M + + + I +L + LP+ Sbjct: 306 QEDLMKMEHLRLEDVNHILVILAR--KHFAIYLPN 338 >gi|71056826|emb|CAH58968.1| DNA-directed RNA polymerase alpha chain [Tetragenococcus solitarius] Length = 226 Score = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 100/225 (44%), Positives = 148/225 (65%) Query: 27 RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDII 86 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ II Sbjct: 2 YGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQII 61 Query: 87 LNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 LNIKG+ LK+ + K++ I GP +TAGDI +D+E+LN D IC + Sbjct: 62 LNIKGLALKLYSEEEKKLEIDITGPATITAGDIIVDSDVEILNKDMYICTVAEGTRFHAR 121 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 L+V G GY A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ DYDKL+M + Sbjct: 122 LSVQPGRGYDQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDYDKLTMELW 181 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 TDGSI D+++L+++IL + L +F+N + K + + + Sbjct: 182 TDGSIEPLDALSLSAKILTEHLEIFVNMTDEAKNTEIMVEKEETK 226 >gi|72534399|emb|CAH59014.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 227 Score = 256 bits (653), Expect = 5e-66, Method: Composition-based stats. Identities = 104/227 (45%), Positives = 150/227 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LKM GD K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 GSI ++++L+++I+ + L +F+N + K + + + Sbjct: 181 GSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 227 >gi|300431314|gb|ADK12620.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 319 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 90/319 (28%), Positives = 152/319 (47%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A +G ALRR L+ + G IT + V HE S+I G+ Sbjct: 1 RVDSKRLYYGRFILSPLRKGQADPVGIALRRALLXEIEGTCITRAKFGSVPHEYSTIAGI 60 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+ + I NL Sbjct: 61 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIXDTAQPIANLT 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY N G IDA+ P++ V+Y++ S G Sbjct: 121 EPIDLCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNEKP- 176 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 177 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKK 236 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 237 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 293 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + + L +NL Sbjct: 294 MEDGKQIWDNLEKHLPINL 312 >gi|71056810|emb|CAH58960.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 230 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 107/229 (46%), Positives = 152/229 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A LTV Sbjct: 61 KGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI ++++LA++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|313292078|gb|ADR51228.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 241 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 107/236 (45%), Positives = 155/236 (65%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EE++ I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED Sbjct: 6 DEEKDYGKFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVRED 65 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 +T IILNIKG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A Sbjct: 66 VTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGA 125 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 LTV G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL Sbjct: 126 TFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKL 185 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +M I TDGSI ++++L+++I+ + L +F+N + K + + + L Sbjct: 186 TMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 241 >gi|257459220|ref|ZP_05624339.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter gracilis RM3268] gi|257443605|gb|EEV18729.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter gracilis RM3268] Length = 332 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 107/329 (32%), Positives = 169/329 (51%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P I + EN +IA P G+A TL + LRR+L +S G A TAV+I+GV H Sbjct: 1 MPTEI---KVENVSENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGFAPTAVKIEGVSH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+ I+N+KG+ K+ GDS + V +GP + D+ +E++N Sbjct: 58 EFDSMRGMLEDMAAFIINLKGLRFKIKGDSLREVVEYSFKGPKEIYGSDLNNDA-VEIVN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P + ++ DA ++ L + KG GYVP++ R EN I +DA ++P+ K Y +E+ Sbjct: 117 PSAYLATINEDADLKFTLIIEKGIGYVPSEEIR-ENLDADFIALDAFFTPVTKAVYDIEN 175 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 DY+K+ TI TDG I+ D+ A + QL +F + + Sbjct: 176 VFVEDNPDYEKVVFTITTDGQISAIDAFKNALEAMYQQLAVFKGIVNISAADTFGRAIPA 235 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L + V L LS RS NCL +I ++G+L E+++ + N G+KSL EIK V Sbjct: 236 NSEFAKLFESVSNLSLSARSFNCLDRADIRFIGELAIMEESELKDLKNLGKKSLEEIKAV 295 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 + +G +G E E+L +K ++ Sbjct: 296 MEEIGYPIGNQ---ELGEKKEQLKRKLDE 321 >gi|255321746|ref|ZP_05362901.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter showae RM3277] gi|255301226|gb|EET80488.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter showae RM3277] Length = 328 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 105/329 (31%), Positives = 170/329 (51%), Gaps = 11/329 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P I + EN + A P G+A TL + LRR+L SS G A T V+I+GV H Sbjct: 1 MPTEI---SVESISENVARITAYPFETGYAVTLAHPLRRLLYSSTVGFAATGVKIEGVSH 57 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+ I+N+K I K+ +S + V +GP + AGD+++ ++++N Sbjct: 58 EFDSMRGMLEDVAQFIINLKNIRFKLKNESEREVVEYSFKGPKEIKAGDLKSDV-VDIVN 116 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + ++ DA ++ + + KG GYVP++ R +N G I +DA ++P+KK Y + + Sbjct: 117 LDAYLATINEDAELKFSVIIQKGIGYVPSEEIR-DNTEEGYIALDAFFTPVKKAVYELVN 175 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 DY+K+ T+ TDG + ++ A + Q+ +F + Sbjct: 176 VLVEDNPDYEKIIFTVTTDGQVGAIEAFKHAIEAMYQQMSVFKGVLNIDVSAGLNAQTSG 235 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + LL+ VEEL LS RS NCL I ++G+L E ++ + N G+KSL EIK V Sbjct: 236 SE-HAKLLQSVEELNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGKKSLDEIKAV 294 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 + +G +G +L E+L KK D Sbjct: 295 MQEIGYPVGGDLGG----GKEQLKKKIAD 319 >gi|71056941|emb|CAH59029.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] gi|71056947|emb|CAH59033.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 230 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 104/229 (45%), Positives = 153/229 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A LTV Sbjct: 61 KGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI +++++LA++I+ + L +F+N + K + + + L Sbjct: 181 SIIPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|194033178|ref|YP_002000517.1| RNA polymerase alpha subunit [Brachypodium distachyon] gi|193075586|gb|ACF08669.1| RNA polymerase alpha subunit [Brachypodium distachyon] Length = 338 Score = 255 bits (652), Expect = 6e-66, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLIKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GP +TA DI +EV++ I NL Sbjct: 81 EESVQEILVNLKEIVLRSNLYGVRDASICVKGPRCITAQDIILPPSVEVVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIQLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTGFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ N L+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNRKKNKKGIPLNFIFIDQLELPSRTYNYLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDGKQIWDTLEKHLPVDL 332 >gi|139387483|ref|YP_001122838.1| RNA polymerase alpha subunit [Phaseolus vulgaris] gi|158513617|sp|A4GGD7|RPOA_PHAVU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|112031005|gb|ABH88117.1| RNA polymerase alpha subunit [Phaseolus vulgaris] gi|158187119|gb|ABW22752.1| RNA polymerase alpha subunit [Phaseolus vulgaris] Length = 333 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 81/311 (26%), Positives = 151/311 (48%), Gaps = 22/311 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITCVKSEKIPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I +N+K I LK + + +I +GPG +TA DI +E+++ I N+ Sbjct: 81 EESVHEIFMNLKEIVLKSNMYGIQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY +N G IDA + P++ V+Y++ S G Sbjct: 141 EPVHLCIELKIERNRGYRIKT---LKNFQDGSYDIDARFMPVRNVNYSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + I T+GS+T ++++ AS+ L + F++ EE ++++ + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASQNLIELFIPFLHAEEDNFHLEKNQHKVTLPLFTFHDI 256 Query: 258 -----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ NI + +L+ ++ D+L+ +F Sbjct: 257 LVKDKLRKNQKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLSNSQEDLLKFEHFHV 316 Query: 301 KSLVEIKGVLG 311 + I +L Sbjct: 317 EDGKSILDILK 327 >gi|57115498|gb|AAW33058.1| RNA polymerase alpha subunit [Plantago rugelii] Length = 308 Score = 255 bits (652), Expect = 7e-66, Method: Composition-based stats. Identities = 82/311 (26%), Positives = 151/311 (48%), Gaps = 25/311 (8%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL +G A T+G A+RR L+ ++G IT V+ + V HE S+I G+ Sbjct: 6 RTDSKRLHYGRFVLSPLMKGQADTIGIAMRRALLGEIQGTCITRVKSENVPHEYSTIAGI 65 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + +I RGPG VTA DI +E+ + I L Sbjct: 66 QESVPEILMNLKEIVLRSNLYGTCGASICARGPGYVTAQDIILPPCVEIGDNTQHIARLT 125 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + + GY+ H ++ IDA++ P++ V++++ S + Sbjct: 126 EPISFCIGLEIERSRGYLIKSPHIFQDRSY---PIDAVFMPVRNVNHSIHSYGNEK---Q 179 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + S K Sbjct: 180 EILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHKEEENLPLENNQDTVSFSPFSFHEK 239 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++ ELS R NCL+ NI + D + +++ D+++M +F Sbjct: 240 LDQFRKNKKKKALQSIFIDQFELSPRVYNCLKKSNIYTLFDFLTKSQEDLMKMEHF---R 296 Query: 303 LVEIKGVLGTM 313 L ++K LG + Sbjct: 297 LEDLKQTLGIL 307 >gi|71056802|emb|CAH58956.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 234 Score = 255 bits (651), Expect = 7e-66, Method: Composition-based stats. Identities = 108/234 (46%), Positives = 154/234 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LT Sbjct: 61 IKGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 GSI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 181 GSIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 234 >gi|319955882|ref|YP_004167145.1| DNA-directed RNA polymerase subunit alpha [Nitratifractor salsuginis DSM 16511] gi|319418286|gb|ADV45396.1| DNA-directed RNA polymerase subunit alpha [Nitratifractor salsuginis DSM 16511] Length = 332 Score = 255 bits (651), Expect = 8e-66, Method: Composition-based stats. Identities = 103/326 (31%), Positives = 167/326 (51%), Gaps = 7/326 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P + + + + R +IA P G+A TL + LRR+L+ S G A +V+I+G HE Sbjct: 8 PFLPSEVEINEISDTRAQVIAYPFESGYAVTLAHPLRRLLLGSSIGYAPISVKIEGAAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 SI+G+HED+ I+++K I K+ + V+ +GP V AGD+ +EV+NP Sbjct: 68 FDSIRGMHEDIAVFIIHLKNIRFKIKEGLDRAVVSYSFKGPREVVAGDLNND-QVEVVNP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + L+ D + L ++KG GYVP++ + E D I +DA ++P++K +Y +E+ Sbjct: 127 DQPLATLNEDGELTFTLEIAKGIGYVPSEDLQEEVD-GDAIALDAFFTPVRKANYAIENV 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 DY+K+ I+TDG I+ + A A + Q+ +F E + ++ Sbjct: 186 LVEDNPDYEKIVFEIETDGQISPVAAFANALETMHKQMSVFGEVMNLDLERSSGNSAENS 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P L V+ L L RS N L I Y+G+L+ +E ++ + N G+KSL EI+ VL Sbjct: 246 ELKPF-LVPVDALGLGARSFNSLDRAGIKYLGELVLMSENELKEIKNLGKKSLDEIQEVL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKY 336 G G + E+ L KK Sbjct: 305 AEHG--FGPDYE-MDEETRAALTKKI 327 >gi|7388101|sp|Q9XQN8|RPOA_SINAL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|5541932|emb|CAB51131.1| putative RNA polymerase alpha subunit (PEP) [Sinapis alba] Length = 327 Score = 255 bits (651), Expect = 8e-66, Method: Composition-based stats. Identities = 77/324 (23%), Positives = 153/324 (47%), Gaps = 27/324 (8%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + + I PL +G A T+G A+ R L+ + G IT + + + Sbjct: 11 RTLQWKCVESRRDSKRLYYGRFILSPLMKGQADTIGIAMARALLGEIEGTCITRAKSENI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 H+ S+I G+ E + +I++N+ I LK + + I +GPG +TA DI +E++ Sbjct: 71 PHDYSNIVGIQESVHEILMNLNEIVLKSNLYGTRNPFICVQGPGYITARDIILPPSVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + + L + + GY + E+ IDA++ P++ ++++ Sbjct: 131 DNTQHIATLTEPINLCIGLKIERNRGYSLKMSNNFEDRSY---PIDAVFMPVQNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G + L + I T+GS+T ++++ ASR L + F++ EE ++ + + Sbjct: 188 SYGNGNE-KQEILFIEIWTNGSLTPKEALYEASRNLINLFIPFLHVEEETFYLENNQHQV 246 Query: 249 SLPFNPALLK----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +LP P K +++LEL R NCL+ NI + DL+ ++ D+ Sbjct: 247 TLPVFPFHNKLVNLRQKKKELAFQYIFIDQLELPPRIYNCLKKSNIHTLLDLLNNSQEDL 306 Query: 293 LRMANFGRKSLVEIKGVLGTMGLF 316 ++M +F + ++K +L + Sbjct: 307 IKMEHF---HIEDVKKLLDILEKK 327 >gi|71056908|emb|CAH59011.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] gi|71056945|emb|CAH59032.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 226 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 106/226 (46%), Positives = 151/226 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM GD K + I GP VTAGDI +D+E+LN D ICN+ A LTV Sbjct: 61 KGLALKMYGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI ++++LA++I+ + L +F+N + K + + + Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 226 >gi|71056878|emb|CAH58995.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 231 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 105/230 (45%), Positives = 151/230 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 GSI +++++LA++IL + L +F+N + K + + + L Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 230 >gi|34558004|ref|NP_907819.1| DNA-directed RNA polymerase subunit alpha [Wolinella succinogenes DSM 1740] gi|41688621|sp|Q7M8F7|RPOA_WOLSU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|34483722|emb|CAE10719.1| RNA POLYMERASE ALPHA SUBUNIT [Wolinella succinogenes] Length = 331 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 99/327 (30%), Positives = 172/327 (52%), Gaps = 4/327 (1%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + + +N+ + A P G+A TL + LRR+L+ S G A TA++I+G HE Sbjct: 8 PYIPTDISIQEIGKNKIKISAYPFESGYAITLAHPLRRLLLGSSVGFAPTALKIEGAAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++G+ ED+ I+N+K I KM GD+ + + +GP + D+ ++V+ P Sbjct: 68 FDSVRGIMEDVALFIVNLKSIRFKMRGDAERVTLDYSFKGPATIKGSDLVND-YVDVVTP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + ++ DA + L V KG GYVP++ R P G I +DA ++P+KK +Y +E+ Sbjct: 127 NQHLATINEDATLTFSLIVQKGIGYVPSEETRNLI-PEGYIPLDAYFTPVKKATYEIENV 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 Y+K+ + I+TDG I + A ++Q Q+ +F + + + Sbjct: 186 LVEDNPTYEKIVLEIETDGLIEPIAAFKDALGVMQKQMSVFNSEWSVSSAESTSSDEEDP 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P LL+K+E L LS RS NCL + ++G+L+ E ++ + N G+KS EIK L Sbjct: 246 ELKP-LLQKIEALNLSARSFNCLDRAGMKFVGELVLLGENELKEVKNLGKKSFDEIKDKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYE 337 +G +G +L + ++++ K + Sbjct: 305 EEIGYPVGSDLAEEVSSALQKRLNKLK 331 >gi|71056917|emb|CAH59017.1| DNA-directed RNA polymerase alpha chain [Enterococcus columbae] Length = 234 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 107/234 (45%), Positives = 155/234 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QI+GVLHE S+IKGV ED+ IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIEGVLHEFSTIKGVREDVAQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +KG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC++ A R LT Sbjct: 61 VKGLALKLYGSEEKTLEIDITGPAVVTAGDILVDSDVEILNKDMYICSVSEGATFRARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ +DKL+M I TD Sbjct: 121 VKAGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDVFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 GSI D+++LA++I+ + L +F+N + K + + + L +EE Sbjct: 181 GSIEPLDAMSLAAKIMTEHLDIFVNLTDEAKHAEIMVEKEETQKEKMLEMTIEE 234 >gi|119662395|emb|CAJ33187.1| RNA polymerase alpha subunit [Lactobacillus aviarius subsp. aviarius] Length = 231 Score = 254 bits (650), Expect = 1e-65, Method: Composition-based stats. Identities = 100/231 (43%), Positives = 149/231 (64%), Gaps = 2/231 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVEGVMEDVTTIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LKM + + + I G V AGDI D+EVLNP+ IC + A + +T Sbjct: 61 KKVALKMDTEEPQILEIDVTGAKEVKAGDIHCGADVEVLNPELYICTVAEGASFHVRMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 NKGRGYVSATENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +GSIT ++++L+++IL + L +F+N + K + + + L Sbjct: 181 NGSITPSEAISLSAKILTEHLSIFVNLTDEAKNAEVMVEKEETHKEKMLEM 231 >gi|71056892|emb|CAH59003.1| DNA-directed RNA polymerase alpha chain [Enterococcus phoeniculicola] gi|72534418|emb|CAH59045.1| DNA-directed RNA polymerase alpha chain [Enterococcus phoeniculicola] Length = 230 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 106/229 (46%), Positives = 152/229 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 RPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI ++++LA++I+ + L +F+N + + + + + L Sbjct: 181 SIEPLEAMSLAAKIMTEHLDIFVNLTDEARNAEIMVEKEETQKEKMLEM 229 >gi|119662325|emb|CAJ33150.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 211 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 96/206 (46%), Positives = 140/206 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE +++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFATVPGVREDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + M++ V Sbjct: 61 KKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMQIAV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYVPA +++E+ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL++ I TDG Sbjct: 121 KNGRGYVPASDNKSEDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTLEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFE 235 SI D+++ A++IL + +F + + Sbjct: 181 SIKPNDALSFAAKILVEHFKVFESAD 206 >gi|197131686|gb|ACH47361.1| RNA polymerase alpha subunit [Erodium chrysanthum] Length = 329 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 77/297 (25%), Positives = 139/297 (46%), Gaps = 8/297 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + I PL +G A +G A+RR L+ + G IT Q + + HE ++ G+ E Sbjct: 23 DGKRLYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAQFEKIPHEYTTRVGIQE 82 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I++N+K I L+ S + +I RGP VTA DI + +++ I L Sbjct: 83 SVYEIVMNLKEIVLRSSLYGTRDASICVRGPRDVTAQDIILPPSVSIVDNTQHIVTLTEP 142 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + L + + GY + IDA++ P+K V++++ S G ++ Sbjct: 143 IEFCVALQIERNRGYSLRIPTPNNSHDERGYPIDAVFMPVKNVNHSIHSYENGS---HEM 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L I T+GS+T ++++ ASR L + F++ EE K + + N L + Sbjct: 200 LFFEIWTNGSLTPKEALREASRKLINLFIPFLHAEEEKPHFENNQNEPRDELLVDLCELK 259 Query: 261 EE-----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 E +ELS R N L+G I + DL+ + D+L++ +F ++ + + +L Sbjct: 260 EIYIDQLVELSPRLYNILKGSGIHTVMDLLDKNPDDLLKLRHFRQEDVERVMNILNN 316 >gi|317016851|gb|ADU85966.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 238 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 93/228 (40%), Positives = 141/228 (61%), Gaps = 2/228 (0%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T Sbjct: 1 DARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVT 60 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+K + L + D + + I +GP VTA D+Q D+EVLNPD I + + Sbjct: 61 QIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSL 120 Query: 144 RMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL Sbjct: 121 HMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKL 180 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 + I T+GSI D+++L ++IL + L +F++ E + + Sbjct: 181 TFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEAXVMVEAEP 228 >gi|328813983|gb|AEB52107.1| DNA-directed RNA polymerase alpha chain [Lactobacillus parabuchneri] Length = 244 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 115/244 (47%), Positives = 162/244 (66%), Gaps = 4/244 (1%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR L+SSL G+A+T++QID VLHE S+IKGV ED+T IILN+K Sbjct: 1 VVEPLERGYGTTLGNSLRRTLLSSLPGSAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVK 60 Query: 91 GINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT Sbjct: 61 KISLKLDGPEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLT 120 Query: 149 VSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + Sbjct: 121 ANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 TDGSIT ++V+LA++IL + L MF++ + K + + + L +EEL+LS Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTIEELDLS 240 Query: 267 VRST 270 VRS Sbjct: 241 VRSY 244 >gi|301633194|gb|ADK86748.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma pneumoniae FH] Length = 327 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 90/307 (29%), Positives = 160/307 (52%), Gaps = 13/307 (4%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 N + PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+T Sbjct: 19 NPNYGIFEVGPLESGFGITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDVT 78 Query: 84 DIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 +++LN K + +K+S + +T+ G V A D++ EV+N Sbjct: 79 EVVLNFKQLVVKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVNK 138 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + +L D V + + V +G G+V +R + +G+I D+ +SP+ Y V+ Sbjct: 139 DLYLFSLQTDKKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQEL 198 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + + D L+ I T+G+I+ D+ A+A++IL + L +N E K + Sbjct: 199 KTSKQKITDHLTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAEE 258 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI + Sbjct: 259 RRVRSFAKQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKKV 318 Query: 311 GTMGLFL 317 +GL L Sbjct: 319 HELGLKL 325 >gi|154173639|ref|YP_001409131.1| DNA-directed RNA polymerase subunit alpha [Campylobacter curvus 525.92] gi|171769258|sp|A7H0Y9|RPOA_CAMC5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|112802250|gb|EAT99594.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter curvus 525.92] Length = 338 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 107/338 (31%), Positives = 170/338 (50%), Gaps = 10/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K P IE + EN + A P G+A TL + LRR+L +S G A Sbjct: 1 MRKITTSAYMPTEIEVQSI---SENVAKITAYPFETGYAVTLAHPLRRLLYTSTVGFAPI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQ 120 V+I GV HE S++G+ ED+ I+N+K I K+ DS + V +GP +T D+ Sbjct: 58 GVKIKGVSHEFDSMRGMLEDVAFFIINLKKIRFKLKNDSEREVVEYSFKGPKEITGADLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA + + + KG GYVP++ R E + I +DA ++P+ Sbjct: 118 NDV-VEIVNPDAYLATINEDAELNFSVIIQKGIGYVPSEEIREEIE-DDYIALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK Y +E+ DY+K+ TI TDG + ++ + Q+ +F + Sbjct: 176 KKAVYELENVLVEDDPDYEKIVFTITTDGQVGPIEAFKHCLEAMYQQMSVFKGVLDIDVN 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + LL VEEL LS RS NCL I Y+G+L E ++ + N G+ Sbjct: 236 APMMSSSVGGE-HAKLLSSVEELNLSARSFNCLDKAEIRYIGELALMDENELKDLKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G ++ +S E+L KK + Sbjct: 295 KSLEEIKAVMEEIGYPVGSDV---LKDSKEQLRKKIAE 329 >gi|71056852|emb|CAH58981.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 232 Score = 254 bits (649), Expect = 1e-65, Method: Composition-based stats. Identities = 106/232 (45%), Positives = 153/232 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 SI +++++LA++IL + L +F+N + K + + + L +E Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 232 >gi|300431305|gb|ADK12617.1| RNA polymerase alpha subunit [Achnatherum inebrians] Length = 330 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 152/319 (47%), Gaps = 32/319 (10%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSLPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I+ +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASIWVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYR----------KH 187 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P K Sbjct: 188 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKK 247 Query: 259 K----------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 248 LTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 304 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 305 MEDGKQIWDTLEKHLPIDL 323 >gi|72534397|emb|CAH59002.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 231 Score = 254 bits (649), Expect = 2e-65, Method: Composition-based stats. Identities = 105/230 (45%), Positives = 151/230 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R L Sbjct: 61 IKGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRARLK 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 GSI D+++LA++IL + L +F+N + + + + + L Sbjct: 181 GSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKMLEM 230 >gi|71056882|emb|CAH58997.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 227 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 104/227 (45%), Positives = 150/227 (66%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 GSI +++++LA++IL + L +F+N + K + + + Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 227 >gi|119663520|emb|CAK22331.1| RNA polymerase alpha subunit [Lactobacillus hammesii] Length = 227 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 103/226 (45%), Positives = 154/226 (68%), Gaps = 4/226 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNV 60 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I LK++G D + + I +GP +TAGDI D++VLNPD I + A M + Sbjct: 61 KKIALKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDVLNPDLYIATVADGATFHMRM 120 Query: 148 TVSKGHGYVPAKHHRTEN--DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T KG GYV A H+ +N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + Sbjct: 121 TADKGRGYVSADEHKAQNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 T+GSI +++ALA++IL + L MF++ + K + + + Sbjct: 181 WTNGSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETH 226 >gi|108792409|emb|CAJ33153.1| RNA polymerase alpha subunit [Lactobacillus murinus] Length = 222 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 102/221 (46%), Positives = 150/221 (67%), Gaps = 2/221 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S++KGV ED+T IILN+K + Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVKGVLEDVTAIILNLKKV 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + + + GP VTAGDIQ +D+E+LNPD IC + AV +T +KG Sbjct: 61 ALKLDSEDSQTLEFDVVGPKEVTAGDIQGSSDVEILNPDQYICTVADGAVFHARMTANKG 120 Query: 153 HGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GYV A + E+ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GS Sbjct: 121 RGYVSATENKAKAEDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 IT ++++L+++IL + L +F++ + K + + + Sbjct: 181 ITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMVEKEETH 221 >gi|31544832|ref|NP_853410.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma gallisepticum str. R(low)] gi|31541678|gb|AAP56978.1| DNA-directed RNA polymerase subunit alpha (RpoA) [Mycoplasma gallisepticum str. R(low)] gi|284930906|gb|ADC30845.1| DNA-directed RNA polymerase subunit alpha (RpoA) [Mycoplasma gallisepticum str. R(high)] gi|284931662|gb|ADC31600.1| DNA-directed RNA polymerase subunit alpha (RpoA) [Mycoplasma gallisepticum str. F] Length = 340 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 171/309 (55%), Gaps = 15/309 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 ++ ++N I +PL +GF TLGNALRRV++S L G+++ A++I G+ HE I G Sbjct: 26 VIKEDNDKNYGKYIVKPLEKGFGITLGNALRRVMLSHLPGSSVFALKIKGISHEFGFIPG 85 Query: 78 VHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVND 124 V ED+T IILNIK + + +S + +TI G++ AGDI+ Sbjct: 86 VKEDVTQIILNIKNLVVWISDNMITDETLSETPIEKWPVMTIRANKAGIIKAGDIECPLG 145 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EV N D IC L DA V +++ ++G G+ A +R+E + +I ID+ ++PI KV Sbjct: 146 FEVFNKDLEICTLSEDAEVAIDIYATRGRGFKTAAENRSEIGSLSIIPIDSNFNPIIKVG 205 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE E + DKL + + T+G I D++A+AS+IL D L I+ + +++ Sbjct: 206 YHVEE--ETSDVITDKLIIEVGTNGLIKSGDAIAIASKILSDHLKPLIDINKSLHDIQVL 263 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 N L +E+L+L+VRS NCL+ I + +L+ R+++++ + N G+KS+ Sbjct: 264 NEKNVEEKNKKLSIPIEQLDLTVRSYNCLKRHGIQTVEELVTRSKSEIENIRNLGKKSVR 323 Query: 305 EIKGVLGTM 313 EI L + Sbjct: 324 EINKKLSEL 332 >gi|86438814|emb|CAJ43372.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 226 Score = 254 bits (648), Expect = 2e-65, Method: Composition-based stats. Identities = 97/216 (44%), Positives = 141/216 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 61 KKLELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDG Sbjct: 121 QNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 SI D+++ A++IL + +F + + K + + Sbjct: 181 SIKPNDALSFATKILVEHFKVFESADADTKFSEVMV 216 >gi|289524816|emb|CBJ94464.1| alpha subunit of RNA polymerase [Vibrio sp. Rd 14.3] gi|289524826|emb|CBJ94469.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 11.16] Length = 267 Score = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 115/270 (42%), Positives = 176/270 (65%), Gaps = 8/270 (2%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++L+ N G+KSL EIK V + GL L M Sbjct: 238 VELLKTPNLGKKSLTEIKDVHASRGLSLRM 267 >gi|12230607|sp|Q9RDV6|RPOA_MYCGA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|16924180|gb|AAF19039.2| DNA-directed RNA polymerase alpha chain [Mycoplasma gallisepticum] Length = 325 Score = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 105/309 (33%), Positives = 171/309 (55%), Gaps = 15/309 (4%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 ++ ++N I +PL +GF TLGNALRRV++S L G+++ A++I G+ HE I G Sbjct: 11 VIKEDNDKNYGKYIVKPLEKGFGITLGNALRRVMLSHLPGSSVFALKIKGISHEFGFIPG 70 Query: 78 VHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVND 124 V ED+T IILNIK + + +S + +TI G++ AGDI+ Sbjct: 71 VKEDVTQIILNIKNLVVWISDNMITDETLSETPIEKWPVMTIRANKAGIIKAGDIECPLG 130 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 EV N D IC L DA V +++ ++G G+ A +R+E + +I ID+ ++PI KV Sbjct: 131 FEVFNKDLEICTLSEDAEVAIDIYATRGRGFKTAAENRSEIGSLSIIPIDSNFNPIIKVG 190 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE E + DKL + + T+G I D++A+AS+IL D L I+ + +++ Sbjct: 191 YHVEE--ETSDVITDKLIIEVGTNGLIKSGDAIAIASKILSDHLKPLIDINKSLHDIQVL 248 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 N L +E+L+L+VRS NCL+ I + +L+ R+++++ + N G+KS+ Sbjct: 249 NEKNVEEKNKKLSIPIEQLDLTVRSYNCLKRHGIQTVEELVTRSKSEIENIRNLGKKSVR 308 Query: 305 EIKGVLGTM 313 EI L + Sbjct: 309 EINKKLSEL 317 >gi|228017530|gb|ACP52345.1| RNA polymerase alpha subunit [Pinus monticola] Length = 335 Score = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 78/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TFDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ + Sbjct: 260 TGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|71056870|emb|CAH58990.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 231 Score = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 105/231 (45%), Positives = 152/231 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 SI +++++LA++IL + L +F+N + K + + + L + Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTI 231 >gi|323148861|ref|YP_004221953.1| RNA polymerase alpha subunit [Erodium carvifolium] gi|316926325|gb|ADU58178.1| RNA polymerase alpha subunit [Erodium carvifolium] Length = 324 Score = 253 bits (647), Expect = 2e-65, Method: Composition-based stats. Identities = 75/306 (24%), Positives = 145/306 (47%), Gaps = 12/306 (3%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + I PL +G A +G A+RR L+ L G IT + + HE Sbjct: 14 QWKCVESRADGKRLYYGRFILSPLKKGQADIIGIAMRRALLGELEGTCITHAKFGKIPHE 73 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++I G+ E + +I++N+K I L+ + + +I RGP VTA DI + +++ Sbjct: 74 YTTIVGIQESVYEILMNLKEIVLRSNLYGTRGASICVRGPRDVTAQDIVLPPSVAIVDNT 133 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I L + L + + GY T + G IDA++ P+K V++++ S Sbjct: 134 QHIVTLTEPIDFCVGLQIERNRGYSIKIPTATNSHNDGGYPIDAVFMPVKNVNHSIHSYE 193 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G ++ L + I T+GS+T ++++ ASR L + F+N EE ++ + N + Sbjct: 194 NGS---HEMLFLEIWTNGSLTPKEALREASRKLINLFIPFLNAEEENSHLENNQNEHTEE 250 Query: 252 FNPALLKKVEE-----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + + +EL R N L+G I + DL+ + D++++ +F ++ + ++ Sbjct: 251 LSRDFCGLKDIYIDQLVELPPRLYNSLKGSGIHTVMDLLDKNPDDLMKITHFRQEDVEKV 310 Query: 307 KGVLGT 312 +L Sbjct: 311 MNILNN 316 >gi|71056868|emb|CAH58989.1| DNA-directed RNA polymerase alpha chain [Enterococcus pseudoavium] Length = 229 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 151/229 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNI Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 KGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI +++++LA++IL + L +F+N + K + + + L Sbjct: 181 SIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|309322228|ref|YP_003934306.1| RNA polymerase alpha subunit [Monsonia speciosa] gi|197131696|gb|ACH47366.1| RNA polymerase alpha subunit [Monsonia speciosa] gi|300069321|gb|ADJ66441.1| RNA polymerase alpha subunit [Monsonia speciosa] Length = 331 Score = 253 bits (647), Expect = 3e-65, Method: Composition-based stats. Identities = 78/299 (26%), Positives = 146/299 (48%), Gaps = 10/299 (3%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + I PL +G A +G A+RR L+ + G IT + + HE ++I G+ E Sbjct: 23 DDKRLFYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFAKIPHEYTTIAGIKE 82 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I++N+K I L+ + + +I RGP VTA DI +++ I L Sbjct: 83 SIYEILMNLKEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSTAIVDNTQHIFTLTEP 142 Query: 141 AVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + L + +G GY T+ IDA++ P++ V++++ S G ++ Sbjct: 143 IDFCVGLKIERGRGYSIKIPMPTDLFHHDSAYPIDAVFMPVRNVNHSIHSYERGS---HE 199 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPAL 256 L + I T+GS+T ++++ ASR L + L F++ EE E ++ + + LP + Sbjct: 200 MLFLEIWTNGSLTPKEALREASRKLINLLMPFLHAEEENFYLVENNQNQDTEELPIDLCG 259 Query: 257 LKKV---EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 LK + + +EL R NCL+ I + DL+ + D+++M +F ++ + + +L Sbjct: 260 LKDIYIDQLVELPPRFYNCLKRSGIHTVMDLLDKNRDDLMKMTHFRQEDIEGVMNILNN 318 >gi|71056898|emb|CAH59006.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 234 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 106/234 (45%), Positives = 152/234 (64%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 + EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDG LHE S+IKGV ED+ IILN Sbjct: 1 KFVVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGALHEFSTIKGVREDVVQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ + K + I GP VTAGDI +D+E+LN D IC + A LT Sbjct: 61 IKGLALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLT 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++ E+ PIG++ +D++Y+P+ KV+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKPGRGYVQADENKKEDMPIGVLPVDSIYTPVCKVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 GSI +++++LA++IL + L +F+N + K + + + L +EE Sbjct: 181 GSIIAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 234 >gi|71056914|emb|CAH59016.1| DNA-directed RNA polymerase alpha chain [Enterococcus cecorum] Length = 229 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 151/229 (65%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 I EPL RG+ TLGN+LRR+L+SSL GAAIT++QID V HE S+I GV ED++ IILN Sbjct: 1 KFIVEPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDTVQHEFSTIVGVREDVSQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 IKG+ LK+ G K + I GP VVTAGDI +D+E+LN D IC + A R L Sbjct: 61 IKGLALKLYGSEEKTLEIDITGPAVVTAGDIIVDSDVEILNKDMYICTVSEGATFRARLK 120 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 V G GYV A ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TD Sbjct: 121 VKAGRGYVQADENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 GSI D+++LA++IL + L +F+N + + + + + L Sbjct: 181 GSIEPLDAMSLAAKILTEHLDIFVNLTDEARHAEIMVEKEETQKEKMLE 229 >gi|300089411|gb|ADJ67857.1| RNA polymerase alpha-subunit [Photobacterium jeanii] Length = 248 Score = 253 bits (646), Expect = 3e-65, Method: Composition-based stats. Identities = 110/251 (43%), Positives = 166/251 (66%), Gaps = 7/251 (2%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF HTLGNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+ Sbjct: 1 VTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDVLEILLNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELT 148 KG+ +K+ G +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + Sbjct: 61 KGLAVKVEGKDEVILTLNKSGAGPVVAGDITHDGDVEIANPEHVICHLTDDNADISMRIK 120 Query: 149 VSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 V +G GYVPA H + PIG + +DA +SP+ +++Y VE+AR Q D DKL + + Sbjct: 121 VERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDRIAYAVEAARVEQRTDLDKLVIDM 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL Sbjct: 181 QTNGTLDPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLEL 237 Query: 266 SVRSTNCLRGE 276 +VRS NCL+ E Sbjct: 238 TVRSANCLKAE 248 >gi|29427831|sp|Q8MC99|RPOA_PHAAN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|22725692|gb|AAN04898.1| RNA polymerase alpha subunit [Vigna angularis] Length = 333 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 81/311 (26%), Positives = 150/311 (48%), Gaps = 22/311 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT V+ + + HE S+I G+ Sbjct: 21 RIESKRLYYGRFILSPLMKGQADTIGIAIRRILLGEIEGTCITRVKSEKIPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I +N+K I LK + + +I +GPG +TA DI +E+++ I N+ Sbjct: 81 EESVHEIFMNLKEIVLKSNMYGTQDASISFKGPGYITAQDIILPPSVEIVDNRQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY +N G IDA + P++ V+Y++ S G Sbjct: 141 EPVNLCIELKIERNRGYRIKT---LKNFQDGSYDIDARFMPVRNVNYSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + I T+GS+T ++++ AS+ L D F++ EE +++ + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASQNLIDLFIPFLHAEEENFNLEKKKHKVTLPLFTFHDI 256 Query: 258 -----------------KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 +++LEL R NCL+ NI + +L+ ++ +L++ +F Sbjct: 257 LVKDKLRKNKKEIALKSIFIDQLELPPRIYNCLKRSNIHTLLELLNNSQEXLLKIEHFRV 316 Query: 301 KSLVEIKGVLG 311 + I +L Sbjct: 317 EDGKSILDILK 327 >gi|268680561|ref|YP_003304992.1| DNA-directed RNA polymerase, subunit alpha [Sulfurospirillum deleyianum DSM 6946] gi|268618592|gb|ACZ12957.1| DNA-directed RNA polymerase, alpha subunit [Sulfurospirillum deleyianum DSM 6946] Length = 337 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 108/329 (32%), Positives = 173/329 (52%), Gaps = 10/329 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P IE + N+ + A P GFA TL + LRR+L+ S G+A TAV+I+GV H Sbjct: 10 MPTEIE---VENISANKVQISAYPFESGFAVTLAHPLRRLLLGSTIGSAPTAVKIEGVTH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDS-HKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+ I+N+K I K+ GD V GP + D+ + IE++ Sbjct: 67 EFDSMRGMLEDVALFIINLKNIRFKIKGDEKRVEVNYSFSGPKEIKGSDLA-NSHIEIVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + ++ DA L + KG GYVP+++ R + I +DA ++P+K+ Y +E+ Sbjct: 126 PDTYLATINEDAEFNFSLIIEKGIGYVPSENIR-DLLTDDYIALDAFFTPVKRAVYDIEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +Y+K+ TI+TDG ++ ++ A + Q+ +F + K + + + Sbjct: 185 VLVEDNPNYEKIVFTIETDGLVSPIEAFKNALEAMYAQMSVFNGILDIAVAPKNETSHDN 244 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + LL+ VEEL LS RS NCL + Y+G+L +E ++ + N G+KSL EI+ V Sbjct: 245 VEL-GKLLQSVEELNLSARSFNCLDRAEVKYIGELALMSETELKDLKNLGKKSLEEIRQV 303 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 + G +G N D E+ L KK ED Sbjct: 304 MEESGYPVGYNFSD---ETASLLKKKIED 329 >gi|26554440|ref|NP_758374.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma penetrans HF-2] gi|38372493|sp|Q8EUD7|RPOA_MYCPE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|26454450|dbj|BAC44778.1| RNA polymerase subunit alpha [Mycoplasma penetrans HF-2] Length = 331 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 97/319 (30%), Positives = 165/319 (51%), Gaps = 15/319 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 NI+ ++ + + + +PL RGF HTLGN+LRRVL+S++ G ++ A++I V HE Sbjct: 8 NIQIGKDQNKDADYGVFVFKPLERGFGHTLGNSLRRVLLSNIIGHSLFAIKIPNVSHEFQ 67 Query: 74 SIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQ 120 SIKGV EDLT IILN+K + +K+ + + I GV+ A DI+ Sbjct: 68 SIKGVKEDLTQIILNLKRLVVKIDQEIFGEEEQKETSLEKWPTLKIDFSKGGVLKASDIE 127 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T E++N D I ++ +MEL V G G+ ++ + I +I +D+ +SP+ Sbjct: 128 TPVGFEIINKDMYIATIESGVKFKMELFVKTGRGFTTFSENKELINAINVIAVDSNFSPV 187 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--FEEPK 238 KV Y V + + D L + + T+G+++ ++VA++++IL + + F+ Sbjct: 188 LKVGYKVSDIKTTKNEINDVLELEVATNGAVSAAEAVAMSAKILLEHYKPIVTELFDNYN 247 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + +L ++ELELSVRS NCL+ I + L +T+ ++ ++ N Sbjct: 248 DLRIINEEATVSSSKSSLAISIDELELSVRSYNCLKRAGIHTITQLTDKTKGEIEKIRNL 307 Query: 299 GRKSLVEIKGVLGTMGLFL 317 G+KS EI + L L Sbjct: 308 GKKSFKEIIKKIQDRNLKL 326 >gi|172072879|ref|YP_001806640.1| RNA polymerase alpha subunit [Cryptomeria japonica] gi|171854898|dbj|BAG16638.1| RNA polymerase alpha subunit [Cryptomeria japonica] gi|239794267|dbj|BAH73264.1| RNA polymerase alpha subunit [Cryptomeria japonica] gi|239794349|dbj|BAH73345.1| RNA polymerase alpha subunit [Cryptomeria japonica] Length = 342 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 81/336 (24%), Positives = 152/336 (45%), Gaps = 28/336 (8%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 E + EN + PL +G A+T+G+A+RRVL+ + G IT + + Sbjct: 11 KIPELKCVESRTENKRFHYSRFTLSPLRKGQANTIGSAIRRVLLGEVEGTCITRAKFHNI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 +E S I G+ E + +I++N+K I L+ + +I GP VTA DI + ++ Sbjct: 71 SNEYSVIIGIEESIHEILMNLKEIVLRSDAYGIREGSIHVVGPKKVTAQDIMLPPSVRII 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-------NDPIGLITIDALYSPIK 181 + I N++ + + L + KG GY+ + D + IDA ++P++ Sbjct: 131 DTTQHIANINKSITLDISLQIEKGRGYIIQNPNNYNPKDEIFAIDAAFVFPIDAAFAPVQ 190 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 V+Y++ S + L + I T+G + ++++ ASR L D F+N +E + Sbjct: 191 NVNYSIHSYWSENET-QEILFLEIWTNGGLAPKEALYEASRNLIDFFLPFLNAKEENSDG 249 Query: 242 KEDINVKSLPFNP------------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 ++ P P +++L S R NCL+ NI + DL+ + Sbjct: 250 TNSLSDDITPSLPILHISTDTKRIAFDQMYIDQLNFSTRVYNCLKKANINTVSDLLNYSR 309 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 D++++ + G +S+ EI + + ++ P P Sbjct: 310 EDLMKIKHLGEQSVKEILEFIRNIQ----IDSPGNP 341 >gi|71056818|emb|CAH58964.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 232 Score = 252 bits (645), Expect = 4e-65, Method: Composition-based stats. Identities = 107/232 (46%), Positives = 153/232 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 SI ++++L+++I+ + L +F+N + K + + + L +E Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIE 232 >gi|11466735|ref|NP_039331.1| RNA polymerase alpha subunit [Marchantia polymorpha] gi|133401|sp|P06270|RPOA_MARPO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|11706|emb|CAA28117.1| rpoA [Marchantia polymorpha] Length = 340 Score = 252 bits (644), Expect = 5e-65, Method: Composition-based stats. Identities = 90/322 (27%), Positives = 158/322 (49%), Gaps = 24/322 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P +G A+T+G A+RR L++ + GA+IT +I V HE S+I G+ Sbjct: 21 KIESKRLLYSRFAISPFRKGQANTVGIAMRRALLNEIEGASITYAKIKKVKHEYSTIIGL 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I LK ++ I GP +TA DI+ + I+++ I L+ Sbjct: 81 QESIHDILINLKEIVLKSESFEPQKAYISVLGPKKITAQDIKGPSCIKIMIIAQYIATLN 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D ++ +EL + K GY + GL +DA++ PI+ +Y+V S + + Sbjct: 141 KDILLEIELNIEKDRGYRIENLQK---YQEGLFPVDAVFMPIRNANYSVHSFESEKKI-K 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN------------ 246 + L + I TDGS+T ++++ ASR L D IN E+ +K + Sbjct: 197 EILFLEIWTDGSLTPKEALYEASRNLIDLFIPLINSEKKEKNFGIEKTNESNMSYFPFQS 256 Query: 247 -----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 K +++LEL R+ NCL+ N+ + DL+ +E D++++ NFG+K Sbjct: 257 VSLDIEKMTKDVAFKHIFIDQLELPARAYNCLKKVNVHTIADLLHYSEDDLIKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S+ ++ L + LP Sbjct: 317 SVEQVLEALK---KRFSIQLPK 335 >gi|149184060|ref|ZP_01862413.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. SG-1] gi|148848232|gb|EDL62529.1| DNA-directed RNA polymerase subunit alpha [Bacillus sp. SG-1] Length = 245 Score = 252 bits (644), Expect = 5e-65, Method: Composition-based stats. Identities = 99/241 (41%), Positives = 152/241 (63%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T II+NIK + LK+ D K + I G GVVTA DI +D+EVLNP+ I Sbjct: 1 GVVEDVTTIIMNIKKLALKIYSDEEKTLEIDVNGEGVVTAADITHDSDVEVLNPELHIAT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L ++ RM L +G GY PA ++ E+ PIG+I ID++Y+P+ +V+Y VE+ R GQ+ Sbjct: 61 LSANSNFRMRLAAQRGRGYTPADQNKREDLPIGVIPIDSIYTPVSRVNYQVENTRVGQLT 120 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 ++DKLS+ + TDGSI +++++L ++IL + L +F+ + + + + + L Sbjct: 121 NFDKLSLDVWTDGSIGPKEAISLGAKILNEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVL 180 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL Sbjct: 181 EMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKVKLEDLGLG 240 Query: 317 L 317 L Sbjct: 241 L 241 >gi|161513440|emb|CAP16863.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 229 Score = 252 bits (644), Expect = 5e-65, Method: Composition-based stats. Identities = 103/229 (44%), Positives = 152/229 (66%), Gaps = 2/229 (0%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++L Sbjct: 1 LERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSL 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K+ D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G G Sbjct: 61 KIESDDEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRG 120 Query: 155 YVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 YV A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ Sbjct: 121 YVSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSIS 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ +L+++IL + L +F+N + K+ + + + L +E Sbjct: 181 PSEATSLSAKILTEHLALFVNLTDEAKDAEIMVEKEETHKEKMLEMSIE 229 >gi|71056850|emb|CAH58980.1| DNA-directed RNA polymerase alpha chain [Enterococcus ratti] gi|72534395|emb|CAH58994.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 233 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 107/233 (45%), Positives = 154/233 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 SI ++++L+++I+ + L +F+N + K + + + L +EE Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 233 >gi|228017657|gb|ACP52470.1| RNA polymerase alpha subunit [Pinus peuce] Length = 335 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 78/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|119668315|emb|CAK95458.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 97/214 (45%), Positives = 140/214 (65%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K Sbjct: 1 VEPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LK D K + + GP VTA D++ D++VLNPD IC + + ME+ V Sbjct: 61 LELKSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQN 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 121 GRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 D+++ A++IL + +F + + K + + Sbjct: 181 KPNDALSFAAKILVEHFKVFESADADTKFSEVMV 214 >gi|300870622|ref|YP_003785493.1| DNA directed RNA polymerase subunit alpha [Brachyspira pilosicoli 95/1000] gi|300688321|gb|ADK30992.1| DNA directed RNA polymerase alpha subunit [Brachyspira pilosicoli 95/1000] Length = 325 Score = 252 bits (644), Expect = 6e-65, Method: Composition-based stats. Identities = 103/314 (32%), Positives = 170/314 (54%), Gaps = 5/314 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P+ + + N +A+P RG+A T+GNALRRVL+SS+ G AITA++IDGV + Sbjct: 12 HPHRVTF-EARDLTPNYGKFVAQPFERGYATTIGNALRRVLLSSIPGYAITAIKIDGVTN 70 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVT-AGDIQTVNDIEVL 128 E ++ G+ ED +I+++K + + + + K + I K GP VT A D+ V Sbjct: 71 EFENVPGMKEDTIVMIMHLKNVVVALPENVDAKTIHIKKEGPCTVTAADFASADADVSVF 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NP+H I + M++ + G+ YVPA+ + + + I IDA+YSPI V + V+ Sbjct: 131 NPEHHIATIAEGYTFEMDVQIESGYNYVPAEVNMELLEDVNAIAIDAIYSPIVSVKFAVD 190 Query: 189 SAREGQVLD-YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 R GQ ++ Y KL++ I+T G+I E +++ A+++L+D L F+ EE + ++ Sbjct: 191 DVRVGQRINYYGKLTLEIETKGNIAPEKALSWAAKLLRDNLTPFMLPEEANGDDEKIEET 250 Query: 248 KSLPF-NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + K VEE+E SVR+ N L ++ + + +T+AD+LR+ + EI Sbjct: 251 PKDSVLDSLKDKHVEEVEFSVRTANFLISSDLKTLDKVALKTDADLLRLIGANEMIIEEI 310 Query: 307 KGVLGTMGLFLGMN 320 K L LGM Sbjct: 311 KEKLAEYNAHLGMR 324 >gi|71056894|emb|CAH59004.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 229 Score = 252 bits (643), Expect = 6e-65, Method: Composition-based stats. Identities = 105/228 (46%), Positives = 151/228 (66%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIK Sbjct: 1 IVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNIK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G++LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 GLSLKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGS Sbjct: 121 PGRGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTDGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 I D+++LA++I+ + L +F+N + K + + + L Sbjct: 181 IEPLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 228 >gi|228016268|gb|ACP51103.1| RNA polymerase alpha subunit [Pinus strobus] gi|228016903|gb|ACP51728.1| RNA polymerase alpha subunit [Pinus ayacahuite] gi|228017272|gb|ACP52091.1| RNA polymerase alpha subunit [Pinus flexilis] gi|228017337|gb|ACP52155.1| RNA polymerase alpha subunit [Pinus lambertiana] Length = 335 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 78/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|156752145|gb|ABU93823.1| RNA polymerase subunit A [Vibrio sp. 23023] Length = 256 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 112/259 (43%), Positives = 173/259 (66%), Gaps = 8/259 (3%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHK 102 GNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G Sbjct: 1 GNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEV 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK-- 159 +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA Sbjct: 61 FITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPASAR 120 Query: 160 -HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 H + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ Sbjct: 121 IHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIR 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Sbjct: 181 RAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAI 237 Query: 279 VYMGDLIQRTEADMLRMAN 297 Y+GDL+QRTE ++L+ N Sbjct: 238 HYIGDLVQRTEVELLKTPN 256 >gi|213584847|ref|ZP_03366673.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 253 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 112/256 (43%), Positives = 176/256 (68%), Gaps = 7/256 (2%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 +GNALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G Sbjct: 1 MGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEV 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK-- 159 +T+ K G G VTA DI D+E++ P HVIC+L D +A + M + V +G GYVPA Sbjct: 61 ILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTR 120 Query: 160 -HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 H + PIG + +DA YSP+++++Y VE+AR Q D DKL + ++T+G+I E+++ Sbjct: 121 IHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIR 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 A+ IL +QL F++ + ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Sbjct: 181 RAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAI 237 Query: 279 VYMGDLIQRTEADMLR 294 Y+GDL+QRTE ++L+ Sbjct: 238 HYIGDLVQRTEVELLK 253 >gi|237688617|ref|YP_002905234.1| RNA polymerase alpha subunit [Pinus gerardiana] gi|226876077|gb|ACO89333.1| RNA polymerase alpha subunit [Pinus gerardiana] Length = 335 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 80/317 (25%), Positives = 151/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ V+Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDVNYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|5107487|pdb|1BDF|A Chain A, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit N-Terminal Domain gi|5107488|pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit N-Terminal Domain gi|5107489|pdb|1BDF|C Chain C, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit N-Terminal Domain gi|5107490|pdb|1BDF|D Chain D, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit N-Terminal Domain Length = 235 Score = 252 bits (643), Expect = 7e-65, Method: Composition-based stats. Identities = 99/236 (41%), Positives = 152/236 (64%), Gaps = 7/236 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALR +L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALY 177 D+E++ P HVIC+L D +A + M + V +G GYVPA H + PIG + +DA Y Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACY 177 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 SP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL F++ Sbjct: 178 SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVD 233 >gi|228016207|gb|ACP51043.1| RNA polymerase alpha subunit [Pinus squamata] Length = 335 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 79/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN--------------- 246 + I T+G +T +++ ASR L D F++ EE + + Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 247 -VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ + Sbjct: 260 TRETKEKIAFQHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|72534409|emb|CAH59041.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 229 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 106/229 (46%), Positives = 151/229 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|32266902|ref|NP_860934.1| DNA-directed RNA polymerase subunit alpha [Helicobacter hepaticus ATCC 51449] gi|41688644|sp|Q7VGB9|RPOA_HELHP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|32262954|gb|AAP78000.1| DNA-dependent RNA polymerase [Helicobacter hepaticus ATCC 51449] Length = 334 Score = 252 bits (643), Expect = 8e-65, Method: Composition-based stats. Identities = 94/316 (29%), Positives = 163/316 (51%), Gaps = 5/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I+P I + + NR + A P G+A TL + +RR+L+SS G A TA++I GV Sbjct: 6 IEPYIPTDISIEEISTNRIRISAYPFESGYAITLAHPIRRLLLSSSVGYAPTALRIQGVT 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE SI+G+ ED++ I N+K I K + + ++ +GP V++A ++ + + Sbjct: 66 HEFDSIRGIVEDVSHFITNLKNIRFLIKDTESDNVQLHYEFKGPMVLSANELVNDM-VGI 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ + ++ +A + L V KG GYVP++ R + I +DA ++P+KK Y + Sbjct: 125 VNPEAYLATINENASLSFSLIVQKGIGYVPSESIRGKISE-DYIPLDAYFTPVKKAVYEI 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ +Y+K+ I+TDG I + A I+ Q+ +F +I+ Sbjct: 184 ENVLVEDNPNYEKIVFDIETDGQIEPITAFKEAIAIMHKQMSIFGVDLSTASSGTRNISE 243 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S ++K ++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI Sbjct: 244 DSGELKTLMIK-IDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEIA 302 Query: 308 GVLGTMGLFLGMNLPD 323 L +G +G + D Sbjct: 303 DKLEELGYPVGGEIAD 318 >gi|12045030|ref|NP_072840.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma genitalium G37] gi|255660326|ref|ZP_05405735.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma genitalium G37] gi|1350841|sp|P47423|RPOA_MYCGE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|3844773|gb|AAC71396.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma genitalium G37] gi|166078895|gb|ABY79513.1| DNA-directed RNA polymerase, alpha subunit [synthetic Mycoplasma genitalium JCVI-1.0] Length = 328 Score = 251 bits (642), Expect = 8e-65, Method: Composition-based stats. Identities = 87/317 (27%), Positives = 157/317 (49%), Gaps = 13/317 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + N + PL GF T+GNA+RRVL+S + GA++ A+ I GV E S Sbjct: 10 KVNNNQPTNTNPNYGIFEVAPLESGFGITIGNAMRRVLLSCIPGASVFAIAISGVKQEFS 69 Query: 74 SIKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQ 120 +++GV ED+T+++LN K + +++S + + + G V A D++ Sbjct: 70 NVEGVLEDVTEMVLNFKQLVVRISDLLFEDGEMIEPPLERWPVLKVTAEKKGAVYAKDLE 129 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 EV+N D + +L D + + + V +G G+ +R + +G+I DA +SP+ Sbjct: 130 CPAGFEVINKDLYLFSLQKDMKLTVSVYVKQGRGFTSFLENRELINSLGIIATDANFSPV 189 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 Y V+ + + D L+ I T+G+I D+ A+A++IL + L ++ E K Sbjct: 190 LHCGYEVQEVKTSKQKLTDHLTFKIATNGAIKAVDAFAMAAKILIEHLNPIVSVNESIKN 249 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + + K++EEL+ +VR+ NCL+ I + +L+ ++ D+ + N G+ Sbjct: 250 LTIIQEKAEERKVKSFAKQIEELDFTVRTFNCLKRSGIHTLQELLSKSLTDIREIRNLGK 309 Query: 301 KSLVEIKGVLGTMGLFL 317 KS EI + +GL Sbjct: 310 KSEREIIKKVQELGLKF 326 >gi|119672801|emb|CAK95516.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 217 Score = 251 bits (642), Expect = 8e-65, Method: Composition-based stats. Identities = 99/217 (45%), Positives = 145/217 (66%), Gaps = 2/217 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FIIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVEGVLEDVTAIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + + + I GP VTAGDI +D+E+LNPD I + A + + Sbjct: 61 KKVALKIDSEDAQALEINVVGPMDVTAGDINGSSDVEILNPDLHIATVAEGASFHVRMNA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A + + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 +GSIT ++++L+++IL + L +F++ E K + Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTEEAKNAEIM 217 >gi|29565639|ref|NP_817218.1| RNA polymerase alpha subunit [Pinus koraiensis] gi|324986384|ref|YP_004276256.1| RNA polymerase alpha subunit [Pinus lambertiana] gi|41688693|sp|Q85X01|RPOA_PINKO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|29469738|gb|AAO74066.1| RNA polymerase alpha subunit [Pinus koraiensis] gi|228016141|gb|ACP50978.1| RNA polymerase alpha subunit [Pinus sibirica] gi|228016779|gb|ACP51606.1| RNA polymerase alpha subunit [Pinus armandii] gi|228017149|gb|ACP51970.1| RNA polymerase alpha subunit [Pinus cembra] gi|228017593|gb|ACP52407.1| RNA polymerase alpha subunit [Pinus parviflora var. pentaphylla] gi|323514233|gb|ADX89780.1| RNA polymerase alpha subunit [Pinus lambertiana] Length = 335 Score = 251 bits (642), Expect = 9e-65, Method: Composition-based stats. Identities = 78/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ + Sbjct: 260 TGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|7388092|sp|P93962|RPOA_PSAST RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1771505|emb|CAB01339.1| alpha subunit of RNA polymerase [Psathyrostachys stoloniformis] Length = 339 Score = 251 bits (642), Expect = 9e-65, Method: Composition-based stats. Identities = 86/319 (26%), Positives = 154/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSXPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTXQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G I + P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIXXVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D++R+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLMRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|309322061|ref|YP_003933879.1| RNA polymerase alpha subunit [Erodium texanum] gi|197131688|gb|ACH47362.1| RNA polymerase alpha subunit [Erodium texanum] gi|300069154|gb|ADJ66276.1| RNA polymerase alpha subunit [Erodium texanum] Length = 328 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 71/309 (22%), Positives = 142/309 (45%), Gaps = 9/309 (2%) Query: 10 IKPN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +P + I PL +G A +G A+RR L+ + G IT + + + Sbjct: 11 QRPRWKCVEFRADGKRLYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITYAKFEKI 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE +++ G+ E + +I++N+K I L+ + + +I RGP VTA DI + ++ Sbjct: 71 PHEYTTLVGIQESVYEIVMNLKEIVLRSNLYGTRDASICVRGPRDVTAQDIILPPSVAIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I L + L + + GY T + IDA++ P+K V++++ Sbjct: 131 DNTQHIVTLTEPIDFCVGLQIERNRGYSMKIPMPTNSHDDRGYPIDAVFMPVKNVNHSIH 190 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + G ++ L I T+GS+T ++++ ASR L + F++ EE ++ + N Sbjct: 191 AYENGS---HEMLFFEIWTNGSLTPKEALREASRKLINLFIPFLHAEEENSHLENNQNQH 247 Query: 249 SLPFNPALLKKVEE-----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L + +EL R N L+G I + DL+ + ++++ +F + + Sbjct: 248 TEELSIDLCGLKDIYIDQLVELPPRLYNSLKGSGIHTVMDLMDKNTDALMKIPHFRHEDV 307 Query: 304 VEIKGVLGT 312 ++ +L Sbjct: 308 EKVMNILNK 316 >gi|229915452|gb|ACQ90797.1| alpha subunit of RNA polymerase [Oocystis solitaria] Length = 356 Score = 251 bits (642), Expect = 1e-64, Method: Composition-based stats. Identities = 85/341 (24%), Positives = 161/341 (47%), Gaps = 36/341 (10%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + I P G TL N+LRR L+S + G AI A++I+G LHE S++ GV Sbjct: 18 RIEENKNFYGRFILGPFEVGQGLTLANSLRRTLLSEISGLAIVAMEIEGALHEYSNLPGV 77 Query: 79 HEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI+LN+K I L + D + +GPG+VTA D++ + I+ ++P I Sbjct: 78 QESILDILLNLKQIVLVSRFEMDQPVFGFLKVQGPGIVTASDLKLPSSIQCVDPHQYIAT 137 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTE--------------------------NDPIGL 170 L + + ++ V + Y+ K+ + N + Sbjct: 138 LSYNGFLSIKFFVCQKKNYIFLKNASLKKKKIYKLKKNKIQSPILEKKKSNFLINKTSNV 197 Query: 171 ITIDALYSPIKKVSYTVE-SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ID + + KV+Y +E + +++ + I T+GS+ ++ A++ + + Sbjct: 198 VSIDPNFFSVNKVNYLIETCSLFLFEKPKEQIFLEIWTNGSLHPRQAINEAAKRIVNIFS 257 Query: 230 MF---INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 F ++ + + + ++K F + L+LS+RS CL+ NI + +L+Q Sbjct: 258 PFQETRFYKPGRLKSSKLFSLKRENFKKFTSLDIANLDLSLRSYTCLKRANIHTIDNLLQ 317 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 + ++L + NFG +SL E+ +L +GL NL D+ + Sbjct: 318 YSSEELLLLKNFGTRSLEEVLNILQQIGL----NLRDFDKD 354 >gi|156788956|gb|ABU96049.1| RNA polymerase subunit A [Vibrio parahaemolyticus] Length = 258 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 111/260 (42%), Positives = 174/260 (66%), Gaps = 8/260 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G + Sbjct: 2 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 61 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---H 160 T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 62 TLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIH 121 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A Sbjct: 122 NEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRA 181 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 182 ATILTEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHY 238 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 239 IGDLVQRTEVELLKTPNLGK 258 >gi|237688685|ref|YP_002905301.1| RNA polymerase alpha subunit [Pinus krempfii] gi|226951142|gb|ACO94205.1| RNA polymerase alpha subunit [Pinus krempfii] Length = 335 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 79/317 (24%), Positives = 150/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPKNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++R+ + ++S+ + Sbjct: 260 TGETKEKIAFQHIFIDQLELPSKTYNSLRRANIHTLLDLLNYSREDLMRIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|242624287|ref|YP_003002205.1| DNA-directed RNA polymerase alpha chain [Aureoumbra lagunensis] gi|239997395|gb|ACS36917.1| DNA-directed RNA polymerase alpha chain [Aureoumbra lagunensis] Length = 303 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 94/293 (32%), Positives = 148/293 (50%), Gaps = 9/293 (3%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + E T L + T+GNALRRVL++ L G AITAV+I GV HE +I GV E Sbjct: 14 NENGEKTTRFCLAGLEQSQGITIGNALRRVLLTDLMGTAITAVRIYGVNHEYGTIPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I+LN+K I + +T+ GP ++TA DI +++ V+N I + Sbjct: 74 DVLEILLNLKQIKFHGTCSDPVLITLEIEGPYLLTAVDITVPSNLNVINTKQYIATISEQ 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 +++EL + G GY + + IDA+++P+K VSY V + Sbjct: 134 TKLKLELQIESGCGYRLVTDELHRDS-GTFLNIDAIFTPVKNVSYKVLDLYRFDEKLLED 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I TDGS+ +D++ A+ ILQ+ G E + I+ + + + Sbjct: 193 LVLEITTDGSLNPKDALIQAANILQNMFGSLTVGEPKALKQTTTISSRQI--------LI 244 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 EEL+LSVR+ NCL+ NI + DL Q + ++ + NFG+KS E+ L Sbjct: 245 EELQLSVRAYNCLKRANIRTIDDLTQYSIKELKELKNFGQKSANEVIQKLQDR 297 >gi|71056919|emb|CAH59018.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] gi|71056935|emb|CAH59026.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 226 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 105/226 (46%), Positives = 150/226 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI ++++L+++I+ + L +F+N + K + + + Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 226 >gi|12372|emb|CAA33618.1| unnamed protein product [Triticum aestivum] Length = 339 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 88/319 (27%), Positives = 155/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KL 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + ++GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEYGSNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NCL+ NI + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|228016646|gb|ACP51475.1| RNA polymerase alpha subunit [Pinus albicaulis] Length = 335 Score = 251 bits (641), Expect = 1e-64, Method: Composition-based stats. Identities = 78/317 (24%), Positives = 149/317 (47%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + PL +G A T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFALSPLRKGRADTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H + N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSSNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-QEVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNKKKGSNMLPFPLSHVLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 +++LEL ++ N LR NI + DL+ + D++++ + ++S+ + Sbjct: 260 TGETKEKIAFKHIFIDQLELPPKTYNSLRRANIHTLLDLLNYSREDLMKIEHLEKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL ++ P Sbjct: 320 VLEVLR---KRFAIDPP 333 >gi|71056906|emb|CAH59010.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 228 Score = 251 bits (640), Expect = 1e-64, Method: Composition-based stats. Identities = 104/227 (45%), Positives = 152/227 (66%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A LTV Sbjct: 61 LALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++++LA++I+ + L +F+N + K + + + L Sbjct: 181 IPQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 227 >gi|108773284|ref|YP_635780.1| RNA polymerase alpha subunit [Chara vulgaris] gi|122237365|sp|Q1ACG7|RPOA_CHAVU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|77157940|gb|ABA61981.1| alpha subunit of RNA polymerase [Chara vulgaris] Length = 358 Score = 251 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 100/363 (27%), Positives = 171/363 (47%), Gaps = 42/363 (11%) Query: 1 MIQKNWQELIKPNNIEYI----VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 MIQ N + + I++ + + + PL +G A+TLG LRR L+S L Sbjct: 1 MIQ-NVTD----DKIQWKCLESKIESQRIHYGRFAIAPLKKGQANTLGITLRRTLLSDLD 55 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT+V+ID + HE ++ GV E + DI+LN+K I K D ++ IF +GP +TA Sbjct: 56 GICITSVKIDNIKHEYCTLTGVRESIQDILLNLKEIVFKGVCDKTQKGFIFVKGPKKITA 115 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DIQ IE+L+ + +I +L ++ELT+ K G+ + D IDA+ Sbjct: 116 SDIQIEPCIEILDSNQIIAHLTEPIDFKVELTIEKSMGFRLQNATQISKDSFS---IDAI 172 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + PI+ V+Y++ + + L + I T+GSIT +++ AS + + N + Sbjct: 173 FMPIRNVNYSIHPVEKAGDWKSELLILEIWTNGSITPKEAFHQASEKIMNIFLSLSNSSD 232 Query: 237 PKKEV--------------------KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 + + K+D K + +LELS R+ NCL+ E Sbjct: 233 NQIQEKSTKNFEEKEEFIFQNIDGFKQDKETKVQESLGWKKISINQLELSARAYNCLKNE 292 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 I + DL+ ++ D+L++ NFG++S ++ L M L + +KK+ Sbjct: 293 KISTLFDLLNYSQEDLLKIKNFGKRSFEQVVNALE---KHFDMKLSK-------DSSKKF 342 Query: 337 EDK 339 ++ Sbjct: 343 YEQ 345 >gi|71056842|emb|CAH58976.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 215 Score = 251 bits (640), Expect = 2e-64, Method: Composition-based stats. Identities = 103/215 (47%), Positives = 150/215 (69%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + K + I GP VTAGDI +D+E+LN D VIC++ A LTV G Sbjct: 61 ALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSII 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +++++LA++I+ + L +F+N + K + + Sbjct: 181 PQEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEK 215 >gi|47679547|gb|AAT36717.1| RNA polymerase alpha subunit [Corethron hystrix] Length = 301 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 87/287 (30%), Positives = 145/287 (50%), Gaps = 3/287 (1%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E L G T+G LRR L+S L AIT V+I GV +E S I+GV ED Sbjct: 16 DSGEIYGQFQINDLNPGQGITIGTVLRRFLLSELNATAITGVRIAGVNNEFSIIEGVRED 75 Query: 82 LTDIILNIKGINLKMSGDSHKR--VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 + +++LN++ I +K + D+ + + +GP V+TA IQ ++E+LNP+ I + Sbjct: 76 VLELLLNLRPIVIKNNSDNSEMKFGRLKVQGPAVITANAIQLPTELEILNPNQYIATISR 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 ++ ME G GY + E + IDA++ P++KV + VE+ + + Sbjct: 136 SMILEMEFKFESGIGYRLVNQTKME-SSSDFLEIDAVFMPVQKVDFKVENIYDKNKHISE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + I T+GSI+ E ++ +S + + I + K+ ++ + Sbjct: 195 NLIIDIWTNGSISPETALYESSNNIIELFNSLIENKFKKEILEPLPENTRINSENHTNIS 254 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +EEL+LSVRS NCL+ I + DL++ + + + NFGRKS E+ Sbjct: 255 IEELQLSVRSYNCLKRAQINSISDLLKYSPEKLQEIKNFGRKSADEV 301 >gi|197131690|gb|ACH47363.1| RNA polymerase alpha subunit [Geranium carolinianum] Length = 329 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 77/322 (23%), Positives = 149/322 (46%), Gaps = 16/322 (4%) Query: 1 MIQKNWQ-ELIKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 MI++ + P + + + I PL +G A +G A+RR L+ + Sbjct: 1 MIREKVRVSTQTPR---WKCVESRADGKRLYYGRFILSPLKKGQADIIGIAMRRALLGEI 57 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 G IT + + + HE ++I G+ E + +I++N+K I L+ + D + +I RGP VT Sbjct: 58 EGTCITHAKFEKIPHEYTTIVGIQESIYEILMNLKEIVLRSNLDGTRDASICVRGPRDVT 117 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 A DI N +++ I L + L + + GY T IDA Sbjct: 118 AQDIILPNSAAIVDNTQHIVTLTEPIDFCIGLQIDRNRGYSRKIPMPTNFHDDRGYPIDA 177 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 ++ P+K V++++ S G ++ L + I T+GS+T ++++ ASR L + F++ E Sbjct: 178 VFLPVKNVNHSIHSYENGS---HEMLFLEIWTNGSLTPKEALREASRKLINLFIPFLHAE 234 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEE-----LELSVRSTNCLRGENIVYMGDLIQRTEA 290 E + + N + L + + +EL R NCL+ I + DL+ + Sbjct: 235 EENFHFENNQNEHTDELPIDLCELKDIYIDQLVELPARFYNCLKRSGIHTVMDLLNKNTD 294 Query: 291 DMLRMANFGRKSLVEIKGVLGT 312 ++++ +F ++ + ++ +L Sbjct: 295 GLMKITHFRQEDVEKVMNILNN 316 >gi|119672799|emb|CAK95483.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 214 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 98/214 (45%), Positives = 144/214 (67%), Gaps = 2/214 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FIIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVEGVLEDVTAIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + + + I GP VTAGDI +D+E+LNPD I + A + + Sbjct: 61 KKVALKIDSEDAQALEINVVGPMDVTAGDINGSSDVEILNPDLHIATVAEGASFHVRMNA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A + + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +GSIT ++++L+++IL + L +F++ + K Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTDEAKNA 214 >gi|305432400|ref|ZP_07401562.1| DNA-directed RNA polymerase subunit alpha [Campylobacter coli JV20] gi|304444439|gb|EFM37090.1| DNA-directed RNA polymerase subunit alpha [Campylobacter coli JV20] Length = 337 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 98/321 (30%), Positives = 169/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS+K V +GP + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLQFKLKSDSNKEIVEFSFKGPKEIYGKDLNND-QVEVVNTDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L + KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIIEKGIGYVPSEEIKELLNDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSIIKSQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL IVY+G+L + ++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGIVYIGELALMSVNELAGLKNLGKKSLDEIKSIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ + L KK ++ Sbjct: 313 GTS---KLSDNKDLLKKKIDE 330 >gi|13507930|ref|NP_109879.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma pneumoniae M129] gi|2500601|sp|Q50295|RPOA_MYCPN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|1215697|gb|AAC43690.1| RpoA [Mycoplasma pneumoniae] gi|1674345|gb|AAB96288.1| RNA polymerase alpha core subunit [Mycoplasma pneumoniae M129] Length = 327 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 90/307 (29%), Positives = 160/307 (52%), Gaps = 13/307 (4%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 N + PL GF T+GNA+RRVL+S + GA++ A+ I G E ++++G+ ED+T Sbjct: 19 NPNYGIFEVGPLESGFVITIGNAMRRVLLSCIPGASVFALSISGAKQEFAAVEGMKEDVT 78 Query: 84 DIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 +++LN K + +K+S + +T+ G V A D++ EV+N Sbjct: 79 EVVLNFKQLVVKISDLLFEDGEMVEPPLERWPLLTVTAEKAGPVYAKDLECPAGFEVVNK 138 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + +L D V + + V +G G+V +R + +G+I D+ +SP+ Y V+ Sbjct: 139 DLYLFSLQTDKKVTVNVYVKQGRGFVTFLENREMINSLGIIATDSNFSPVLHCGYEVQEL 198 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 + + D L+ I T+G+I+ D+ A+A++IL + L +N E K + Sbjct: 199 KTSKQKITDHLTFKIATNGAISAVDAFAMAAKILIEHLNPIVNVNESIKALNIIQEKAEE 258 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + K++EEL+ +VR+ NCL+ I + +L+ ++ AD+ + N G+KS EI + Sbjct: 259 RRVRSFAKQIEELDFTVRTFNCLKRSGIHTLQELLSKSLADIREIRNLGKKSEREIIKKV 318 Query: 311 GTMGLFL 317 +GL L Sbjct: 319 HELGLKL 325 >gi|119662353|emb|CAJ33165.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 213 Score = 250 bits (639), Expect = 2e-64, Method: Composition-based stats. Identities = 99/213 (46%), Positives = 144/213 (67%), Gaps = 2/213 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAAIT +QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAITDIQIDGVLHEFSTVEGVLEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + I GP VTAGDIQ D+E+ NPD IC + A + +T Sbjct: 61 KKVALGIKSDDRVSLEIDVVGPMEVTAGDIQGSADVEIFNPDQYICTVADGASFHVRMTA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 + G GYV AK ++ ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 NTGRGYVSAKENKEMADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + SIT ++V+L++++L + L +F+N E Sbjct: 181 NKSITPSEAVSLSAKVLTEHLSLFVNLTEEAMN 213 >gi|57504893|ref|ZP_00370868.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter coli RM2228] gi|57019321|gb|EAL56023.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter coli RM2228] Length = 337 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 98/321 (30%), Positives = 169/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS+K V +GP + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKLKSDSNKEIVEFSFKGPKEIYGKDLNND-QVEVVNTDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L + KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIIEKGIGYVPSEEIKELLNDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSIIKSQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL IVY+G+L + ++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGIVYIGELALMSVNELAGLKNLGKKSLDEIKSIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ + L KK ++ Sbjct: 313 GTS---KLSDNKDLLKKKIDE 330 >gi|71056816|emb|CAH58963.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] gi|71056836|emb|CAH58973.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] gi|71056872|emb|CAH58991.1| DNA-directed RNA polymerase alpha chain [Enterococcus mundtii] Length = 230 Score = 250 bits (638), Expect = 2e-64, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 151/229 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|152989998|ref|YP_001355720.1| DNA-directed RNA polymerase subunit alpha [Nitratiruptor sp. SB155-2] gi|172048727|sp|A6Q1K4|RPOA_NITSB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|151421859|dbj|BAF69363.1| DNA-directed RNA polymerase, alpha subunit [Nitratiruptor sp. SB155-2] Length = 328 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 102/332 (30%), Positives = 178/332 (53%), Gaps = 12/332 (3%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I P+ ++ + + +EN + P G+A ++ + LRR+L+SS G A ++I+GV Sbjct: 6 ITPSVPTHMEVEKIKENAIRLHVYPYESGYAISVAHPLRRLLLSSTAGYAPIGLKIEGVQ 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI--FKRGPGVVTAGDIQTVNDIEV 127 HE S++G+ ED+ I+N+K + K+ + VT+ GP + D + +EV Sbjct: 66 HEFDSVRGMLEDVAAFIINLKNVRFKLRDSEQENVTLEYEFSGPKELFGKDFENDL-VEV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 + PD + L+ DA ++M + V KG GYVP++ R + P G I +DA ++P+KK Y + Sbjct: 125 VTPDAFLATLNEDAELKMSIIVQKGIGYVPSEMIR-DLLPQGYIPLDAFFTPVKKAVYEI 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E +Y+K+ I+TDG + ++ +A ++Q Q+ +F N E + V ++I Sbjct: 184 EKVLVEDNPNYEKIVFDIETDGQVDPVSALKMAMNVMQSQMEIFTNDIEVTETVGQNIE- 242 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + + ++ L+LS RS NCL I Y+G+L+ + + + N G+KSL EI+ Sbjct: 243 ----NSEIFYQPLDILDLSARSYNCLDKAGIKYVGELLLMSNEALKSIKNLGKKSLDEIQ 298 Query: 308 GVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L + + LG L D E+I L K ++K Sbjct: 299 EKLSELNIDLG-KLSDQEKETI--LKKIEQNK 327 >gi|71056896|emb|CAH59005.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 223 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 103/223 (46%), Positives = 148/223 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 61 ALKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D+++LA++I+ + L +F+N + K + + + Sbjct: 181 PLDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 223 >gi|108792411|emb|CAJ33183.1| RNA polymerase alpha subunit [Lactobacillus agilis] Length = 227 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 99/227 (43%), Positives = 147/227 (64%), Gaps = 2/227 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FIIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVEGVLEDVTAIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + + + I GP VTAGDI +D+E+LNPD I + A + + Sbjct: 61 KKVALKIDSEDAQALEINVVGPMDVTAGDINGSSDVEILNPDLHIATVAEGASFHVRMNA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GYV A + + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 DKGRGYVSASDNKAKNDEMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +GSIT ++++L+++IL + L +F++ + K + I + Sbjct: 181 NGSITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMIEKEETHKEK 227 >gi|156752143|gb|ABU93822.1| RNA polymerase subunit A [Vibrio sp. 0908] Length = 257 Score = 250 bits (638), Expect = 3e-64, Method: Composition-based stats. Identities = 108/258 (41%), Positives = 173/258 (67%), Gaps = 8/258 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G + Sbjct: 3 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 62 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---H 160 T+ K G G V AGDI D+E++NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 63 TLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIH 122 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + PIG + +DA +SP+ K++Y+V++AR Q D DKL + ++T+G++ E+++ A Sbjct: 123 TEEDERPIGRLLVDATFSPVDKIAYSVDAARVEQRTDLDKLVIDMETNGTLEPEEAIRRA 182 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y Sbjct: 183 ATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHY 239 Query: 281 MGDLIQRTEADMLRMANF 298 +GDL+QRTE ++L+ N Sbjct: 240 IGDLVQRTEVELLKTPNL 257 >gi|261886106|ref|ZP_06010145.1| DNA-directed RNA polymerase subunit alpha [Campylobacter fetus subsp. venerealis str. Azul-94] Length = 326 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 105/318 (33%), Positives = 170/318 (53%), Gaps = 7/318 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 EN +IA P +A TL + LRR+L +S G A TAV+IDGV HE S++G+ ED Sbjct: 12 NVSENVAKIIAYPFETVYAVTLAHPLRRLLYTSTVGFAPTAVKIDGVAHEFDSMRGMLED 71 Query: 82 LTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +T I+N+K + K+ D + + +GP +T D+ +E++NPD + ++ D Sbjct: 72 VTLFIINLKNLRFKLKNDSKREVIEYSFKGPKEITGIDLNNDI-VEIVNPDSYLATINED 130 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A ++ L V KG GYVP++ R D I +DA ++P+KK Y +E+ DY+K Sbjct: 131 AELKFSLIVEKGIGYVPSEEIRDYIDS-EYIALDAFFTPVKKAVYEIENVLVEDNPDYEK 189 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 + +++ TDG ++ ++ + + Q+ +F N + + S + LL+ V Sbjct: 190 IVLSVSTDGQVSPIEAFKHSIEAMYKQMSIFNNVLNIDVNMALTSSQNSNEHSK-LLESV 248 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 E L LS RS NCL +I Y+G+L E+++ + N G+KSL EIK V+ +G G Sbjct: 249 ENLNLSARSFNCLDKADIRYIGELALMEESELKDLKNLGKKSLDEIKAVMAEIGYPFG-- 306 Query: 321 LPDWPPESIEELAKKYED 338 + +S E L KK + Sbjct: 307 -ENTLGDSKEALRKKISE 323 >gi|119668369|emb|CAK95477.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 201 Score = 249 bits (637), Expect = 3e-64, Method: Composition-based stats. Identities = 98/201 (48%), Positives = 143/201 (71%), Gaps = 2/201 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S++KGV ED+T+IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVKGVLEDVTEIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK++ + + + GP VTAGDI T +D+E+LNPD IC + A +T Sbjct: 61 KKVALKLNSEEPQSLEFDIVGPKEVTAGDISTNSDVEILNPDLYICTVADGASFHARMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T Sbjct: 121 NKGRGYVSANENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQL 228 +GSIT ++++L+++IL + L Sbjct: 181 NGSITPSEAISLSAKILTEHL 201 >gi|71056923|emb|CAH59020.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 150/226 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI ++++L+++I+ + L +F+N + K + + + Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 226 >gi|119662297|emb|CAJ33135.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 223 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 94/222 (42%), Positives = 148/222 (66%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + Sbjct: 1 PLERGYGTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + I +GP VTA DI + +D+EVLN D IC + + +TV KG Sbjct: 61 LKLHVEEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYV A +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ Sbjct: 121 GYVAADQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++LA++I+ + L +F++ + K + + + Sbjct: 181 REAISLAAKIMTEHLAIFVDLTDEAKNAEIMVEKEETHKEKM 222 >gi|57242509|ref|ZP_00370447.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter upsaliensis RM3195] gi|57016794|gb|EAL53577.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter upsaliensis RM3195] Length = 337 Score = 249 bits (637), Expect = 4e-64, Method: Composition-based stats. Identities = 101/321 (31%), Positives = 170/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + A P G+ TL + LRR+L +S G A TA+ I+GV HE S++G+ Sbjct: 15 TIENLSETSAKISAWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIYIEGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS+K V + +GP + D+ + V+N D + + Sbjct: 75 LEDVALFIINLKKLRFKLKSDSNKEIVEFYFKGPKEIHGRDLDND-QVSVVNEDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L + KG GYVP++ + D I +DA ++PI++ +Y +E D Sbjct: 134 NEDAELKFTLIIEKGIGYVPSEEIKELLDDNKFIALDAFFTPIREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +TI TDG IT ++ A + QL +F + +K + L N LL Sbjct: 194 YEKVVLTITTDGQITPNEAFQNALGAMYKQLSVFDKITNVRSMIKTQASHNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + ++ + N G+KSL EIK V+ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVNELAGLKNLGKKSLDEIKSVMESIGFAV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ + L KK E+ Sbjct: 313 GTS---KLSDNKDLLKKKIEE 330 >gi|269784300|emb|CBH50795.1| alpha subunit of RNA polymerase [Vibrio sp. C 14.7] Length = 261 Score = 249 bits (636), Expect = 4e-64, Method: Composition-based stats. Identities = 112/264 (42%), Positives = 173/264 (65%), Gaps = 8/264 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGTM 313 ++L+ N G+KSL EIK VL + Sbjct: 238 VELLKTPNLGKKSLTEIKDVLASR 261 >gi|161511719|emb|CAP16870.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 235 Score = 249 bits (636), Expect = 4e-64, Method: Composition-based stats. Identities = 109/235 (46%), Positives = 150/235 (63%), Gaps = 2/235 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVS 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ D K + I GP VTAGDI D+ VLNPD IC + LT G Sbjct: 61 LKIESDDEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSI Sbjct: 121 GYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T ++ +L+++IL + L +F+N + KE + + + L +EEL+LS Sbjct: 181 TPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 235 >gi|302584003|gb|ADL57236.1| RNA polymerase A [Paralactobacillus selangorensis] Length = 222 Score = 249 bits (636), Expect = 4e-64, Method: Composition-based stats. Identities = 99/222 (44%), Positives = 148/222 (66%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+T VQIDGVLHE S+I GV ED+T IILNIK + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVTDVQIDGVLHEFSTIDGVVEDVTQIILNIKKLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +KM G+ + + + GP VTA DI T D+E+LNPD +C + + +TV KG Sbjct: 61 IKMEGEEDRTIELDVTGPAKVTAADIHTDADVEILNPDLYLCTVSDGGSIHARMTVKKGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GY K +++E+ PIG++ ID++Y+PI +V+Y VES R G+ DYDKL++ + T+GSI+ Sbjct: 121 GYDSWKENKSEDMPIGVLPIDSIYTPISRVNYQVESTRVGRRSDYDKLTLDVWTNGSISP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++LA++IL + L +F+N + K + + + Sbjct: 181 REAISLAAKILTEHLAIFVNLTDEAKNAEIMVEKEETHKEKM 222 >gi|315639079|ref|ZP_07894247.1| DNA-directed RNA polymerase subunit alpha [Campylobacter upsaliensis JV21] gi|315480855|gb|EFU71491.1| DNA-directed RNA polymerase subunit alpha [Campylobacter upsaliensis JV21] Length = 337 Score = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 101/321 (31%), Positives = 170/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + A P G+ TL + LRR+L +S G A TA+ I+GV HE S++G+ Sbjct: 15 TIENLSETSAKISAWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIYIEGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS+K V + +GP + D+ + V+N D + + Sbjct: 75 LEDVALFIINLKKLRFKLKSDSNKEIVEFYFKGPKEIHGRDLDND-QVSVVNEDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L + KG GYVP++ + D I +DA ++PI++ +Y +E D Sbjct: 134 NEDAELKFTLIIEKGIGYVPSEEIKELLDDNKFIALDAFFTPIREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +TI TDG IT ++ A + QL +F + +K + L N LL Sbjct: 194 YEKVVLTITTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSMIKTQASHNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + ++ + N G+KSL EIK V+ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVNELAGLKNLGKKSLDEIKSVMESIGFAV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ + L KK E+ Sbjct: 313 GTS---KLSDNKDLLKKKIEE 330 >gi|157493283|gb|ABV58007.1| RNA polymerase alpha subunit [Vibrio cholerae] Length = 249 Score = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 109/252 (43%), Positives = 169/252 (67%), Gaps = 8/252 (3%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ Sbjct: 1 EPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGL 60 Query: 93 NLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVS 150 +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V Sbjct: 61 AVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVE 120 Query: 151 KGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T Sbjct: 121 RGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMET 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+V Sbjct: 181 NGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTV 237 Query: 268 RSTNCLRGENIV 279 RS NCL+ E I Sbjct: 238 RSANCLKAEAIH 249 >gi|308746019|ref|YP_003934590.1| RNA polymerase alpha subunit [Cheilanthes lindheimeri] gi|302375452|gb|ADL29826.1| RNA polymerase alpha subunit [Cheilanthes lindheimeri] Length = 342 Score = 249 bits (636), Expect = 5e-64, Method: Composition-based stats. Identities = 82/334 (24%), Positives = 148/334 (44%), Gaps = 28/334 (8%) Query: 10 IKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI 65 I I++ L + E + + P RG A T+G A+RR L + G +IT + Sbjct: 8 ISTQRIQWKCLESKTESKRLHYGRFVVSPFKRGQASTVGIAMRRALSQEVGGTSITRAKF 67 Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 GV+HE S+I G+ E + D+++N+K I LK + GP VTAGD + Sbjct: 68 HGVVHEYSTITGIQETIHDVLVNLKEIVLKSDSNDIWEAFPSVMGPKEVTAGDTSLPPRV 127 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 + ++ I + +EL + + GY + + G +IDA++ P++ V+Y Sbjct: 128 KAIDNSQYIATITQPISSNIELKIERDCGYRIENSNECRD---GQFSIDAVFMPVRNVNY 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF-------INFEEPK 238 ++ G+ + + I T+GS T ++++ AS+ L D F ++F E Sbjct: 185 SIHLFGNGRAT-QEISFIEIWTNGSPTPHEALSEASKKLIDLSTPFSGVKCRDVSFLEDH 243 Query: 239 KEVKEDINVKSLPFNP----------ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 ++ + L +++LEL R+ NCL+ I + D + + Sbjct: 244 EDSSDSTRSPFLQLQFGNACKLEGKLFENMFIDQLELPARAFNCLKRAEIHTIADSLNYS 303 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 D+ ++ NFG+KS+ ++ L LP Sbjct: 304 REDLSKIRNFGQKSVDQVSKALWER---FSKELP 334 >gi|119662319|emb|CAJ33147.1| RNA polymerase alpha subunit [Lactobacillus kalixensis] Length = 208 Score = 249 bits (635), Expect = 5e-64, Method: Composition-based stats. Identities = 94/203 (46%), Positives = 139/203 (68%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + Sbjct: 1 EPLERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK D K + + GP VTA D++ +D++VLNPD IC++ + M++ V G Sbjct: 61 ELKSLSDEQKVIELDVEGPATVTADDLKVDSDVQVLNPDQYICSIAEGGHLHMQIAVKNG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A +++++ PIG+I +D+L+SPIKKV+Y VE+ R G+ D+DKL+ I TDGSI Sbjct: 121 RGYVAANDNKSDDMPIGVIPVDSLFSPIKKVNYQVEATRVGKRDDFDKLTFEIWTDGSIN 180 Query: 213 GEDSVALASRILQDQLGMFINFE 235 D+++ A++IL + +F + + Sbjct: 181 PNDALSFAAKILVEHFKVFESAD 203 >gi|71056808|emb|CAH58959.1| DNA-directed RNA polymerase alpha chain [Enterococcus raffinosus] Length = 228 Score = 249 bits (635), Expect = 6e-64, Method: Composition-based stats. Identities = 105/227 (46%), Positives = 150/227 (66%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV Sbjct: 61 LALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++++LA++IL + L +F+N + K + + + L Sbjct: 181 IAQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 227 >gi|161511767|emb|CAP16894.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 219 Score = 249 bits (635), Expect = 6e-64, Method: Composition-based stats. Identities = 101/219 (46%), Positives = 145/219 (66%), Gaps = 2/219 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + LT Sbjct: 61 KKVSLKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTA 120 Query: 150 SKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I T Sbjct: 121 DTGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 DGSIT ++ +L+++IL + L +F+N + KE + + Sbjct: 181 DGSITPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVE 219 >gi|156752147|gb|ABU93824.1| RNA polymerase subunit A [Vibrio sp. 09022] Length = 256 Score = 249 bits (635), Expect = 6e-64, Method: Composition-based stats. Identities = 110/259 (42%), Positives = 172/259 (66%), Gaps = 8/259 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HH 161 + K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 61 LNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHT 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ Sbjct: 121 EEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRTEADMLRMANFGR 300 GDL+QRTE ++L+ N G+ Sbjct: 238 GDLVQRTEVELLKTPNLGK 256 >gi|71056820|emb|CAH58965.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] gi|71056844|emb|CAH58977.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 230 Score = 249 bits (635), Expect = 6e-64, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 151/229 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHCEDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 SI ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 229 >gi|328814001|gb|AEB52116.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 232 Score = 249 bits (635), Expect = 7e-64, Method: Composition-based stats. Identities = 108/232 (46%), Positives = 155/232 (66%), Gaps = 2/232 (0%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK Sbjct: 1 ERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + D K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GY Sbjct: 61 LESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGY 120 Query: 156 VPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 V A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT Sbjct: 121 VSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 ++++L+++IL D L +F+N + K + + L +EEL+L Sbjct: 181 SEAISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDL 232 >gi|71056832|emb|CAH58971.1| DNA-directed RNA polymerase alpha chain [Enterococcus dispar] Length = 226 Score = 248 bits (634), Expect = 7e-64, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 149/226 (65%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT++QIDGVLHE S++KGV ED+ IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITSIQIDGVLHEFSTVKGVREDVAQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 61 ALKMYTQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVRPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+ +V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKREDMPIGVVPVDSIYTPVNRVNYQVENTRVGRRDDFDKLTMEIWTDGSIM 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++++LA++I+ + L +F+N + K + I + L Sbjct: 181 PMEAMSLAAKIMTEHLDIFVNLTDEAKNAEIMIEKEETQKEKMLEM 226 >gi|328813973|gb|AEB52102.1| DNA-directed RNA polymerase alpha chain [Lactobacillus fermentum] Length = 243 Score = 248 bits (634), Expect = 7e-64, Method: Composition-based stats. Identities = 106/243 (43%), Positives = 160/243 (65%), Gaps = 2/243 (0%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K + LK+ + K + I Sbjct: 1 RRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKQVALKIDSEDAKDLEID 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTEN 165 +GP VTA DIQ D+ +LN D I + A + +++T KG GY A R E Sbjct: 61 VKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTADKGRGYSSADDNKTRMEG 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+GS+T ++++LA++IL Sbjct: 121 LAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTNGSLTPTEAISLAAKILT 180 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 + L MF+N E + + + + L K +EEL+LSVRS NCL+ +I + DL Sbjct: 181 EHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKTIEELDLSVRSYNCLKRADIQTVKDLT 240 Query: 286 QRT 288 +RT Sbjct: 241 ERT 243 >gi|71056921|emb|CAH59019.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 248 bits (634), Expect = 8e-64, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 150/226 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNI Sbjct: 1 FIVEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDITQIILNI 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 KGLALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDG Sbjct: 121 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SI ++++L+++I+ + L +F+N + K + + + Sbjct: 181 SIEPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 226 >gi|71056804|emb|CAH58957.1| DNA-directed RNA polymerase alpha chain [Enterococcus italicus] Length = 224 Score = 248 bits (634), Expect = 9e-64, Method: Composition-based stats. Identities = 103/224 (45%), Positives = 148/224 (66%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNIKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ G+ K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 61 LKLYGEDEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYV A ++ ++ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 GYVQADENKKDDMPIGVLPVDSIYTPVRRVNYQVENTRVGHRDDFDKLTMEIWTDGSIEP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 D+++LA++I+ + L +F+N + K + + + L Sbjct: 181 LDAMSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 224 >gi|295136921|ref|YP_003587754.1| RNA polymerase alpha subunit [Lathyrus sativus] gi|293338643|gb|ADE43615.1| RNA polymerase alpha subunit [Lathyrus sativus] Length = 335 Score = 248 bits (633), Expect = 9e-64, Method: Composition-based stats. Identities = 79/313 (25%), Positives = 150/313 (47%), Gaps = 24/313 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR+L+ + G IT + + + HE S++ G+ Sbjct: 21 RVDSKRLYYGRFILSPLLKGQADTIGIAMRRILLGEIDGTCITRAKSEKIPHEYSTVVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI +EV++ I NL Sbjct: 81 QESIHEILMNLKEIVLRSNLYGTREASISFKGPGYVTAQDIILPPSVEVIDKTQHIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + ++ IDA++ P++ +Y++ S G Sbjct: 141 EPINLCIELQIERKRGYRIKTLNNIQDGSYT---IDAVFMPVRNANYSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D L + I T+GS T ++++ ASR L D F++ EE ++ + + + P Sbjct: 197 DILFLEIWTNGSFTPKEALYEASRNLIDLFIPFLHAEEENFNLENNQHKMTWPLFTFHDH 256 Query: 259 K--------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + + + +++ D++++ +F Sbjct: 257 DRFVKDKLTNTQKEITLKSIFIDQLELPPRIYNCLKKSNIHTVFEFLNKSQEDLMKIEHF 316 Query: 299 GRKSLVEIKGVLG 311 + L I +L Sbjct: 317 RVEDLKNILNILK 329 >gi|321310954|ref|YP_004193283.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma haemofelis str. Langford 1] gi|319802798|emb|CBY93444.1| DNA-directed RNA polymerase alpha subunit [Mycoplasma haemofelis str. Langford 1] Length = 326 Score = 248 bits (633), Expect = 9e-64, Method: Composition-based stats. Identities = 105/312 (33%), Positives = 161/312 (51%), Gaps = 13/312 (4%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 L + + ++ PL +GF T+GNALRRVL+ S+ GAA+ A++IDGV HE + +GV Sbjct: 12 KLLESSQYMASVVISPLKQGFGTTIGNALRRVLLGSIPGAAVFAIKIDGVDHEFMAPEGV 71 Query: 79 HEDLTDIILNIKGINLKMSGD-------------SHKRVTIFKRGPGVVTAGDIQTVNDI 125 ED+T+IILN+K + + + + I K GVV A DI+ + Sbjct: 72 LEDVTNIILNVKKLVISIDEKVVDVQSLEEKSISEWPTMKIKKNKAGVVYANDIECPPGM 131 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +V+N D IC L D MEL + GY +R D + +I+ID+L+SPI KV + Sbjct: 132 KVINKDLKICELSKDVEFGMELYATLDRGYRSFSENRERLDTLKIISIDSLFSPIVKVEW 191 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 V + + DKL +T+ T+GS+ D+++LA+ L L F + K Sbjct: 192 KVVEEKTTKQGTTDKLHLTLVTNGSVKAADALSLAAHTLISLLEPISAFNPETSKRKLIG 251 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 + A+ ++ELEL++RS NCL+ I + +L + T A+ + N G+KSL E Sbjct: 252 EAEVATKKVAMATPIDELELTMRSFNCLKQNGINTITELAEMTRAEAENIKNLGKKSLNE 311 Query: 306 IKGVLGTMGLFL 317 I L GL Sbjct: 312 IIAKLAEKGLKF 323 >gi|309322147|ref|YP_003934062.1| RNA polymerase alpha subunit [Geranium palmatum] gi|197131694|gb|ACH47365.1| RNA polymerase alpha subunit [Geranium palmatum] gi|300069240|gb|ADJ66361.1| RNA polymerase alpha subunit [Geranium palmatum] Length = 329 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 70/305 (22%), Positives = 138/305 (45%), Gaps = 12/305 (3%) Query: 17 YIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + + + I PL +G A +G A+RR L+ + G IT + D + HE Sbjct: 15 WKCVESRADGKRLYYGRFILSPLKKGQADIIGIAMRRALLGEIEGTCITHAKFDKIPHEY 74 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 +++ G+ E + +I++N+K I L+ + +I RGP VTA DI +++ Sbjct: 75 TTLVGIQESIYEILMNLKEIVLRSHLYGTRDASICVRGPRDVTAQDIILPTSATIVDNTQ 134 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I + + L + + GY T ID+++ P+K V++++ S Sbjct: 135 HIVTITEPIDFCVGLQIERNRGYFIQIPMLTNLHDDRGYPIDSVFMPVKNVNHSIHSYEN 194 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 G + L + I T+GS+T ++++ ASR L + F++ EE + + N + Sbjct: 195 G---IHAMLFLEIWTNGSLTPKEALREASRKLSNLFIPFLHAEEQNFHFENNQNEHTDEL 251 Query: 253 NPALLKKVEE-----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + +EL R NCL+ I + DL+ + D++++ +F ++ + ++ Sbjct: 252 PIDFCALKDIYIDQLVELPARFYNCLKISGIHTVMDLLNKNTEDLMKITHFRQQDIEKVM 311 Query: 308 GVLGT 312 +L Sbjct: 312 HILNN 316 >gi|254779835|ref|YP_003057941.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori B38] gi|254001747|emb|CAX29978.1| DNA-directed RNA polymerase alpha chain (RNAP alpha subunit) (Transcriptase alpha chain) (RNA polymerase alpha subunit) [Helicobacter pylori B38] Length = 344 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSD 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSSEQRESLKKRLEKLEDK 340 >gi|330850661|ref|YP_004376542.1| RNA polymerase alpha subunit [Ptilidium pulcherrimum] gi|302024790|gb|ADK89636.1| RNA polymerase alpha subunit [Ptilidium pulcherrimum] Length = 336 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 88/322 (27%), Positives = 154/322 (47%), Gaps = 24/322 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + P +G A+T+G A+RR L++ + GA+IT V+I V HE S+I G+ Sbjct: 21 RMESKRLLYGRFAISPFRKGQANTIGIAMRRALLNEIEGASITYVEIKKVKHEYSTITGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I K ++ I GP +TA DI+ + I +++ I L Sbjct: 81 QESIHDILINLKEIVSKSDSYEPQKAYISIYGPKKITARDIKGTSSIRIIDNTQYIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K HGY + + G+ TIDA++ PI+ V+Y+V S G+ Sbjct: 141 EAISLDIELNIEKDHGYRIENLQKYRD---GIFTIDAVFMPIRNVNYSVHSFESGEKT-K 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN------------ 246 + L + I TDGS+T ++++ ASR L D +N E + Sbjct: 197 EILFLEIWTDGSLTPKEALYEASRSLIDLFIPLMNSERKEINSGMKKKNELDIPCFPFRF 256 Query: 247 -----VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + +++LEL R+ NCL+ N+ + D + +E D++++ NFG+K Sbjct: 257 ISLDMEEMTKDIAFKHIFIDQLELPARAYNCLKRVNVHTIADSLNYSEDDLVKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S+ ++ L ++L Sbjct: 317 SIEQVLEALK---KRFSIDLQK 335 >gi|71056910|emb|CAH59012.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] gi|72534413|emb|CAH59043.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 228 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 105/227 (46%), Positives = 150/227 (66%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 LALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 EPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 227 >gi|71056834|emb|CAH58972.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 227 Score = 248 bits (633), Expect = 1e-63, Method: Composition-based stats. Identities = 105/226 (46%), Positives = 150/226 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 61 ALKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSII 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++++LA++IL + L +F+N + K + + + L Sbjct: 181 AQEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 226 >gi|71056798|emb|CAH58954.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 224 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 103/224 (45%), Positives = 149/224 (66%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LKM GD K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 61 LKMYGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 GYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIEP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 LEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 224 >gi|72534405|emb|CAH59039.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 221 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 104/220 (47%), Positives = 149/220 (67%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 LALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 EPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQ 220 >gi|300431316|gb|ADK12621.1| RNA polymerase alpha subunit [Lorenzochloa erectifolia] Length = 339 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 85/319 (26%), Positives = 143/319 (44%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDITLPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + GY N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIELQIKRDRGYQTELR---NNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F+ + N + P K Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLXXXXXXXXXXXNKNRFTPPLFTFQKK 256 Query: 259 KVE----------------ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +LEL R+ NCL+ I + DL+ +TE ++ + +F Sbjct: 257 LTNLXKNKKGIPXXCIFXXQLELPSRTYNCLKRAXIHTLLDLLSKTEEXLMXIDSFRX-- 314 Query: 303 LVEIKGVLGTMGLFLGMNL 321 K + T+ L ++L Sbjct: 315 -EXGKQIWDTLEKHLPIDL 332 >gi|119668287|emb|CAK95499.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 228 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 101/227 (44%), Positives = 151/227 (66%), Gaps = 4/227 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKI 60 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 LK++G D + + I +GP +TAGDI D+++LNPD I + A M +T Sbjct: 61 ALKLNGSDDQEETMEINVKGPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRMTAD 120 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A R + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+ Sbjct: 121 KGRGYVSADENKTRNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 GSI +++ALA++IL + L MF++ + K + + + Sbjct: 181 GSINPSEAIALAAKILTEHLAMFVDLTDEAKNAEIMVEKEETHKEKM 227 >gi|161513432|emb|CAP16859.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 224 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 100/224 (44%), Positives = 149/224 (66%), Gaps = 2/224 (0%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK Sbjct: 1 ERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GY Sbjct: 61 IESDDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGY 120 Query: 156 VPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 V A R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ Sbjct: 121 VSADENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++ +L+++IL + L +F+N + ++ + + + L Sbjct: 181 SEATSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETNKEKMLE 224 >gi|332144698|dbj|BAK19509.1| RNA polymerase alpha subunit [Lactobacillus sunkii] Length = 235 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 109/235 (46%), Positives = 153/235 (65%), Gaps = 4/235 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IIL Sbjct: 1 GEVVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIIL 60 Query: 88 NIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 N+K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M Sbjct: 61 NVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHM 120 Query: 146 ELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 LT +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ Sbjct: 121 RLTANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTL 180 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 I TDGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 181 DIWTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEM 235 >gi|161513424|emb|CAP16855.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 222 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 100/222 (45%), Positives = 151/222 (68%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL G+A++++QIDGVLHE S+I GV ED+T IILNIK I Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGSAVSSIQIDGVLHEFSTIDGVMEDVTQIILNIKKIA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K + K + I GP VTA DI+ +DIEVLNP+ IC++ V M++TVS G Sbjct: 61 IKNHSEEQKVIEIDVDGPATVTAADIKADDDIEVLNPEQYICSIAEGGHVHMQMTVSNGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVPA ++ + PIG+I +D++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ Sbjct: 121 GYVPADQNKNGDMPIGVIAVDSIFTPINRVNYQVESTRVGKRNDFDKLTLDVWTNGSISP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++LA++IL D L +FI+ + K + + + Sbjct: 181 REAISLAAKILSDHLNIFIDLSDEAKNTEIMVEKEETQKRRN 222 >gi|154149371|ref|YP_001405812.1| DNA-directed RNA polymerase subunit alpha [Campylobacter hominis ATCC BAA-381] gi|166229267|sp|A7HZX1|RPOA_CAMHC RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|153805380|gb|ABS52387.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter hominis ATCC BAA-381] Length = 338 Score = 247 bits (632), Expect = 1e-63, Method: Composition-based stats. Identities = 107/342 (31%), Positives = 177/342 (51%), Gaps = 11/342 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K P IE + EN +IA P G+A TL + LRR+L +S G A T Sbjct: 1 MRKITTSAYMPTEIE---VENVSENVAKIIAYPFETGYAVTLAHPLRRLLYTSTVGYAPT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQ 120 AV+IDGV HE S++G+ ED+ I+N+KGI K+ GD + + GP +T D+ Sbjct: 58 AVKIDGVSHEFDSMRGMLEDVAIFIINLKGIRFKIKGDSKREVIEYNFTGPKEITGKDLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA ++ + + KG GYVP++ R + I +DA ++P+ Sbjct: 118 NDI-VEIVNPDAYLATINEDADLKFSVVIEKGIGYVPSESIR-DYVSSDYIALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 + Y +E+ DY+K+ TI TDG ++ D+ A + Q+ +F + Sbjct: 176 IRAIYDIENVFVEDNPDYEKIIFTITTDGQVSAVDAFKNALEAMYQQMSVFKGIVDIDTG 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + L + +E L LS RS NCL +I ++G+++ E+++ + N G+ Sbjct: 236 -KSFTKQIPSGEHSKLFESIENLNLSARSFNCLEKADIKFVGEIVIMDESELKGIKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLG----MNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G + + + I EL KK +D Sbjct: 295 KSLEEIKSVMEEIGYPIGNEEIKDKKEVLSKKIAELKKKAKD 336 >gi|119662289|emb|CAJ33131.1| RNA polymerase alpha subunit [Lactobacillus casei] Length = 211 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 96/210 (45%), Positives = 146/210 (69%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNIK + LKM+ Sbjct: 1 GYGTTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMN 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 D K + I GP VTA DI T D+EVLNP+ IC + + +TV KG GYV Sbjct: 61 TDEDKNIEIDVNGPAKVTAADIVTDPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVA 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ +++ Sbjct: 121 ADQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAI 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINV 247 +LA++IL + L +F+N + K + + Sbjct: 181 SLAAKILTEHLDIFVNLTDEAKNAEIMVEK 210 >gi|7388088|sp|P92225|RPOA_CRIDE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|1770151|emb|CAB01330.1| alpha subunit of RNA polymerase [Crithopsis delileana] Length = 339 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 87/319 (27%), Positives = 154/319 (48%), Gaps = 23/319 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDTAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGASFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 +++LEL+ R+ NC + + DL+ +TE D+LR+ +F Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCXKRXXXXTLLDLLSKTEEDLLRIDSF---R 313 Query: 303 LVEIKGVLGTMGLFLGMNL 321 + + K + T+ L ++L Sbjct: 314 MEDRKHIWDTLEKHLPIDL 332 >gi|190411113|gb|ACE78311.1| RpoA [Vibrio campbellii] Length = 257 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 110/260 (42%), Positives = 173/260 (66%), Gaps = 8/260 (3%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRV 104 ALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G + Sbjct: 1 ALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---H 160 T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H Sbjct: 61 TLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIH 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A Sbjct: 121 NEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + IL +QL F++ + + +++ + P LL+ V++LEL+VRS NC + E I Y Sbjct: 181 ATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCRKAEAIHY 237 Query: 281 MGDLIQRTEADMLRMANFGR 300 +GDL+QRTE ++L+ N G+ Sbjct: 238 IGDLVQRTEVELLKTPNLGK 257 >gi|150036758|emb|CAM98029.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis KCTC 3528] Length = 228 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 94/222 (42%), Positives = 140/222 (63%), Gaps = 2/222 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 VKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +GSI D+++L ++IL + L +F++ E + + Sbjct: 181 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMVEAEP 222 >gi|108792407|emb|CAJ33136.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 224 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 102/224 (45%), Positives = 150/224 (66%), Gaps = 2/224 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE SSI GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSSIDGVLEDVTTIILNLKKVA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK++ + + + I GP VTAGDIQ +++EVLNPD IC + A +T +KG Sbjct: 61 LKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEVLNPDLYICTVADGASFHARMTANKGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYV A +TE+ PIG++ ID++Y+PI++V+Y VE R GQ D+DKL++ + T+GSI Sbjct: 121 GYVSANENKAKTEDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKSDFDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 T ++++L+++IL + L +F++ + K + + + Sbjct: 181 TPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMVEKEETHKEKM 224 >gi|72534411|emb|CAH59042.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 224 Score = 247 bits (631), Expect = 2e-63, Method: Composition-based stats. Identities = 104/224 (46%), Positives = 149/224 (66%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV Sbjct: 61 LALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 EPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 224 >gi|150036764|emb|CAM98032.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 227 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 94/218 (43%), Positives = 139/218 (63%), Gaps = 2/218 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 VKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +GSI D+++L ++IL + L +F++ E + Sbjct: 181 NGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMV 218 >gi|295809868|emb|CBL85110.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 263 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 112/263 (42%), Positives = 172/263 (65%), Gaps = 8/263 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 238 VELLKTPNLGNKSLTEIKDVLAS 260 >gi|332144694|dbj|BAK19507.1| RNA polymerase alpha subunit [Lactobacillus parafarraginis] Length = 236 Score = 247 bits (630), Expect = 2e-63, Method: Composition-based stats. Identities = 111/236 (47%), Positives = 155/236 (65%), Gaps = 4/236 (1%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 I EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K Sbjct: 1 IVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVK 60 Query: 91 GINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT Sbjct: 61 KISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRLT 120 Query: 149 VSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + Sbjct: 121 ANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 TDGSIT ++V+LA++IL + L MF++ + K + + + L +EE Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEMTIEE 236 >gi|119668291|emb|CAK95501.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 209 Score = 247 bits (630), Expect = 3e-63, Method: Composition-based stats. Identities = 104/209 (49%), Positives = 148/209 (70%), Gaps = 3/209 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN K I Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNTKKI 60 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +LK+ G D + + I +GP VTAGDI +D+ VLNPD I + A M +T + Sbjct: 61 SLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYIATVAEGATFHMRMTAN 120 Query: 151 KGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TD Sbjct: 121 KGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDS 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPK 238 SIT +S++LA++IL + L MF++ + Sbjct: 181 SITPSESISLAAKILTEHLAMFVDLTDEA 209 >gi|15612278|ref|NP_223931.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori J99] gi|7388104|sp|Q9ZJT5|RPOA_HELPJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|4155841|gb|AAD06815.1| RNA POLYMERASE ALPHA SUBUNIT [Helicobacter pylori J99] Length = 344 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSD 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|72534416|emb|CAH59044.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 217 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 104/215 (48%), Positives = 148/215 (68%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 61 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ++++L+++I+ + L +F+N + K + + Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEK 215 >gi|317009976|gb|ADU80556.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori India7] Length = 344 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSTKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|119662313|emb|CAJ33144.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 227 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 106/226 (46%), Positives = 151/226 (66%), Gaps = 4/226 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+ Sbjct: 1 VVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNV 60 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M L Sbjct: 61 KKISLKLDGPEDEDENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRL 120 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T ++G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I Sbjct: 121 TANRGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDI 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 T+GSIT ++V+LA++IL + L MF++ + K + + + Sbjct: 181 WTNGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETH 226 >gi|295137036|ref|YP_003587583.1| RNA polymerase alpha subunit [Pisum sativum] gi|133405|sp|P13911|RPOA_PEA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|12180|emb|CAA33668.1| RNA polymerase alpha subunit (AA 1-334) [Pisum sativum] gi|293338608|gb|ADE43581.1| RNA polymerase alpha subunit [Pisum sativum] Length = 334 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 79/313 (25%), Positives = 152/313 (48%), Gaps = 25/313 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G +RR+L+ + G IT + + + HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLMKGQADTIGITMRRILLGEIEGTCITRAKSEKIPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI + +EV++ I NL Sbjct: 81 QESIHEILMNLKEIVLRSNLYGTREASICFKGPGYVTAQDIILPS-VEVIDNTQHIANLT 139 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY + ++ IDA++ P++ ++++ S G Sbjct: 140 EPINLCIELQIERKRGYRIKTLNNIQDGSYT---IDAVFMPVRNANHSIHSYVNGNQ-KQ 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE + + + +LP Sbjct: 196 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEENLNFENNQHKMTLPLFTFHDH 255 Query: 259 K--------------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 +++LEL R NCL+ NI + +L+ +++ D++++ +F Sbjct: 256 DRFVKDKLRKNQKEITLKSIFIDQLELPPRIYNCLKKSNIHTVLELLNKSQEDLMKIEHF 315 Query: 299 GRKSLVEIKGVLG 311 + L I +L Sbjct: 316 RVEDLKFILNILQ 328 >gi|86149413|ref|ZP_01067644.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni CF93-6] gi|88596039|ref|ZP_01099276.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 84-25] gi|218563184|ref|YP_002344964.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|12230603|sp|Q9PM80|RPOA_CAMJE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|85840195|gb|EAQ57453.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni CF93-6] gi|88190880|gb|EAQ94852.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 84-25] gi|112360891|emb|CAL35692.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|284926790|gb|ADC29142.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni IA3902] gi|315927659|gb|EFV06990.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni DFVF1099] gi|315929466|gb|EFV08663.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 305] Length = 337 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 98/321 (30%), Positives = 168/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ GDS+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKGDSNKEIVEFSFKGSKEIYGKDLNND-QVEVVNKDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ E L K + Sbjct: 313 GTS---KLSDNKEILKNKIAE 330 >gi|86438812|emb|CAJ43371.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 213 Score = 246 bits (629), Expect = 3e-63, Method: Composition-based stats. Identities = 94/213 (44%), Positives = 137/213 (64%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + L Sbjct: 1 LERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLEL 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K D K + + GP VTA D++ D++VLNPD IC + + ME+ V G G Sbjct: 61 KSLSDERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRG 120 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 YV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 121 YVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPN 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 D+++ A++I + +F + + K + + Sbjct: 181 DALSFAAKISVEHFKVFESADADTKFSEVMVEK 213 >gi|108563663|ref|YP_627979.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPAG1] gi|119366688|sp|Q1CRW7|RPOA_HELPH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|107837436|gb|ABF85305.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori HPAG1] Length = 344 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 170/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +G + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGSMELRARDLNSD 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSETTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|218680479|ref|ZP_03528376.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli CIAT 894] Length = 208 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 147/208 (70%), Positives = 178/208 (85%), Gaps = 1/208 (0%) Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 HVIC LD A +RME TV+ G GYVPA+ +R E+ PIGLI +D+LYSP+KKVSY VE+ R Sbjct: 1 HVICTLDEGAEIRMEFTVNNGKGYVPAERNRAEDAPIGLIPVDSLYSPVKKVSYKVENTR 60 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 EGQVLDYDKL+MTI+TDGSITGED+VA A+RILQDQLG+F+NF+EP+KE +E+ V L Sbjct: 61 EGQVLDYDKLNMTIETDGSITGEDAVAFAARILQDQLGVFVNFDEPQKETEEEA-VTELA 119 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 FNPALLKKV+ELELSVRS NCL+ +NIVY+GDLIQ+TEA+MLR NFGRKSL EIK VL Sbjct: 120 FNPALLKKVDELELSVRSANCLKNDNIVYIGDLIQKTEAEMLRTPNFGRKSLNEIKEVLA 179 Query: 312 TMGLFLGMNLPDWPPESIEELAKKYEDK 339 +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 180 SMGLHLGMEVPAWPPENIEDLAKRYEDQ 207 >gi|71056925|emb|CAH59021.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] gi|71056927|emb|CAH59022.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] gi|71056929|emb|CAH59023.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] gi|71056931|emb|CAH59024.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 223 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 104/223 (46%), Positives = 149/223 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +D+E+LN D IC++ A LTV G Sbjct: 61 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 223 >gi|254368646|ref|ZP_04984661.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] gi|157121554|gb|EDO65739.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica FSC022] Length = 323 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 108/324 (33%), Positives = 176/324 (54%), Gaps = 9/324 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N +L NI+ + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKLEFVPNIQLK--EDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASII 58 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQ 120 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV AGD + Sbjct: 59 KVNIANVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVRAGDFK 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +E++N D I L + TVS G TE + +G I +DA ++PI Sbjct: 119 TTQGVEIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 179 KRVAFEVF-----DNGDSETLEVFVKTNGTIGPLAAVTKALEYFCEQISVFVSLRVP-SN 232 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+ Sbjct: 233 GKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGK 292 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL EIK +L L LG+ + ++ Sbjct: 293 KSLNEIKQILIDNNLSLGVQIDNF 316 >gi|317013080|gb|ADU83688.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Lithuania75] Length = 344 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|308062578|gb|ADO04466.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Cuz20] Length = 344 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVNYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|332144666|dbj|BAK19493.1| RNA polymerase alpha subunit [Lactobacillus sp. YIT 12364] Length = 239 Score = 246 bits (628), Expect = 4e-63, Method: Composition-based stats. Identities = 109/239 (45%), Positives = 159/239 (66%), Gaps = 4/239 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR L+SSL GAAIT++QIDGVLHE S+IKGV ED+T IILN+K I Sbjct: 1 EPLERGYGTTLGNSLRRTLLSSLPGAAITSIQIDGVLHEFSTIKGVVEDVTQIILNVKKI 60 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +LK+ G + + + I GP VTA DI +D+ +LNPD I + A M LT + Sbjct: 61 SLKLDGPDEEEENLEIDVIGPTEVTAADIVGGSDVTILNPDLHIATVADGASFHMNLTAN 120 Query: 151 KGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A ++ + PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + ++ Sbjct: 121 KGRGYVSAMENKKRSIDMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWSN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 GSIT ++++LA++IL + L MF+N + K + + + L +EEL+LSV Sbjct: 181 GSITASEAISLAAKILTEHLEMFVNLTDEAKNAEIMVEKEETHKEKMLEMTIEELDLSV 239 >gi|317181015|dbj|BAJ58801.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F32] Length = 344 Score = 246 bits (627), Expect = 4e-63, Method: Composition-based stats. Identities = 102/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ +A + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINENAQLNFSLIICKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L E++++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELNPEQRENLKKRLEKLEDK 340 >gi|162964321|dbj|BAF95589.1| DNA-directed RNA polymerase alpha chain [Physcomitrella patens] gi|162964323|dbj|BAF95590.1| DNA-directed RNA polymerase alpha chain [Physcomitrella patens] Length = 525 Score = 246 bits (627), Expect = 4e-63, Method: Composition-based stats. Identities = 85/321 (26%), Positives = 153/321 (47%), Gaps = 25/321 (7%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID--GVLHEISSIKGV 78 + + P +G A T+GNALRR L+ ++GAAIT G++HE ++ G+ Sbjct: 209 ENDHRHYARFAVSPFRQGQAITVGNALRRALLGEVQGAAITCATFKDMGIVHEYQAVDGI 268 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI+LN++ + + + ++ I GP V AGDI + V +P I + Sbjct: 269 QETVQDILLNVRDVAIGSNTHEPQKAFISVMGPRQVIAGDILCPPSLVVPDPSQNIALVT 328 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +E+ V K GY ++ N G ID+++ P+ + +Y+V S V Sbjct: 329 AAIPFNVEIEVEKDVGYRIVDPGKSTN---GRFYIDSVFMPVVQANYSVHSFEVEDVT-R 384 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQ---------DQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GSI+ E+++ A+R L + + + E+ + Sbjct: 385 EILFLEIYTNGSISPEEALIEAARSLIDLLLPLLESEVIEVTNTTEKENGSRNISMLSSF 444 Query: 250 LPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 L + + K+ +++L+L R+ NCL+ NI + DL+ T+ D++R+ NFG+KS Sbjct: 445 LSSSDQITKEVTYKHVFIDQLKLPARAYNCLKRANIHTVSDLLDYTQDDLMRIKNFGKKS 504 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + E+ L ++LP Sbjct: 505 VEEVLEALRA---QFNISLPK 522 >gi|308185045|ref|YP_003929178.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori SJM180] gi|308060965|gb|ADO02861.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori SJM180] Length = 344 Score = 246 bits (627), Expect = 4e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSHEQRESLKKRLEKLEDK 340 >gi|117575075|emb|CAJ84777.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 225 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 98/225 (43%), Positives = 146/225 (64%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL++SL G+A++ VQIDGVLHE S+I GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRVLLASLPGSAVSYVQIDGVLHEFSTIPGVLEDVTQIILNLKKLT 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK K I GP VTAGD++ +++E+LNP+ I + A +RM + V +G Sbjct: 61 LKSIAADEKLAEIDVEGPATVTAGDLKVDDEVEILNPNQYIATVAEGAHLRMTVAVKQGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVPA +++++ PIG++ +D+L+SPI+KV+Y VE R G+ DYDKL+M + TDGSIT Sbjct: 121 GYVPADQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTRVGRNNDYDKLTMEVWTDGSITP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 D+++ ++IL + L +F+N + + + L Sbjct: 181 NDALSFGAKILTEHLNVFMNTNLETEFTDVMVEKEDTKKEKQLEM 225 >gi|323925214|gb|ADY11800.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 103/240 (42%), Positives = 161/240 (67%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +K Sbjct: 1 VVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 GI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV Sbjct: 61 GIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSIRAVMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL++ I T+G+ Sbjct: 121 KGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLTLEITTNGT 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVASEAETLVVKDEVKTERVLDKIIEEMDFSVRAY 240 >gi|308183403|ref|YP_003927530.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori PeCan4] gi|308065588|gb|ADO07480.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori PeCan4] Length = 344 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 170/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|119662295|emb|CAJ33134.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 212 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 96/212 (45%), Positives = 138/212 (65%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + L Sbjct: 1 LERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLEL 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K D K + + GP VTA D++ D++VLNPD IC + + MEL V G G Sbjct: 61 KSLSDEQKVIELDIEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRG 120 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 YV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI Sbjct: 121 YVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPN 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 D+++ A++IL + +F + + K + + Sbjct: 181 DALSFAAKILVEHFKVFESADANAKFSEVMVE 212 >gi|168026922|ref|XP_001765980.1| predicted protein [Physcomitrella patens subsp. patens] gi|162682886|gb|EDQ69301.1| predicted protein [Physcomitrella patens subsp. patens] Length = 438 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 85/321 (26%), Positives = 153/321 (47%), Gaps = 25/321 (7%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID--GVLHEISSIKGV 78 + + P +G A T+GNALRR L+ ++GAAIT G++HE ++ G+ Sbjct: 122 ENDHRHYARFAVSPFRQGQAITVGNALRRALLGEVQGAAITCATFKDMGIVHEYQAVDGI 181 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI+LN++ + + + ++ I GP V AGDI + V +P I + Sbjct: 182 QETVQDILLNVRDVAIGSNTHEPQKAFISVMGPRQVIAGDILCPPSLVVPDPSQNIALVT 241 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +E+ V K GY ++ N G ID+++ P+ + +Y+V S V Sbjct: 242 AAIPFNVEIEVEKDVGYRIVDPGKSTN---GRFYIDSVFMPVVQANYSVHSFEVEDVT-R 297 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQ---------DQLGMFINFEEPKKEVKEDINVKS 249 + L + I T+GSI+ E+++ A+R L + + + E+ + Sbjct: 298 EILFLEIYTNGSISPEEALIEAARSLIDLLLPLLESEVIEVTNTTEKENGSRNISMLSSF 357 Query: 250 LPFNPALLKK-------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 L + + K+ +++L+L R+ NCL+ NI + DL+ T+ D++R+ NFG+KS Sbjct: 358 LSSSDQITKEVTYKHVFIDQLKLPARAYNCLKRANIHTVSDLLDYTQDDLMRIKNFGKKS 417 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + E+ L ++LP Sbjct: 418 VEEVLEALRA---QFNISLPK 435 >gi|119662303|emb|CAJ33139.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. indicus] Length = 223 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 90/222 (40%), Positives = 138/222 (62%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RGF TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L+ + K + + GP VTA D++ D+EVLNPD IC + + M + V Sbjct: 61 KKLELRAYTEEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYVPA ++T IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+G Sbjct: 121 CNGRGYVPASENKTAEMSIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 SI D++ A+R+L + F + + + + + ++ Sbjct: 181 SIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQENDQ 222 >gi|15645906|ref|NP_208085.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori 26695] gi|2500600|sp|P56001|RPOA_HELPY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|2314459|gb|AAD08336.1| DNA-directed RNA polymerase, alpha subunit (rpoA) [Helicobacter pylori 26695] Length = 344 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 170/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|56707503|ref|YP_169399.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis SCHU S4] gi|89255695|ref|YP_513056.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica LVS] gi|110669974|ref|YP_666531.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis FSC198] gi|115314195|ref|YP_762918.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica OSU18] gi|134302561|ref|YP_001122531.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis WY96-3418] gi|156501643|ref|YP_001427708.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FTNF002-00] gi|167010988|ref|ZP_02275919.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica FSC200] gi|187932118|ref|YP_001892103.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. mediasiatica FSC147] gi|224456566|ref|ZP_03665039.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis MA00-2987] gi|254370808|ref|ZP_04986813.1| hypothetical protein [Francisella tularensis subsp. tularensis FSC033] gi|254874323|ref|ZP_05247033.1| rpoA1, DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis MA00-2987] gi|290953188|ref|ZP_06557809.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica URFT1] gi|295313556|ref|ZP_06804145.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica URFT1] gi|81597921|sp|Q5NHU3|RPOA1_FRATT RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|122325767|sp|Q0BNQ3|RPOA1_FRATO RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|123094540|sp|Q2A5E5|RPOA1_FRATH RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|123359594|sp|Q14J95|RPOA1_FRAT1 RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|158513857|sp|A4IZQ9|RPOA1_FRATW RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|171769926|sp|A7N9U9|RPOA1_FRATF RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|56603995|emb|CAG44983.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis SCHU S4] gi|89143526|emb|CAJ78702.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica LVS] gi|110320307|emb|CAL08366.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis FSC198] gi|115129094|gb|ABI82281.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica OSU18] gi|134050338|gb|ABO47409.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis WY96-3418] gi|151569051|gb|EDN34705.1| hypothetical protein FTBG_00622 [Francisella tularensis subsp. tularensis FSC033] gi|156252246|gb|ABU60752.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica FTNF002-00] gi|187713027|gb|ACD31324.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. mediasiatica FSC147] gi|254840322|gb|EET18758.1| rpoA1, DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis MA00-2987] gi|282158647|gb|ADA78038.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis NE061598] Length = 323 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 108/324 (33%), Positives = 177/324 (54%), Gaps = 9/324 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + N +L NI+ + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKLEFVPNIQLK--EDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASII 58 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQ 120 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD + Sbjct: 59 KVNIANVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVSAGDFK 118 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +E++N D I L + TVS G TE + +G I +DA ++PI Sbjct: 119 TTQGVEIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNPI 178 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 K+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 179 KRVAFEVF-----DNGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-SN 232 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+ Sbjct: 233 GKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGK 292 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDW 324 KSL EIK +L L LG+ + ++ Sbjct: 293 KSLNEIKQILIDNNLSLGVQIDNF 316 >gi|149192395|ref|ZP_01870596.1| DNA-directed RNA polymerase subunit alpha [Vibrio shilonii AK1] gi|148833786|gb|EDL50822.1| DNA-directed RNA polymerase subunit alpha [Vibrio shilonii AK1] Length = 238 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 99/237 (41%), Positives = 150/237 (63%), Gaps = 8/237 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E ++P ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLRPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEISMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 Y P+ K++Y VE+AR Q D DKL + ++T G++ E++V A+ IL +QL F++ Sbjct: 178 YRPVDKIAYAVEAARVEQRTDLDKLVIDMETSGTLEPEEAVRRAATILAEQLDAFVD 234 >gi|119662351|emb|CAJ33164.1| RNA polymerase alpha subunit [Lactobacillus ruminis] Length = 203 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 99/202 (49%), Positives = 145/202 (71%), Gaps = 2/202 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT VQIDGVLHE S++KGV ED+T+IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTVKGVLEDVTEIILNLKKVA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK++ + + + GP VTAGDI T +D+E+LNPD IC + A +T +KG Sbjct: 61 LKLNSEEPQSLEFDIVGPKEVTAGDISTNSDVEILNPDLYICTVADGASFHARMTANKGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GYV A + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSI Sbjct: 121 GYVSANENKAKADDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFIN 233 T ++++L+++IL + L +F+N Sbjct: 181 TPSEAISLSAKILTEHLALFVN 202 >gi|57238608|ref|YP_179739.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni RM1221] gi|86152271|ref|ZP_01070482.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 260.94] gi|86152503|ref|ZP_01070708.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni HB93-13] gi|121612721|ref|YP_001001238.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni subsp. jejuni 81-176] gi|157415815|ref|YP_001483071.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni subsp. jejuni 81116] gi|167006131|ref|ZP_02271889.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 81-176] gi|205355609|ref|ZP_03222379.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni CG8421] gi|315125003|ref|YP_004067007.1| DNA-directed RNA polymerase alpha subunit [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|73621841|sp|Q5HSJ6|RPOA_CAMJR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|158513890|sp|A1W1J7|RPOA_CAMJJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|172047194|sp|A8FNQ7|RPOA_CAMJ8 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|57167412|gb|AAW36191.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni RM1221] gi|85840760|gb|EAQ58011.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 260.94] gi|85843388|gb|EAQ60598.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni HB93-13] gi|87249974|gb|EAQ72933.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 81-176] gi|157386779|gb|ABV53094.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 81116] gi|205346386|gb|EDZ33019.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni CG8421] gi|307748452|gb|ADN91722.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni subsp. jejuni M1] gi|315018725|gb|ADT66818.1| DNA-directed RNA polymerase alpha subunit [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|315059046|gb|ADT73375.1| DNA-directed RNA polymerase alpha subunit [Campylobacter jejuni subsp. jejuni S3] gi|315931274|gb|EFV10244.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. jejuni 327] Length = 337 Score = 246 bits (627), Expect = 5e-63, Method: Composition-based stats. Identities = 97/321 (30%), Positives = 168/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ G+S+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNND-QVEVVNKDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ E L K + Sbjct: 313 GTS---KLSDNKEILKNKIAE 330 >gi|295809862|emb|CBL85107.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 260 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 112/263 (42%), Positives = 172/263 (65%), Gaps = 8/263 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 238 VELLKTPNLGNKSLTEIKDVLAS 260 >gi|71056953|emb|CAH59037.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 14595] Length = 224 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 104/224 (46%), Positives = 149/224 (66%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + I GP VTAGDI +D+E+LN D IC + A LTV G Sbjct: 61 LKLFAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYV A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 GYVQADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIA 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 +++++LA++IL + L +F+N + K + + + L Sbjct: 181 QEALSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 224 >gi|307637964|gb|ADN80414.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 908] gi|325996569|gb|ADZ51974.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 2018] gi|325998159|gb|ADZ50367.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 2017] Length = 344 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 169/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMEIRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|71056902|emb|CAH59008.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 224 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 103/224 (45%), Positives = 149/224 (66%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV Sbjct: 61 LALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKP 120 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 GRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++++L+++I+ + L +F+N + K + + + Sbjct: 181 EPLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 224 >gi|261838612|gb|ACX98378.1| alpha subunit of the DNA-dependent RNA polymerase core enzyme [Helicobacter pylori 51] Length = 344 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 102/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFKGPMEIRARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG G+VP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGHVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|283956979|ref|ZP_06374451.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni 1336] gi|283791480|gb|EFC30277.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni 1336] Length = 337 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 97/321 (30%), Positives = 168/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ G+S+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNND-QVEVVNKDTYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ E L K + Sbjct: 313 GTS---KLSDNKEILKNKIAE 330 >gi|71056874|emb|CAH58992.1| DNA-directed RNA polymerase alpha chain [Enterococcus ratti] Length = 227 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 150/226 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV G Sbjct: 61 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 226 >gi|153951055|ref|YP_001398875.1| DNA-directed RNA polymerase subunit alpha [Campylobacter jejuni subsp. doylei 269.97] gi|171769458|sp|A7H5U5|RPOA_CAMJD RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|152938501|gb|ABS43242.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter jejuni subsp. doylei 269.97] Length = 337 Score = 245 bits (626), Expect = 6e-63, Method: Composition-based stats. Identities = 96/321 (29%), Positives = 165/321 (51%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTVGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKSDSNKEIVEFSFKGSKEIYGKDLNND-QVEVVNKDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + L V KG GY+P++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELEFTLIVEKGIGYIPSEEIKEFLNDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ +G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMENIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ E L K + Sbjct: 313 GTS---KLSDNKEILKNKIAE 330 >gi|332144692|dbj|BAK19506.1| RNA polymerase alpha subunit [Lactobacillus otakiensis] Length = 233 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 109/232 (46%), Positives = 151/232 (65%), Gaps = 4/232 (1%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K Sbjct: 1 VVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVK 60 Query: 91 GINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 I+LK+ G D + + I GP VTAGDIQ D+ VLNPD I + A M LT Sbjct: 61 KISLKLDGPEDEEENLEIDVIGPADVTAGDIQADGDVTVLNPDLHIATVAEGATFHMRLT 120 Query: 149 VSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I Sbjct: 121 ANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 TDGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 181 TDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEM 232 >gi|148925739|ref|ZP_01809427.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni CG8486] gi|145845749|gb|EDK22840.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni CG8486] Length = 342 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 95/320 (29%), Positives = 168/320 (52%), Gaps = 3/320 (0%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ G+S+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKGESNKEIVEFSFKGSKEIYGKDLNND-QVEVVNKDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA ++ L V KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDAELKFTLIVEKGIGYVPSEEIKELINDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSVIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYE 337 G + E ++ ++ + Sbjct: 313 GTSKLSDNKEILKNKNRRIK 332 >gi|71056846|emb|CAH58978.1| DNA-directed RNA polymerase alpha chain [Enterococcus moraviensis] Length = 225 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 103/225 (45%), Positives = 152/225 (67%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + I GP VTAGDI +D+E+LN D +IC++ A LTV G Sbjct: 61 LKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLIICSVSEGATFHARLTVKPGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI Sbjct: 121 GYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++++LA++I+ + L +F+N + K + + + L Sbjct: 181 QEALSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 225 >gi|332144696|dbj|BAK19508.1| RNA polymerase alpha subunit [Lactobacillus rapi] Length = 230 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 107/230 (46%), Positives = 152/230 (66%), Gaps = 4/230 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 ++ EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+ Sbjct: 1 VVVEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNV 60 Query: 90 KGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 K I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M L Sbjct: 61 KKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVADGATFHMRL 120 Query: 148 TVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 T +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + Sbjct: 121 TANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDV 180 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 TDGSIT ++V+LA++IL + L MF++ + K + + + Sbjct: 181 WTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKM 230 >gi|71056904|emb|CAH59009.1| DNA-directed RNA polymerase alpha chain [Enterococcus durans] Length = 226 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 150/226 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV G Sbjct: 61 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 226 >gi|118496877|ref|YP_897927.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. novicida U112] gi|194324099|ref|ZP_03057873.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. novicida FTE] gi|254372234|ref|ZP_04987725.1| hypothetical protein FTCG_01300 [Francisella tularensis subsp. novicida GA99-3549] gi|158512418|sp|A0Q4K8|RPOA1_FRATN RecName: Full=DNA-directed RNA polymerase subunit alpha 1; Short=RNAP subunit alpha 1; AltName: Full=RNA polymerase subunit alpha 1; AltName: Full=Transcriptase subunit alpha 1 gi|118422783|gb|ABK89173.1| DNA-directed RNA polymerase, alpha subunit [Francisella novicida U112] gi|151569963|gb|EDN35617.1| hypothetical protein FTCG_01300 [Francisella novicida GA99-3549] gi|194321546|gb|EDX19030.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. novicida FTE] gi|328676346|gb|AEB27216.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida Fx1] Length = 323 Score = 245 bits (626), Expect = 7e-63, Method: Composition-based stats. Identities = 108/325 (33%), Positives = 177/325 (54%), Gaps = 10/325 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M N ++ PN + + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKQEFVPN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASI 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI 119 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD Sbjct: 58 IKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTAIDRLDLELSVNKSGVVSAGDF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +T +E++N D I L + TVS G TE + +G I +DA ++P Sbjct: 118 KTTQGVEIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 178 IKRVAFEVF-----DNGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-S 231 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G Sbjct: 232 NGKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLG 291 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL EIK +L L LG+ + ++ Sbjct: 292 KKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|69215820|gb|AAZ03866.1| RNA polymerase alpha chain [Ginkgo biloba] Length = 337 Score = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 81/321 (25%), Positives = 142/321 (44%), Gaps = 23/321 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + PL +G A+T+G A+RR L+ + G IT + + + HE S+I G+ Sbjct: 21 RVNGKRLHYGRFALSPLQKGQANTIGIAMRRALLGEVEGTCITHAKFENMTHEYSAIMGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI +N++GI L+ + +I+ GP VTA DI + +++ I +L Sbjct: 81 EESVHDISINLRGIVLQSDPYGIREASIYSVGPRDVTAQDIILPPSVRIIDTTQHIASLK 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + K GY N G+ + DA+ P++ +Y++ S G + Sbjct: 141 ESITSDIRSQIGKDRGYRI---QSPNNSRDGIFSTDAVSMPVRNANYSIHSYGNGNEM-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED-------------- 244 + L I T+GS+ +++ ASR L D F+ EE + ++ Sbjct: 197 EILFSEIWTNGSLAPGEALYEASRNLIDLFIPFMRAEEQNIDGIDNWNGYNMSLFPFSHI 256 Query: 245 --INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 K +++ EL R NCL+ NI + DL+ + D R+ NFG +S Sbjct: 257 STDTEKMEEEIAFKHIFIDQSELPPRVYNCLKRVNIHTLSDLLNYSRDDPTRIENFGNQS 316 Query: 303 LVEIKGVLGTMGLFLGMNLPD 323 + +I VL ++LP Sbjct: 317 VEQILEVL---QKRFAIDLPK 334 >gi|208780325|ref|ZP_03247666.1| DNA-directed RNA polymerase, alpha subunit [Francisella novicida FTG] gi|208743693|gb|EDZ89996.1| DNA-directed RNA polymerase, alpha subunit [Francisella novicida FTG] Length = 323 Score = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 108/325 (33%), Positives = 177/325 (54%), Gaps = 10/325 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M N ++ PN + + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKQEFVPN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASI 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI 119 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD Sbjct: 58 IKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDAGIDRLDLELSVNKSGVVSAGDF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +T +E++N D I L + TVS G TE + +G I +DA ++P Sbjct: 118 KTTQGVEIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 178 IKRVAFEVF-----DNGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-S 231 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G Sbjct: 232 NGKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLG 291 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL EIK +L L LG+ + ++ Sbjct: 292 KKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|254373716|ref|ZP_04989199.1| DNA-directed RNA polymerase [Francisella novicida GA99-3548] gi|151571437|gb|EDN37091.1| DNA-directed RNA polymerase [Francisella novicida GA99-3548] Length = 323 Score = 245 bits (625), Expect = 8e-63, Method: Composition-based stats. Identities = 108/325 (33%), Positives = 177/325 (54%), Gaps = 10/325 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M N ++ PN + + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKQEFVPN---IQLKEDLGAFSYKVQLSPVEKGMAHILGNSIRRVLLSSLSGASI 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI 119 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD Sbjct: 58 IKVNISNVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDTGIDRLDLELSVNKSGVVSAGDF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +T +E++N D I L + TVS G TE + +G I +DA ++P Sbjct: 118 KTTQGVEIINKDQPIATLTNQRAFSLTATVSVGRNVGILSAIPTELERVGDIAVDADFNP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 178 IKRVAFEVF-----DNGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-S 231 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G Sbjct: 232 NGKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLG 291 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL EIK +L L LG+ + ++ Sbjct: 292 KKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|161511765|emb|CAP16893.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 215 Score = 245 bits (625), Expect = 9e-63, Method: Composition-based stats. Identities = 103/215 (47%), Positives = 141/215 (65%), Gaps = 2/215 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVS 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ D K + I GP VTAGDI D+ VLNPD IC + LT G Sbjct: 61 LKIESDDEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSI Sbjct: 121 GYTSADENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 T ++ +L+++IL + L +F+N + KE + + Sbjct: 181 TPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVE 215 >gi|317014684|gb|ADU82120.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Gambia94/24] Length = 344 Score = 245 bits (625), Expect = 1e-62, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|313683415|ref|YP_004061153.1| DNA-directed RNA polymerase subunit alpha [Sulfuricurvum kujiense DSM 16994] gi|313156275|gb|ADR34953.1| DNA-directed RNA polymerase subunit alpha [Sulfuricurvum kujiense DSM 16994] Length = 330 Score = 245 bits (625), Expect = 1e-62, Method: Composition-based stats. Identities = 96/329 (29%), Positives = 170/329 (51%), Gaps = 7/329 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P + V+ Q N +IA P GFA +L + +RR L+SS G A ++I+G HE Sbjct: 8 PLLPKEFVVEQISANEANIIAYPFETGFAVSLAHPIRRFLLSSSVGFAPIGIKIEGAKHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++G+ ED++D I+N+KGI K+ K +T GP + D+ D+EV+ P Sbjct: 68 FDSVRGMLEDISDFIINLKGIRFKLKNGLKEKEITYSFAGPCEIHGSDLDND-DVEVVTP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + L+ DA + + + +G GY P++ R + G I +DA ++P+++ +Y +E+ Sbjct: 127 NAFLATLNEDATLNFSVKIHQGIGYAPSEDVR-DILGDGYIALDAYFTPVRRATYAIENV 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +++K+ + I TDG I+ D+ A ++ Q+ +F + K + + Sbjct: 186 LVEDNPNFEKVVINIATDGQISPVDAFKNALEVMYAQMAVFNSEVSIKAPAAAERGDEHP 245 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + +E+L LS RS NCL NI Y+G+++ ++ D+ + N G+KS EI + Sbjct: 246 ELKRLGAR-IEDLGLSARSFNCLDRSNIKYIGEIVMMSQNDLKEVKNLGKKSFEEILEKI 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYEDK 339 G +G +L D + I + KK E + Sbjct: 305 TEYGYTVGQDLAD---DLISAIKKKIEAE 330 >gi|323925172|gb|ADY11786.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925175|gb|ADY11787.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925178|gb|ADY11788.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925181|gb|ADY11789.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925184|gb|ADY11790.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925190|gb|ADY11792.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925193|gb|ADY11793.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925199|gb|ADY11795.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925202|gb|ADY11796.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925208|gb|ADY11798.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925211|gb|ADY11799.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925217|gb|ADY11801.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925220|gb|ADY11802.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925223|gb|ADY11803.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|323925226|gb|ADY11804.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 103/240 (42%), Positives = 161/240 (67%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +K Sbjct: 1 VVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 GI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV Sbjct: 61 GIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL++ I T+G+ Sbjct: 121 KGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLTLEITTNGT 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRAY 240 >gi|332144688|dbj|BAK19504.1| RNA polymerase alpha subunit [Lactobacillus farraginis] Length = 218 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 105/218 (48%), Positives = 148/218 (67%), Gaps = 4/218 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I Sbjct: 1 EPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKI 60 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT + Sbjct: 61 SLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRLTAN 120 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GYV A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + T+ Sbjct: 121 RGRGYVSAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 GSIT ++V+LA++IL + L MF++ + K + + Sbjct: 181 GSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVE 218 >gi|296272962|ref|YP_003655593.1| DNA-directed RNA polymerase subunit alpha [Arcobacter nitrofigilis DSM 7299] gi|296097136|gb|ADG93086.1| DNA-directed RNA polymerase, alpha subunit [Arcobacter nitrofigilis DSM 7299] Length = 332 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 93/329 (28%), Positives = 167/329 (50%), Gaps = 9/329 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + + E + A P GFA TL + LRR+L+SS G + AV+I+G H Sbjct: 7 TPFLPTEVEIEAISETEAKISAYPFESGFAITLAHPLRRLLLSSSVGYSPIAVKIEGASH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED+ I+N+K I K+ D ++ V GP + D+ +D+E+++ Sbjct: 67 EFDSLRGMLEDIAIFIINLKNIKFKILSDENQVEVEYSFNGPKEIKGSDLV-NSDVEIVS 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + ++ D + + + KG GY+P++ R + I +DA ++P+KKV Y +E Sbjct: 126 PEAHLATINADCNLTFSVIIQKGIGYMPSEDIR-DMVSSDYIPLDAFFTPVKKVVYDIEK 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++K T+ T+G IT ++ A ++ Q+ +F + EV + + Sbjct: 185 MLVEDNPNFEKAVFTVQTNGQITPINAFKEAVSVMYSQMSVFNKVFDL-SEVTVSDSTEE 243 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L+ K+++L LS RS N L + Y+G+L+ +E ++ + N G+KS EI Sbjct: 244 PVELKDLIVKIDDLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIADK 303 Query: 310 LGTMGLFLGMNLPDWPPESIEE-LAKKYE 337 L ++G + + PE+I L +K E Sbjct: 304 LASLGFP----VENTLPENIASALRRKLE 328 >gi|323925169|gb|ADY11785.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|323925196|gb|ADY11794.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 240 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 103/240 (42%), Positives = 161/240 (67%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +K Sbjct: 1 VVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 GI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV Sbjct: 61 GIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL++ I T+G+ Sbjct: 121 KGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLTLEITTNGT 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRTY 240 >gi|119668343|emb|CAK95510.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 214 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 95/213 (44%), Positives = 145/213 (68%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNT 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A Sbjct: 61 DEDKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++ Sbjct: 121 DQNKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAIS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 LA++IL + L +F+N + K + + + Sbjct: 181 LAAKILTEHLDIFVNLTDEAKNAEIMVEKEETH 213 >gi|328675432|gb|AEB28107.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 323 Score = 244 bits (624), Expect = 1e-62, Method: Composition-based stats. Identities = 108/325 (33%), Positives = 177/325 (54%), Gaps = 10/325 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M N ++ PN + + P+ +G AH LGN++RRVL+SSL GA+I Sbjct: 1 MSNNNSKQEFVPN---IQLKEDLGAFSYKVELSPVEKGMAHILGNSIRRVLLSSLSGASI 57 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDI 119 V I VLHE S+++ V ED+ +I+ N+K + +K+ + + + GVV+AGD Sbjct: 58 IKVNIANVLHEYSTLEDVKEDVVEIVSNLKKVAIKLDKGIDRLDLELSVNKSGVVSAGDF 117 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +T +E++N D I L + TVS G TE + +G I +DA ++P Sbjct: 118 KTTQGVEIINKDQPIATLTNQRAFNLTATVSIGRNVGILSAIPTELERVGDIAVDADFNP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IK+V++ V D + L + + T+G+I +V A +Q+ +F++ P Sbjct: 178 IKRVAFEVF-----DNGDSETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-S 231 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G Sbjct: 232 NGKTGDVLIDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLG 291 Query: 300 RKSLVEIKGVLGTMGLFLGMNLPDW 324 +KSL EIK +L L LG+ + ++ Sbjct: 292 KKSLNEIKQILIDNNLSLGVQIDNF 316 >gi|237751462|ref|ZP_04581942.1| DNA-directed RNA polymerase subunit alpha [Helicobacter bilis ATCC 43879] gi|229372828|gb|EEO23219.1| DNA-directed RNA polymerase subunit alpha [Helicobacter bilis ATCC 43879] Length = 337 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 90/334 (26%), Positives = 167/334 (50%), Gaps = 7/334 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 ++P E + + + N + A P +A T+ + +RR+L+SS G A ++I+GV Sbjct: 6 VRPYIPEKLEIEEIAPNHIRLHAYPFEPHYAVTIAHPVRRLLLSSSVGYAPIGIKIEGVR 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR----VTIFKRGPGVVTAGDIQTVNDI 125 HE +++GV ED+ I+NIK + K++ D + + GP + G+ + +I Sbjct: 66 HEFDTVRGVAEDVAPFIVNIKNLKFKVNEDMQQHEKFELHYEFNGPMELR-GEHLSNENI 124 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 VL+ D + N++ DA ++ + + KG G+V ++ R E I +DA ++P+K+ Y Sbjct: 125 TVLSTDSHLANINSDAKLKFSILIHKGLGFVASETIREEI-GSEYIPLDADFTPVKRAVY 183 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +E+ +++K+ ++T+G I ++ A I+ Q+ +F E Sbjct: 184 DIENVLHESNPNFEKIVFEVETNGQIEPMEAFKEAVAIMHSQMSVF-GAELSDVPTSNGR 242 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 P LL VE L L R +NCL+ NI Y+G+L+ E+D+ + N G++S E Sbjct: 243 LNDDSPELKVLLSSVEILNLEHRPSNCLQKSNIKYIGELVLMNESDLKNIKNLGKRSFDE 302 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 I L +G +G +LP ++ + K + + Sbjct: 303 ITAKLNEVGYAVGADLPHELATTLSKRLAKLKGQ 336 >gi|317178416|dbj|BAJ56204.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F30] Length = 344 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 103/335 (30%), Positives = 168/335 (50%), Gaps = 16/335 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKSVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 EI L +G +G L PE E L K+ E Sbjct: 304 YDEIAEKLNDLGYPVGTEL---NPEQRESLKKRLE 335 >gi|217033612|ref|ZP_03439040.1| hypothetical protein HP9810_899g48 [Helicobacter pylori 98-10] gi|216943958|gb|EEC23392.1| hypothetical protein HP9810_899g48 [Helicobacter pylori 98-10] Length = 344 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALIGQDSSLENQSVVVDYSFKGPMELKARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMGKQLGVF--GERPITNTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSSEQRESLKKRLEKLEDK 340 >gi|71056943|emb|CAH59030.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] Length = 225 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 104/225 (46%), Positives = 150/225 (66%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LKM G K + I GP VTAGDI +++E+LN D IC++ A LTV G Sbjct: 61 ALKMYGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI Sbjct: 121 RGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 ++++L+++I+ + L +F+N + K + + + L Sbjct: 181 PLEAMSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 225 >gi|241667362|ref|ZP_04754940.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254875912|ref|ZP_05248622.1| DNA-directed RNA polymerase alpha subunit [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|158523432|gb|ABW70830.1| DNA-directed RNA polymerase alpha subunit 1 [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254841933|gb|EET20347.1| DNA-directed RNA polymerase alpha subunit [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 323 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 105/305 (34%), Positives = 173/305 (56%), Gaps = 7/305 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V E Sbjct: 18 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKE 77 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I L Sbjct: 78 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTN 137 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G TE + +G I +D+ ++PIK+V++ + + Sbjct: 138 ERKFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF-----DNGTNE 192 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A +Q+ +F++ P K + +P LLK Sbjct: 193 TLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILLKP 251 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L LG+ Sbjct: 252 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSLGV 311 Query: 320 NLPDW 324 + ++ Sbjct: 312 QIDNF 316 >gi|51859691|gb|AAU11125.1| RNA polymerase alpha subunit [Psathyrostachys caduca] Length = 339 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 83/289 (28%), Positives = 141/289 (48%), Gaps = 20/289 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGSVPHEYSTIAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+++ I NL Sbjct: 81 EESVQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIVDXAQPIANLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 ++L + + GY +N G IDA+ P++ V+Y++ S G + Sbjct: 141 EPIDFCIDLQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE +E+ N + P + Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRFTPPLFTFQKR 256 Query: 259 ----------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 +++LEL+ R+ NCL+ NI + DL+ +TE D Sbjct: 257 LTNLKKNKKGIPLNCIFIDQLELTSRTYNCLKRANIHTLLDLLSKTEED 305 >gi|210135452|ref|YP_002301891.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori P12] gi|210133420|gb|ACJ08411.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori P12] Length = 344 Score = 244 bits (623), Expect = 1e-62, Method: Composition-based stats. Identities = 104/337 (30%), Positives = 170/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKESNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYTQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|150036790|emb|CAM98272.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 93/223 (41%), Positives = 141/223 (63%), Gaps = 2/223 (0%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 ++ EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN Sbjct: 1 RVVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILN 60 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 LKKVVLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVT 120 Query: 149 VSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I Sbjct: 121 AVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIW 180 Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 T+GSI D+++L ++IL + L +F++ E + + Sbjct: 181 TNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEASVMVEAEP 223 >gi|323925205|gb|ADY11797.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 240 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 103/240 (42%), Positives = 161/240 (67%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +K Sbjct: 1 VVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 GI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV Sbjct: 61 GIAIKSYVESEKQIELDVTGPIDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL++ I T+G+ Sbjct: 121 KGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLTLEITTNGT 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL D L +F++ E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFVDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRAY 240 >gi|332144690|dbj|BAK19505.1| RNA polymerase alpha subunit [Lactobacillus kisonensis] Length = 232 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 108/231 (46%), Positives = 151/231 (65%), Gaps = 4/231 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K Sbjct: 1 VEPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKK 60 Query: 92 INLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 I+LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT Sbjct: 61 ISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVADGATFHMRLTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 +KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + T Sbjct: 121 NKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 DGSIT ++V+LA++IL + L MF++ + K + + + L Sbjct: 181 DGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKMLEM 231 >gi|317182539|dbj|BAJ60323.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F57] Length = 344 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPDQRESLKKRLEKLEDK 340 >gi|323925187|gb|ADY11791.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 240 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 103/240 (42%), Positives = 160/240 (66%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +K Sbjct: 1 VVEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 GI +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV Sbjct: 61 GIAIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVK 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 KG+GYVPA ++ + PIG I +D++Y+P+ KV+Y VE AR G YDKL++ I T+G+ Sbjct: 121 KGYGYVPADENKVDGAPIGTIAVDSIYTPVSKVNYQVEPARVGGDSSYDKLTLEITTNGT 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 I +++++L+++IL D L +F + E E + + + L K +EE++ SVR+ Sbjct: 181 IVSDEALSLSAKILTDHLNLFXDLSEVAAEAETLVVKDEVKTERVLDKIIEEMDFSVRAY 240 >gi|157737266|ref|YP_001489949.1| DNA-directed RNA polymerase subunit alpha [Arcobacter butzleri RM4018] gi|315636983|ref|ZP_07892207.1| DNA-directed RNA polymerase subunit alpha [Arcobacter butzleri JV22] gi|172045649|sp|A8ETK6|RPOA_ARCB4 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|157699120|gb|ABV67280.1| DNA-directed RNA polymerase, alpha chain [Arcobacter butzleri RM4018] gi|315478813|gb|EFU69522.1| DNA-directed RNA polymerase subunit alpha [Arcobacter butzleri JV22] Length = 332 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 91/330 (27%), Positives = 166/330 (50%), Gaps = 9/330 (2%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 P + + +N + A P GFA TL + LRR+L+SS G A AV+I+G Sbjct: 6 ETPFLPTEVEIEAISDNEAKISAYPFEDGFAITLAHPLRRLLLSSSVGCAPIAVKIEGAS 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT-IFKRGPGVVTAGDIQTVNDIEVL 128 HE S++G+ ED+ ++N+K I K++GD + V GP + D+ ++++V+ Sbjct: 66 HEFDSLRGMLEDVAIFVINLKNIKFKINGDKEQVVVEYSFNGPRDIKGEDLI-NSEVDVV 124 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + D + ++ D + + + KG GY+P++ R + I IDA ++P+KKV Y +E Sbjct: 125 SKDAHLATINSDCNLTFSVILQKGIGYMPSEDIR-DIVGADYIPIDAFFTPVKKVVYDIE 183 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 +Y+K + T+G I+ + A ++ Q+ +F + EV + + Sbjct: 184 KMLVEDNPNYEKAVFRVQTNGQISPVTAFKEAVSVMYSQMSVFNKVFDL-SEVAVSDSGE 242 Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 L+ ++++L LS RS N L + Y+G+L+ +E ++ + N G+KS EI Sbjct: 243 EPVELKELVIRIDDLNLSARSFNSLDRAGLKYLGELVLMSEVEVKNIKNLGKKSYDEIAE 302 Query: 309 VLGTMGLFLGMNLPDWPPESIEE-LAKKYE 337 L ++G + + PE++ L +K E Sbjct: 303 KLESLGYP----VENTLPENVASALRRKLE 328 >gi|222823139|ref|YP_002574712.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter lari RM2100] gi|222538360|gb|ACM63461.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter lari RM2100] Length = 337 Score = 244 bits (623), Expect = 2e-62, Method: Composition-based stats. Identities = 106/322 (32%), Positives = 164/322 (50%), Gaps = 8/322 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+A TL + LRR+L SS G A T V+I GV HE S++G+ Sbjct: 15 SIENISDTVAKVSAWPFEIGYAITLAHPLRRLLYSSTVGFAPTGVKIKGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ DS K VT +GP + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKLKTDSEKEIVTFSFKGPKEICGKDLDNDV-VEVVNADSYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + DA + L + KG GYVP++ + DP I +DA ++P+K Y +E D Sbjct: 134 NEDADLEFTLIIEKGIGYVPSEEVQNFLDP-EFIALDAFFTPVKHAVYDIEKVLFEDNPD 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ TI TDG I+ D+ A + QL +F + V + + LL Sbjct: 193 YEKVVFTITTDGQISPSDAFKNALEAMYKQLSVFDKITN-AQSVVRSQTQNNEVEHVKLL 251 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + EL L RS NCL N+VY+G+L +++ + N G+KSL EIK V+ ++G + Sbjct: 252 QNITELNLGARSFNCLEKANVVYIGELALMNASELADLKNLGKKSLDEIKSVMESIGFPI 311 Query: 318 G-MNLPDWPPESIEELAKKYED 338 G L D + E L KK + Sbjct: 312 GNSKLSD---SAKETLKKKITE 330 >gi|317178032|dbj|BAJ55821.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori F16] Length = 344 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 102/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L E++++ +K EDK Sbjct: 304 YDEITEKLNDLGYPVGTELNPEQRENLKKRLEKLEDK 340 >gi|208435191|ref|YP_002266857.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori G27] gi|208433120|gb|ACI27991.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori G27] Length = 336 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 103/336 (30%), Positives = 169/336 (50%), Gaps = 16/336 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 EI L +G +G L E E L K+ E+ Sbjct: 304 YDEIAEKLNDLGYPVGTELS---HEQRESLKKRLEN 336 >gi|119668283|emb|CAK95498.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 220 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 94/210 (44%), Positives = 137/210 (65%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 ERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GY Sbjct: 61 SLSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGY 120 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 V A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D Sbjct: 121 VTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPND 180 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDI 245 +++ A++IL + +F + + + + + Sbjct: 181 ALSFAAKILVEHFKVFESADANTQFSEVMV 210 >gi|297380475|gb|ADI35362.1| DNA-directed RNA polymerase, alpha subunit [Helicobacter pylori v225d] Length = 344 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 104/335 (31%), Positives = 168/335 (50%), Gaps = 16/335 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-SS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 127 EYIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLNAKIENMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 EI L +G +G L PE E L K+ E Sbjct: 304 YDEIAEKLNDLGYPVGTEL---NPEQRESLKKRLE 335 >gi|315587182|gb|ADU41563.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori 35A] Length = 344 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 103/335 (30%), Positives = 168/335 (50%), Gaps = 16/335 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E P G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 EI L +G +G L PE E L K+ E Sbjct: 304 YDEIAEKLNDLGYPVGTEL---NPEQRESLKKRLE 335 >gi|152993919|ref|YP_001359640.1| DNA-directed RNA polymerase subunit alpha [Sulfurovum sp. NBC37-1] gi|172048748|sp|A6QCS4|RPOA_SULNB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|151425780|dbj|BAF73283.1| DNA-directed RNA polymerase, alpha subunit [Sulfurovum sp. NBC37-1] Length = 333 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 97/329 (29%), Positives = 157/329 (47%), Gaps = 11/329 (3%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P +E + NR ++A P G+A TL + LRR+++ S G A +V+I+G H Sbjct: 10 MPTEVEVNEI---SANRAEIVAYPFESGYAVTLAHPLRRLILGSSIGYAPISVKIEGAAH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E +I+G+HED+ I+N+K I K+ G + G VTA D+ IEV+N Sbjct: 67 EFDNIRGMHEDVAVFIINLKNIRFKIKDGSDRVELKYSFSGYKEVTAQDLNND-QIEVVN 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 D + L+ DA + + ++KG GYVP++ R E P I +DA ++P++K +Y +E Sbjct: 126 GDLPLATLNEDAELNFTMVIAKGIGYVPSEDLRDEVAPDS-IALDAFFTPVRKANYKIEP 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++K++ I+TD I ++ A ++ QL +F + Sbjct: 185 VLVEDNPNFEKITFDIETDAQIGPVEAFTNALEVMNKQLSVFNGVLDVDISTTLPKRTND 244 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L V+ L LS RS N L I ++G+L+ +E ++ + N G+KSL E Sbjct: 245 DNELKPFLAAVDALGLSARSFNSLDRAGIKFLGELVLMSENEIKNIKNLGKKSLDETNEC 304 Query: 310 LGTMGLFLGMNLPDWPPESI-EELAKKYE 337 L G G E+ L KK E Sbjct: 305 LVEHG--FGPEFE--LKENTRANLVKKLE 329 >gi|150036806|emb|CAM98276.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 242 Score = 244 bits (622), Expect = 2e-62, Method: Composition-based stats. Identities = 102/242 (42%), Positives = 149/242 (61%), Gaps = 2/242 (0%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K Sbjct: 1 VEPLERGYGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + I +GP VTA D+ DIEVLNPD I L + M +T K Sbjct: 61 VVFATDSAEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKSLHMTVTAVK 120 Query: 152 GHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A+ ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+G Sbjct: 121 GRGYSSAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 SI D+++L S+IL + L +F + ++ K + + A +E+L+LSVRS Sbjct: 181 SIKPSDALSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSVRS 240 Query: 270 TN 271 N Sbjct: 241 YN 242 >gi|58761465|gb|AAW82426.1| RNA polymerase alpha subunit [Takakia lepidozioides] Length = 382 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 76/322 (23%), Positives = 142/322 (44%), Gaps = 24/322 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P G A T+G A+RR + + G IT + V HE S+I G+ Sbjct: 21 RVDSARLHYSRFAIPPFRSGQASTVGIAMRRASLGEVEGTCITCAESKRVTHEYSTILGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + D+ +N I L+ ++ I GP VTA DI + +++++ + Sbjct: 81 QESVHDVSINSGEIVLRSDSYETQKAFISILGPKKVTAQDIISPPSVKIIDTTQYTATVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + K GY ++ + G DA++ PI+ +Y+V S G Sbjct: 141 KAIHSDIELKIEKDFGYRIEDPIKSAD---GNSPADAVFMPIRNANYSVHSFENGNET-Q 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP----------KKEVKEDINVK 248 + L + I T+GS+T ++++ ASR L + F++ E+ + + + Sbjct: 197 EILFLEIWTNGSVTPKEALYEASRSLINLFIPFLHAEKKEFIYGLKNTYESNMSYFSSPS 256 Query: 249 SLPFNPALLK-------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + K +++LEL R+ NC + N + D + ++ D++++ NFG+K Sbjct: 257 LSADIDEMTKGVTFKHIFIDQLELPARAYNCPKRVNAHTISDPLNYSQDDLMKIKNFGKK 316 Query: 302 SLVEIKGVLGTMGLFLGMNLPD 323 S ++ VL +NLP Sbjct: 317 S---VEQVLEASQKRFSINLPK 335 >gi|161513426|emb|CAP16856.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 223 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 98/223 (43%), Positives = 147/223 (65%), Gaps = 2/223 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DDEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L+++IL + L +F+N + ++ + + + L Sbjct: 181 TSLSAKILTEHLALFVNLTDEAQDAEIMVEKEETHKEKMLEMS 223 >gi|332144684|dbj|BAK19502.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 216 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 107/216 (49%), Positives = 148/216 (68%), Gaps = 4/216 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+ Sbjct: 1 PLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKIS 60 Query: 94 LKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT +K Sbjct: 61 LKLDGPEDEEENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRLTANK 120 Query: 152 GHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ DYDKL++ + TDG Sbjct: 121 GRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDYDKLTLDVWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 SIT ++V+LA++IL + L MF++ + K + + Sbjct: 181 SITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMV 216 >gi|242910197|ref|YP_002970676.1| RNA polymerase a-subunit [Alsophila spinulosa] gi|218454866|gb|ACK77203.1| RNA polymerase a-subunit [Alsophila spinulosa] Length = 338 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 80/326 (24%), Positives = 143/326 (43%), Gaps = 25/326 (7%) Query: 15 IEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 I++ + + E + + P RG +T+G A+RR L+ + GA+IT + +GV+H Sbjct: 13 IQWKCVESKTESKRLHHGRSVISPFKRGQVNTVGIAMRRALLEEVGGASITCAKFEGVIH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + DI +N+K + + K + GP VTAGD +++++ Sbjct: 73 EYSTITGIQETIHDISVNLKETVPRSDSNDSKEAFLSVTGPKRVTAGDTSLPPSVKIIDD 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 I + V +E + K GY G +DA+ P++ V+Y+V Sbjct: 133 SQYIVTITQPISVNIESRIEKDCGYRI---EEFNGYRDGEFPVDAVPMPVRNVNYSVHPF 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK-- 248 G + + I T+GS T +++ AS+ L D L F++ + ED Sbjct: 190 GSG-REMREISFIEIWTNGSPTPNEALCEASKNLIDLLIPFLHMKHEDVPHFEDEQDSSD 248 Query: 249 ------------SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +++LE R+ NCL+ I + DL+ + D+L++ Sbjct: 249 LTILSSQLIGVGESEGEVLRNTFIDQLESPARAFNCLKRAEIHTITDLLNHSREDLLKIK 308 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLP 322 +FG+KS+ ++ L LP Sbjct: 309 SFGKKSVDQVSRALWER---FATELP 331 >gi|150187102|emb|CAK30171.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 219 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 94/218 (43%), Positives = 147/218 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP +TAGDI T +DIE++NPDH + + ++ +TV Sbjct: 61 KGLAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 121 AKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +I ED++ L++R+L + L +F + E K + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 218 >gi|313183899|ref|YP_004021753.1| RNA polymerase alpha subunit [Equisetum arvense] gi|281371619|gb|ADA63552.1| RNA polymerase alpha subunit [Equisetum arvense] Length = 337 Score = 243 bits (621), Expect = 2e-62, Method: Composition-based stats. Identities = 82/319 (25%), Positives = 154/319 (48%), Gaps = 22/319 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P +G A+T+G A+RR L+ + G +IT+ + G HE S++ G+ Sbjct: 21 RIESKRLHYGRFAISPFQKGQANTVGIAIRRALLGEVGGTSITSAKFQGAAHEYSTMAGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ + ++ I GP + AGDIQ + +++++P I + Sbjct: 81 QESIHDILMNLKEIVLENNSYEVQKGFIQVIGPKKILAGDIQVCSSVKIIDPSQYIATIT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + K GY EN+ IDA++ PI+ +Y+V S ++ + L Y Sbjct: 141 KSISLNIELKIEKDRGYRIKNTDLKENE----FPIDAIFMPIRNANYSVHSFQKNKQL-Y 195 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK---------- 248 + L + I T+GS+T E +++ A+R L D + I+ + E + Sbjct: 196 EILFLEIWTNGSLTPEKAISEATRNLIDLVVPLIHIGDKLTENPINGTSDINFPSVSGTN 255 Query: 249 ----SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 +++LEL R+ N L+ N+ + DL+ TE D+ + + G+KS+ Sbjct: 256 DLNKIAQEVAFKNIFIDQLELPARAYNGLKKVNVHTVSDLLMYTETDLRNIRSLGKKSVE 315 Query: 305 EIKGVLGTMGLFLGMNLPD 323 +I L + + L + Sbjct: 316 QI---LEALQKKFAIKLSE 331 >gi|18860343|ref|NP_569660.1| RNA polymerase alpha subunit [Psilotum nudum] gi|22654078|sp|Q8WHZ1|RPOA_PSINU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|18389496|dbj|BAB84248.1| RNA polymerase alpha subunit [Psilotum nudum] Length = 340 Score = 243 bits (621), Expect = 3e-62, Method: Composition-based stats. Identities = 88/344 (25%), Positives = 167/344 (48%), Gaps = 31/344 (9%) Query: 1 MIQKNWQELIKP-NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSL 55 MIQ E+ P +++ + ++E + P +G A T+G A+RR L+ + Sbjct: 1 MIQ---DEIPIPVQTLQWKCIESKKEGKRLHYGRFAVSPFRKGQASTVGVAMRRALLGEV 57 Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 G +IT + V+HE S++ G+ E + DI++N+K I L+ ++ +I GP VT Sbjct: 58 EGTSITYAKFKNVVHEYSTLVGIKESIHDILINLKEIVLQSDSYETQKASISILGPRDVT 117 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI +++++ I + + +EL + + GY + + G IDA Sbjct: 118 AGDILLPTSVKIIDASQHIATITTAIPLDVELRIERDCGY---RTLNLKESQSGEFFIDA 174 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 L++PI+ +Y++ S E + L + + T+GS+T +++ ASR L D +F+N E Sbjct: 175 LFTPIRNANYSIHSF-ESNNKVREILFLEVWTNGSLTPGAALSEASRDLIDLFIIFLNME 233 Query: 236 EPKKEVKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGENIV 279 + + + + N ++ P+ +++LEL R+ NCL+ + Sbjct: 234 KEESIKEIENNELNIKNFPSTSISVDIDRMAKEVAFKQIFIDQLELPARAYNCLKKMQVH 293 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + DL++ T+ D+ ++ NFG KS+ ++ L + LP Sbjct: 294 TVSDLLKYTQYDLKKVKNFGNKSVEQVVEALQER---FAIQLPK 334 >gi|283953793|ref|ZP_06371324.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni 414] gi|283794834|gb|EFC33572.1| DNA-directed RNA polymerase alpha chain [Campylobacter jejuni subsp. jejuni 414] Length = 337 Score = 243 bits (621), Expect = 3e-62, Method: Composition-based stats. Identities = 96/321 (29%), Positives = 167/321 (52%), Gaps = 6/321 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + A P G+ TL + LRR+L +S G A TA+ IDGV HE S++G+ Sbjct: 15 TIENISDTVAKISAWPFEIGYGITLAHPLRRLLYTSTIGYAPTAIHIDGVAHEFDSMRGM 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+ I+N+K + K+ GDS+K V +G + D+ +EV+N D + + Sbjct: 75 LEDVALFIINLKKLRFKIKGDSNKEIVEFNFKGSKEIYGKDLNND-QVEVVNKDAYLATI 133 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + D ++ L + KG GYVP++ + + I +DA ++P+++ +Y +E D Sbjct: 134 NEDTELKFTLIIEKGIGYVPSEEIKELLNDPKFIALDAFFTPVREATYDIEKVLFEDNPD 193 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 Y+K+ +T+ TDG IT ++ A + QL +F + +K L N LL Sbjct: 194 YEKVVLTVTTDGQITPNEAFQNALEAMYKQLSVFDKITNVRSAIKNQATSNELE-NTKLL 252 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + +L LS RS NCL +VY+G+L + +++ + N G+KSL EIK ++ ++G + Sbjct: 253 QNITDLNLSARSYNCLEKAGVVYIGELALMSVSELAGLKNLGKKSLDEIKNIMESIGFPV 312 Query: 318 GMNLPDWPPESIEELAKKYED 338 G + ++ E L K + Sbjct: 313 GTS---KLSDNKEILKNKIVE 330 >gi|167627502|ref|YP_001678002.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|241668071|ref|ZP_04755649.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254876606|ref|ZP_05249316.1| DNA-directed RNA polymerase alpha subunit [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|158523436|gb|ABW70833.1| DNA-directed RNA polymerase alpha subunit 2 [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|167597503|gb|ABZ87501.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|254842627|gb|EET21041.1| DNA-directed RNA polymerase alpha subunit [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 318 Score = 243 bits (620), Expect = 3e-62, Method: Composition-based stats. Identities = 106/321 (33%), Positives = 179/321 (55%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+V+I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGYALKQTMLYSIHGACVTSVKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVDTGVITFELSGSEEEVFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG GY A+ EN +DA +SP+ Y Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGIGYRQAQ----ENFKNEEFLLDAAFSPVSFCDYE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G+++ E+++ +A+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVSCEEALRIAATKIQNQLRNIVDVEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPLLLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTMIDNWPED 317 >gi|317011493|gb|ADU85240.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori SouthAfrica7] Length = 344 Score = 243 bits (620), Expect = 3e-62, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 169/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP++ R E P G + +D ++PIK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E+P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GEKPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLSDLGYPVGTELSPEQRESLKKRLEKLEDK 340 >gi|119662849|emb|CAJ33217.1| RNA polymerase alpha subunit [Lactobacillus suebicus] Length = 219 Score = 243 bits (620), Expect = 4e-62, Method: Composition-based stats. Identities = 101/219 (46%), Positives = 152/219 (69%), Gaps = 2/219 (0%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K I+LK+ Sbjct: 1 RGYGTTLGNSLRRILLASLPGAAITSIQIDGVLHEFSTVEGVTEDVTQIILNMKKISLKI 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + K + I +GP VTAGDI+ D+EVLNPD I + A + +++T + G GYV Sbjct: 61 DSEEDKALEIDVKGPAAVTAGDIEADGDVEVLNPDLHIATVADGAELHIQMTANTGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R ++ PIG++ ID++Y+PI++V+Y VE+AR GQ DYDKL++ + TDGSIT Sbjct: 121 SADDNKARMDDLPIGVLPIDSIYTPIERVNYNVENARVGQRNDYDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 +S++LA++IL + L MF++ + K + + + Sbjct: 181 ESISLAAKILTEHLSMFVDLTDTAKNAEIMVEKEETHKE 219 >gi|119668289|emb|CAK95500.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 227 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 108/227 (47%), Positives = 150/227 (66%), Gaps = 4/227 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I Sbjct: 1 EPLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKI 60 Query: 93 NLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 +LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT + Sbjct: 61 SLKLDGPEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTAN 120 Query: 151 KGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I TD Sbjct: 121 KGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTD 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 GSIT ++V+LA++IL + L MF++ + K + + + Sbjct: 181 GSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKM 227 >gi|119668285|emb|CAK95451.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 217 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 94/216 (43%), Positives = 138/216 (63%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RGF TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 ERGFGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GY Sbjct: 61 SLSDEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGY 120 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 V A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D Sbjct: 121 VTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPND 180 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +++ A++IL + +F + + + + + + Sbjct: 181 ALSFAAKILVEHFKVFESADANTQFSEVMVEKEDDK 216 >gi|154424845|emb|CAL18525.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 219 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 96/218 (44%), Positives = 147/218 (67%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + +R +TV Sbjct: 61 KGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 121 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +I ED++ L++R+L + L +F + E K + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 218 >gi|157165509|ref|YP_001467695.1| DNA-directed RNA polymerase subunit alpha [Campylobacter concisus 13826] gi|171855074|sp|A7ZFY7|RPOA_CAMC1 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|112800819|gb|EAT98163.1| DNA-directed RNA polymerase, alpha subunit [Campylobacter concisus 13826] Length = 338 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 103/338 (30%), Positives = 172/338 (50%), Gaps = 10/338 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 ++K P IE + EN + A P G+A TL + LRR+L +S G A Sbjct: 1 MRKITTSAYMPTEIEVKSV---SENVANITAYPFEAGYAVTLAHPLRRLLYTSTVGFAPI 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQ 120 V+I GV HE S++G+ ED+ I+N+K I K+ S + + +GP +T D+ Sbjct: 58 GVKIKGVSHEFDSMRGMLEDVAFFIINLKKIRFKLKSGSEREVIEYSFKGPKEITGADLN 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +E++NPD + ++ DA + + + KG GYVP++ R E + + +DA ++P+ Sbjct: 118 NDL-VEIVNPDAYLATINEDAELNFSVIIQKGIGYVPSEEIREEIEDEYI-ALDAFFTPV 175 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KK Y +++ DY+K+ TI TDG + ++ + Q+ +F + Sbjct: 176 KKAVYEIQNVLVEDDPDYEKIVFTITTDGQVGPVEAFKNCLEAMYQQMSVFKGILDIDVS 235 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + S F+ LL VE+L LS RS NCL I ++G+L E ++ + N G+ Sbjct: 236 APVASSSASGEFSK-LLSSVEDLNLSARSFNCLDKAEIRFIGELALMDENELKELKNLGK 294 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 KSL EIK V+ +G +G+++ +S E+L KK + Sbjct: 295 KSLEEIKAVMEEIGYPVGVDV---LKDSKEQLRKKITE 329 >gi|229021749|ref|ZP_04178329.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1272] gi|228739536|gb|EEL89952.1| DNA-directed RNA polymerase subunit alpha [Bacillus cereus AH1272] Length = 233 Score = 242 bits (619), Expect = 4e-62, Method: Composition-based stats. Identities = 91/229 (39%), Positives = 144/229 (62%) Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +K + LK+ + K + I +G G+VTA DI +D+E+LNPD I L +A RM LT Sbjct: 1 MKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEILNPDLHIATLAKNAHFRMRLT 60 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +G GY PA +++E+ PIG+I ID++Y+P+ +V+Y VE R GQV +YDKL++ + TD Sbjct: 61 AKRGRGYTPADANKSEDQPIGVIPIDSIYTPVSRVTYQVEKTRVGQVANYDKLTLDVWTD 120 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 GSI +++++L ++IL + L +F+ + + + + + L +EEL+LSVR Sbjct: 121 GSIGPKEAISLGAKILTEHLNIFVGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVR 180 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S NCL+ I + +L +TE DM+++ N GRKSL E+K L +GL L Sbjct: 181 SYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKHKLEELGLGL 229 >gi|217032047|ref|ZP_03437547.1| hypothetical protein HPB128_16g7 [Helicobacter pylori B128] gi|298735682|ref|YP_003728207.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori B8] gi|216946195|gb|EEC24803.1| hypothetical protein HPB128_16g7 [Helicobacter pylori B128] gi|298354871|emb|CBI65743.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori B8] Length = 344 Score = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 169/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDL-NS 126 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 IE++NP+ + ++ DA + L + KG GYVP+++ R E G + +D ++PIKK Sbjct: 127 EQIEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMSEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSHEQRESLKKRLEKLEDK 340 >gi|307720213|ref|YP_003891353.1| DNA-directed RNA polymerase subunit alpha [Sulfurimonas autotrophica DSM 16294] gi|306978306|gb|ADN08341.1| DNA-directed RNA polymerase subunit alpha [Sulfurimonas autotrophica DSM 16294] Length = 333 Score = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 94/328 (28%), Positives = 168/328 (51%), Gaps = 6/328 (1%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + + Q +N ++A P G+A +L + LRR L+SS G A A++I+G H Sbjct: 7 TPLAPQEFEVEQISDNEANIMAYPFEVGYAISLAHPLRRFLLSSSVGYAPIAIKIEGAKH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED++D ILN+K I K++ D+ + + GP + D+ ++EV+ Sbjct: 67 EFDSVRGMLEDISDFILNLKEIRFKLNNDATQAEINYSFAGPCTIKGADLSND-EVEVVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ D+ + L +++G GYV ++ E I +DA ++P++ +Y +++ Sbjct: 126 PDAPLATLNEDSTLNFTLKIAQGIGYVASEDTAVEVADDDYIALDAYFTPVRSATYKIDN 185 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++++ M I TDG I+ D+ + ++ QL +F N E K V+ Sbjct: 186 VLVEDNPNFERVIMNIKTDGQISPIDAFRNSLEVMYAQLAVF-NSEISIKAPATIERVEE 244 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P L ++ L LS RS NCL +I +G+++ + D+ + N G+KS EI Sbjct: 245 SPDLKKLTTNIDSLGLSARSFNCLDRSSIKLIGEIVLMSTNDLKNVKNLGKKSYDEIVEK 304 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYE 337 + G +G +L D + + L KK E Sbjct: 305 IQEFGFEVGADLAD---DVVTALKKKIE 329 >gi|161513442|emb|CAP16864.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 223 Score = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 99/223 (44%), Positives = 147/223 (65%), Gaps = 2/223 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DDEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 +L+++IL + L +F+N + K+ + + + L Sbjct: 181 TSLSAKILTEHLALFVNLTDEAKDAEIMVEKEETHKEKMLEMS 223 >gi|119668359|emb|CAK95474.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 221 Score = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 99/220 (45%), Positives = 152/220 (69%), Gaps = 2/220 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++ Sbjct: 1 PLERGYGTTLGNSLRRVLIASLPGAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVS 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + + +GP VTA DIQ N++ +LNPD I + A + ++LT KG Sbjct: 61 LKLDSEDQKNLELDVKGPAEVTASDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY+ A R ++ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+ Sbjct: 121 GYLSANDNKARMDDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSL 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 T ++V+L ++IL + L MF++ E + + + + Sbjct: 181 TPTEAVSLGAKILTEHLAMFVDLTETAQNAQVMVEKEETH 220 >gi|188528081|ref|YP_001910768.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Shi470] gi|188144321|gb|ACD48738.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Shi470] Length = 344 Score = 242 bits (618), Expect = 5e-62, Method: Composition-based stats. Identities = 102/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++N + + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNLEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L E++++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRENLKKRLEKLEDK 340 >gi|254458753|ref|ZP_05072177.1| DNA-directed RNA polymerase, alpha subunit [Campylobacterales bacterium GD 1] gi|207084519|gb|EDZ61807.1| DNA-directed RNA polymerase, alpha subunit [Campylobacterales bacterium GD 1] Length = 332 Score = 242 bits (618), Expect = 6e-62, Method: Composition-based stats. Identities = 96/328 (29%), Positives = 173/328 (52%), Gaps = 7/328 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + + Q EN ++A P G+A +L + LRR L+SS G A A++I+G H Sbjct: 7 TPLAPQEFEVEQISENEANIMAYPFETGYAISLAHPLRRFLLSSSVGYAPIAIKIEGAKH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED++D ILN+K I K+ ++ + +++ GP + D+ + ++EV+ Sbjct: 67 EFDSVRGMLEDISDFILNLKEIRFKLKDEASEAKISYSFAGPCTIKGADLNSD-EVEVVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD + L+ D+ + + +++G GYVP++ E G I +DA ++P++ +Y +E+ Sbjct: 126 PDAPLATLNEDSTLNFVIKIAQGIGYVPSEDTHDE-LEDGYIALDAYFTPVRSATYKIEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++++ + I TDG I+ D+ + ++ QL +F N E K V+ Sbjct: 185 VLVEDNPNFERVILNIRTDGQISPLDAFKNSLEVMYAQLAVF-NSEISIKAATTMERVEE 243 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P L+ ++ L LS RS NCL +I +G++ ++ D+ + N G+KS EI Sbjct: 244 NPDLKKLVTHIDSLGLSARSFNCLDRSSIKLVGEIALMSQNDLKNVKNLGKKSYDEIVDK 303 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYE 337 L G +G +L D + + L KK E Sbjct: 304 LLEFGFAVGADLAD---DVVSALKKKIE 328 >gi|308064070|gb|ADO05957.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori Sat464] Length = 344 Score = 242 bits (618), Expect = 6e-62, Method: Composition-based stats. Identities = 102/337 (30%), Positives = 171/337 (50%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKVLVGQDSSLENQSVVVDYSFKGPMELRARDLSSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++N + + ++ DA + L + KG GYVP+++ R E P G + +D ++PIKK Sbjct: 128 H-IEIVNLEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMPEGYMPLDGSFTPIKK 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L E++++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSPEQRENLKKRLEKLEDK 340 >gi|261840008|gb|ACX99773.1| DNA-directed RNA polymerase alpha subunit [Helicobacter pylori 52] Length = 344 Score = 242 bits (618), Expect = 6e-62, Method: Composition-based stats. Identities = 102/335 (30%), Positives = 167/335 (49%), Gaps = 16/335 (4%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ + ++ DA + L + KG GYVP+++ R E G + +D ++PIK Sbjct: 128 H-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELMHEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GERPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 EI L +G +G L PE E L K+ E Sbjct: 304 YDEIAEKLNDLGYPVGTEL---NPEQRESLKKRLE 335 >gi|150036766|emb|CAM98264.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides KCTC 3652] Length = 229 Score = 242 bits (617), Expect = 7e-62, Method: Composition-based stats. Identities = 93/220 (42%), Positives = 139/220 (63%), Gaps = 2/220 (0%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K Sbjct: 1 IEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T K Sbjct: 61 VVLAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVK 120 Query: 152 GHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+G Sbjct: 121 GRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 SI D+++L ++IL + L +F++ E + + Sbjct: 181 SIKPSDALSLGAKILAEHLNLFMDISPVAAEASVMVEAEP 220 >gi|161513422|emb|CAP16854.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 222 Score = 242 bits (617), Expect = 7e-62, Method: Composition-based stats. Identities = 101/222 (45%), Positives = 147/222 (66%), Gaps = 2/222 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE SSI+GV ED+T IILNIK ++LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSSIEGVVEDVTQIILNIKKVSLKIES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DDEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +L+++IL + L +F+N + K+ + + + L Sbjct: 181 TSLSAKILTEHLALFVNLTDEAKDAEIMVEKEETHKEKMLEM 222 >gi|161511727|emb|CAP16874.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 235 Score = 242 bits (617), Expect = 7e-62, Method: Composition-based stats. Identities = 107/235 (45%), Positives = 152/235 (64%), Gaps = 2/235 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI D+ +LNP+ IC + LT G GY A Sbjct: 61 EDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 160 HHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ Sbjct: 121 ENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 +L+++IL + L +F+N + KE + + + L +EEL+LSVRS NC Sbjct: 181 SLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLSVRSYNC 235 >gi|167626782|ref|YP_001677282.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167596783|gb|ABZ86781.1| DNA-directed RNA polymerase, alpha subunit [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 325 Score = 242 bits (617), Expect = 7e-62, Method: Composition-based stats. Identities = 106/307 (34%), Positives = 175/307 (57%), Gaps = 9/307 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V E Sbjct: 18 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKE 77 Query: 81 DLTDIILNIKGINLKMSGDSHK---RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 D+ +I+ N+K + +K+ + K +++ K G VVTAGD +T IE++N D I L Sbjct: 78 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVVVTAGDFKTTQGIEIINKDQPIATL 137 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + + TVS G TE + +G I +D+ ++PIK+V++ + Sbjct: 138 TNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF-----DNGT 192 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + L + + T+G+I +V A +Q+ +F++ P K + +P LL Sbjct: 193 NETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILL 251 Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 K +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L L L Sbjct: 252 KPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQILIDNNLSL 311 Query: 318 GMNLPDW 324 G+ + ++ Sbjct: 312 GVQIDNF 318 >gi|119662301|emb|CAJ33138.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 215 Score = 242 bits (617), Expect = 8e-62, Method: Composition-based stats. Identities = 90/215 (41%), Positives = 137/215 (63%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RGF TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+K + Sbjct: 1 EPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNLKKL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L+ + K + + GP VTA D++ D+EVLNPD IC + + M + V G Sbjct: 61 VLRAYTEEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDVCNG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA ++T+ IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+GSI Sbjct: 121 RGYVPASENKTDEMFIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNGSIA 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 D++ A+R+L + +F + + + + + Sbjct: 181 PNDALNFAARVLVEHFKVFESADAAAEIGEVMVEQ 215 >gi|242620061|ref|YP_003002065.1| DNA-directed RNA polymerase alpha chain [Aureococcus anophagefferens] gi|239997306|gb|ACS36829.1| DNA-directed RNA polymerase alpha chain [Aureococcus anophagefferens] Length = 305 Score = 241 bits (616), Expect = 8e-62, Method: Composition-based stats. Identities = 88/293 (30%), Positives = 149/293 (50%), Gaps = 7/293 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 E + + + L +G T+GN LRRVL++ L G AITAV+I+G+ +E ++I GV E Sbjct: 14 NDLGEQSSRFLLKELTQGQGLTIGNTLRRVLLTELEGTAITAVRINGINNEFATIPGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ +I+LN+K I + +GP +VTA +I + + +LN +H I + Sbjct: 74 DVLEILLNLKQIKFTGLVTEPFFTHVSVQGPQLVTAANISLPDGLSLLNSNHYIAAVAEQ 133 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 +EL + G GY +++D++++P+K V+Y ++ + + + Sbjct: 134 TNFEIELKIESGTGY-NFTDEENRICSGDFLSLDSIFTPVKNVNYQIKDSYKIDEKITEI 192 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I T+GSIT D++ A+ +LQ G + E V L + Sbjct: 193 LDLEIITNGSITPNDALNKAALVLQTLFGSLVIDELQTNPV------LPEQTETELDILI 246 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 EEL+LSVR+ NCL+ NI + DL+Q + ++ + NFG+KS E+ L Sbjct: 247 EELQLSVRAYNCLKRVNIKTIADLVQYSVKELKDIKNFGQKSANEVVEKLQDR 299 >gi|150187156|emb|CAK30183.1| RNA polymerase alpha subunit [Streptococcus halichoeri] Length = 223 Score = 241 bits (616), Expect = 9e-62, Method: Composition-based stats. Identities = 95/218 (43%), Positives = 146/218 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 61 KGLAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 121 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +I ED++ L++R+L + L +F + E K Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKET 218 >gi|194246759|ref|YP_002004398.1| DNA-directed RNA polymerase, alpha chain [Candidatus Phytoplasma mali] gi|193807116|emb|CAP18554.1| DNA-directed RNA polymerase, alpha chain [Candidatus Phytoplasma mali] Length = 331 Score = 241 bits (616), Expect = 1e-61, Method: Composition-based stats. Identities = 106/307 (34%), Positives = 170/307 (55%), Gaps = 9/307 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E+ + I + L + T+GN LRRVL+SSL GA I V+I GV HE S+I GV+ED Sbjct: 17 SEDLSFGRFIIQNLEPSYGVTIGNPLRRVLLSSLPGAGIVYVEIKGVDHEFSTIPGVYED 76 Query: 82 LTDIILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL- 137 + I+LN+K + + + D + + +F G VTA + V I+++NP+ I NL Sbjct: 77 VMSIVLNLKQVVISVDSIDDDFEQEMELFVTGKQKVTASCFEQVEGIKIINPEQEIANLV 136 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 +A ++M + + +G GYV A+ ++ GLI+ID LY+P+ KVSY +E ++ Sbjct: 137 SENASLKMTVLIKRGIGYVSAEENKIYTKKKKGLISIDTLYTPVSKVSYDIEK----KLG 192 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 D ++L++ I T+ S T +D++ AS+IL D N E K ++ K N +L Sbjct: 193 DKEELAIEITTNKSTTAKDALTTASKILFDHFSFLANLNEKKDQISFIYKPKKELPNKSL 252 Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++++LELSVR NCL+ I + DL+ E ++ ++ + GRKS E+K GL Sbjct: 253 ELRIDQLELSVRLFNCLKKSGIEKVSDLVLLKEEEVFKLKSLGRKSFNELKEKFKQHGLE 312 Query: 317 LGMNLPD 323 +L Sbjct: 313 FQNDLEK 319 >gi|291277242|ref|YP_003517014.1| DNA-directed RNA polymerase subunit alpha [Helicobacter mustelae 12198] gi|290964436|emb|CBG40286.1| DNA-directed RNA polymerase alpha chain [Helicobacter mustelae 12198] Length = 336 Score = 241 bits (616), Expect = 1e-61, Method: Composition-based stats. Identities = 89/332 (26%), Positives = 165/332 (49%), Gaps = 8/332 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + + + N+ ++A P G+A TL + LRR+L+SS G A A++I+GV H Sbjct: 7 TPYIPTTVDVEELGPNKVRVMAYPFESGYAVTLAHPLRRLLLSSSVGLAPIALKIEGVAH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 E SI+G+ ED++ I+N+K I + + +GP V++ G + I Sbjct: 67 EFDSIRGIVEDVSPFIVNLKNIRFLGKEGGFLEEEKVELHYSFQGPMVLSGGHLAND-QI 125 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 +++N + + ++ DAV+ + V KG GYVP++ R I +DA ++P++K Y Sbjct: 126 DIVNKEAPLATINEDAVLNFSIIVQKGIGYVPSEDIRGLISE-DYIPLDAYFTPVRKAVY 184 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 +E+ Y+K+ ++TDG + ++ A I+ Q+ +F N + + Sbjct: 185 EIENVLVEDNPTYEKIIFDVETDGQVDPYEAFKQAIAIMYSQMSIF-NADISSISTTQKQ 243 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 ++ LL K++ L L+ R NCL I Y+G+L+ +E+++ + N G+ S E Sbjct: 244 AIEDNFDFKDLLMKIDSLNLNARCFNCLDRIGIRYVGELVLMSESEIKGVKNLGKTSYNE 303 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 I L +G +G L + ++ + K + Sbjct: 304 IVEKLQEIGYPIGTELEEDKKIALTKKISKLK 335 >gi|332144682|dbj|BAK19501.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 226 Score = 241 bits (616), Expect = 1e-61, Method: Composition-based stats. Identities = 107/226 (47%), Positives = 149/226 (65%), Gaps = 4/226 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+ Sbjct: 1 PLERGYGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKIS 60 Query: 94 LKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 LK+ G D + + I GP VTAGDIQ +D+ VLNPD I + A M LT +K Sbjct: 61 LKLDGPEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANK 120 Query: 152 GHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GYV A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I TDG Sbjct: 121 GRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTDG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 SIT ++V+LA++IL + L MF++ + K + + + Sbjct: 181 SITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEKM 226 >gi|72534403|emb|CAH59034.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 13603] Length = 226 Score = 241 bits (616), Expect = 1e-61, Method: Composition-based stats. Identities = 104/226 (46%), Positives = 150/226 (66%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKL 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + K + I GP VTAGDI +D+E+LN D IC + A LTV G GYV Sbjct: 61 FAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPGRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++ Sbjct: 121 QADENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 ++LA++IL + L +F+N + K + + + L +EE Sbjct: 181 LSLAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEMTIEE 226 >gi|72534407|emb|CAH59040.1| DNA-directed RNA polymerase alpha chain [Enterococcus gallinarum] Length = 219 Score = 241 bits (616), Expect = 1e-61, Method: Composition-based stats. Identities = 102/219 (46%), Positives = 147/219 (67%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LKM Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKM 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 GD K + I GP VTAGDI +D+E+LN D ICN+ A LTV G GYV Sbjct: 61 YGDEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICNVSEGASFHARLTVKPGRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI ++ Sbjct: 121 QADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIEPLEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++LA++I+ + L +F+N + K + + + Sbjct: 181 MSLAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 219 >gi|161511771|emb|CAP16896.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 101/229 (44%), Positives = 146/229 (63%), Gaps = 2/229 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++ Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVS 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ D K + I GP VTAGDI D+ +LNP+ IC + LT G Sbjct: 61 LKIESDEDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGR 120 Query: 154 GYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSI Sbjct: 121 GYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 T ++ +L+++IL + L +F+N + KE + + + L + Sbjct: 181 TPSEATSLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTI 229 >gi|121591860|ref|ZP_01679032.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae 2740-80] gi|121546275|gb|EAX56569.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae 2740-80] Length = 248 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 105/250 (42%), Positives = 163/250 (65%), Gaps = 8/250 (3%) Query: 87 LNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVR 144 +N+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L +A + Sbjct: 1 MNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIA 60 Query: 145 MELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M + V +G GYVPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL Sbjct: 61 MRIKVERGRGYVPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKL 120 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V+ Sbjct: 121 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVD 177 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L Sbjct: 178 DLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRL 237 Query: 322 PDWPPESIEE 331 +WPP SI E Sbjct: 238 ENWPPASIAE 247 >gi|119672807|emb|CAK95484.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 196 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 92/196 (46%), Positives = 137/196 (69%), Gaps = 2/196 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + LK+ + K + I +GP VTA DIQ D+ +LN D I + A + +++T Sbjct: 61 KQVALKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTA 120 Query: 150 SKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T Sbjct: 121 DKGRGYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWT 180 Query: 208 DGSITGEDSVALASRI 223 +GS+T ++++LA++I Sbjct: 181 NGSLTPTEAISLAAKI 196 >gi|207721872|ref|YP_002252310.1| dna-directed rna polymerase alpha chain (partial sequence n terminus) protein [Ralstonia solanacearum MolK2] gi|206587039|emb|CAQ17623.1| probable dna-directed rna polymerase alpha chain (partial sequence n terminus) protein [Ralstonia solanacearum MolK2] Length = 230 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 103/231 (44%), Positives = 152/231 (65%), Gaps = 4/231 (1%) Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 +++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V +G GYVP + Sbjct: 1 MSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQGRGYVPGNVRKF 60 Query: 164 ENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ +I +DA ++P+++VSY VESAR Q D DKL M I+T+G I+ E+++ + Sbjct: 61 GDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETNGVISPEEAIRQS 120 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 +RIL DQL +F E + E ++ +P LL+ V++LEL+VRS NCL+ ENI Y Sbjct: 121 ARILVDQLSVFAAL-EGTESAAEAAAARAPQIDPILLRPVDDLELTVRSANCLKAENIYY 179 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 +GDLIQRTE ++L+ N GRKSL EIK VL + GL LGM L +WPP +E+ Sbjct: 180 IGDLIQRTENELLKTPNLGRKSLNEIKEVLASRGLTLGMKLENWPPAGLEK 230 >gi|149179437|ref|ZP_01857991.1| DNA-directed RNA polymerase subunit alpha [Planctomyces maris DSM 8797] gi|148841748|gb|EDL56157.1| DNA-directed RNA polymerase subunit alpha [Planctomyces maris DSM 8797] Length = 208 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 85/207 (41%), Positives = 129/207 (62%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 + +AEP RGF T+ N+LRR+L+SSL G+++T V+I GV HE ++I GV ED+T Sbjct: 2 TSTYGMFVAEPFERGFGATIANSLRRILLSSLEGSSVTRVKIQGVQHEFTTIPGVVEDIT 61 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 +I LN+K + +K S + K + I K GVVT D+ T + +EV+N D VI + D + Sbjct: 62 EICLNLKSLIVKNSSSTSKTLRIEKHERGVVTGADVITDDQVEVINKDLVIATMTDDVPL 121 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 MELT+ G GY PA H + +G+I +DA +SP+ +V Y +E R GQ +YDKL + Sbjct: 122 NMELTIENGRGYSPASEHAQHDSEVGVIPLDATFSPVVRVRYKIEDTRVGQRTNYDKLIL 181 Query: 204 TIDTDGSITGEDSVALASRILQDQLGM 230 I T+G++ + ++ AS+IL+ L Sbjct: 182 EIWTNGTVKPDMALVEASKILRKHLNP 208 >gi|150036812|emb|CAM98039.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 240 Score = 241 bits (615), Expect = 1e-61, Method: Composition-based stats. Identities = 101/240 (42%), Positives = 148/240 (61%), Gaps = 2/240 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 PLERGYGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + I +GP VTA D+ DIEVLNPD I L + M +T KG Sbjct: 61 FATDSAEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKALHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI Sbjct: 121 GYSSAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 D+++L S+IL + L +F + ++ K + + A +E+L+LSVRS N Sbjct: 181 KPSDALSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSVRSYN 240 >gi|71056951|emb|CAH59036.1| DNA-directed RNA polymerase alpha chain [Enterococcus casseliflavus] Length = 219 Score = 241 bits (614), Expect = 1e-61, Method: Composition-based stats. Identities = 100/219 (45%), Positives = 146/219 (66%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LKM Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKM 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 GD K + I GP VTAGDI +D+E+LN D IC + A LTV G GYV Sbjct: 61 YGDEEKTLEIDISGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI ++ Sbjct: 121 QADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIEPLEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++L+++I+ + L +F+N + K + + + Sbjct: 181 MSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 219 >gi|197941213|gb|ACH78326.1| RNA polymerase [Streptococcus equi subsp. zooepidemicus] Length = 226 Score = 241 bits (614), Expect = 1e-61, Method: Composition-based stats. Identities = 94/225 (41%), Positives = 149/225 (66%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRVLLSSLPGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 61 KGLAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIADGYTLKASMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 121 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +I ED++ L++R+L + L +F + + K + + + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKEAEKVNDEK 225 >gi|151416838|emb|CAO78490.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 220 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 93/219 (42%), Positives = 139/219 (63%), Gaps = 2/219 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 1 FVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + + +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 FKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +GSI D+++L S+IL + L +F++ E + Sbjct: 181 NGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANVMVE 219 >gi|109946783|ref|YP_664011.1| DNA-directed RNA polymerase subunit alpha [Helicobacter acinonychis str. Sheeba] gi|123173594|sp|Q17ZB4|RPOA_HELAH RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|109714004|emb|CAJ99012.1| DNA-directed RNA polymerase alpha chain [Helicobacter acinonychis str. Sheeba] Length = 344 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 103/337 (30%), Positives = 172/337 (51%), Gaps = 13/337 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRIKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPVGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMS---------GDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSPLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + IE++NP+ ++ ++ DA + L + KG GYVP++ R E P G + +D ++PIK Sbjct: 128 H-IEIINPEMLLATINEDAQLNFSLIIYKGMGYVPSEITR-ELMPEGYMPLDGSFTPIKN 185 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V Y +E+ +Y+K+ I+TDG I + A +++ QLG+F E+P + Sbjct: 186 VVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSKQLGVF--GEKPIANTE 243 Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + L K+E + LS R NCL I Y+G+L+ +E ++ + N G+KS Sbjct: 244 YSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVLMSEEELKGVKNMGKKS 303 Query: 303 LVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 EI L +G +G L ES+++ +K EDK Sbjct: 304 YDEIAEKLNDLGYPVGTELSLEQRESLKKRLEKLEDK 340 >gi|78776528|ref|YP_392843.1| DNA-directed RNA polymerase subunit alpha [Sulfurimonas denitrificans DSM 1251] gi|119366748|sp|Q30TS3|RPOA_SULDN RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|78497068|gb|ABB43608.1| DNA-directed RNA polymerase, alpha subunit [Sulfurimonas denitrificans DSM 1251] Length = 330 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 94/328 (28%), Positives = 167/328 (50%), Gaps = 7/328 (2%) Query: 11 KPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 P + + Q EN ++A P GFA +L + LRR L+SS G A A++I+G H Sbjct: 7 TPLAPQEFEVEQISENEANIMAYPFETGFAISLAHPLRRFLLSSSVGYAPIAIKIEGAKH 66 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E S++G+ ED++D ILN+K K+ G + + + GP + ++ + +++E++ Sbjct: 67 EFDSVRGMLEDISDFILNLKETRFKLLGGATEAEINYNFTGPCDIKGSNL-SNSEVEIVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + L+ D+ + + +++G GYV ++ E G I +DA ++P++ +Y +E+ Sbjct: 126 PNTHLATLNEDSTLNFSIRIAQGIGYVASEDTYDE-LQDGYIALDAYFTPVRSATYKIEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++++ + I TDG IT D+ + ++ QL +F N E K + Sbjct: 185 VLVEDNPNFERVILNIKTDGQITPLDAFRNSLEVMYAQLAVF-NSEISVKAPATIERAEE 243 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P L ++ L LS RS NCL NI +G++ + D+ + N G+KS EI Sbjct: 244 SPDLKKLTAHIDSLGLSARSFNCLDRSNIKLIGEIALMSTNDLKNVKNLGKKSYDEIVEK 303 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYE 337 L G +G +L D + + L KK E Sbjct: 304 LQEFGYEVGGDLAD---DVVSALKKKIE 328 >gi|207721898|ref|YP_002252336.1| dna-directed rna polymerase alpha chain (partial sequence c terminus) protein [Ralstonia solanacearum MolK2] gi|206587066|emb|CAQ17650.1| probable dna-directed rna polymerase alpha chain (partial sequence c terminus) protein [Ralstonia solanacearum MolK2] Length = 215 Score = 241 bits (614), Expect = 2e-61, Method: Composition-based stats. Identities = 93/214 (43%), Positives = 138/214 (64%), Gaps = 3/214 (1%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EP RG+ HTLGNALRRVL+SS+ G A T V I GV+HE S+I GV ED+ +++LN+KG Sbjct: 1 MEPFERGYGHTLGNALRRVLLSSMVGYAPTEVTIAGVVHEYSTIDGVQEDVVNLLLNLKG 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + K+ V++ K G GVVTA DI+ +D+E++NP HVI +L + M++ V + Sbjct: 61 VVFKLHNRDEVTVSLRKEGEGVVTAADIELPHDVEIINPGHVIASLSAGGKLDMQIKVEQ 120 Query: 152 GHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 G GYVP + ++ +I +DA ++P+++VSY VESAR Q D DKL M I+T+ Sbjct: 121 GRGYVPGNVRKFGDESSKVIGRVVLDASFAPVRRVSYAVESARVEQRTDLDKLVMNIETN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 G I+ E+++ ++RIL DQL +F E + + Sbjct: 181 GVISPEEAIRQSARILVDQLSVFAALEGTESAAE 214 >gi|224417911|ref|ZP_03655917.1| DNA-directed RNA polymerase subunit alpha [Helicobacter canadensis MIT 98-5491] gi|253827250|ref|ZP_04870135.1| DNA-directed RNA polymerase alpha subunit [Helicobacter canadensis MIT 98-5491] gi|313141452|ref|ZP_07803645.1| DNA-directed RNA polymerase subunit alpha [Helicobacter canadensis MIT 98-5491] gi|253510656|gb|EES89315.1| DNA-directed RNA polymerase alpha subunit [Helicobacter canadensis MIT 98-5491] gi|313130483|gb|EFR48100.1| DNA-directed RNA polymerase subunit alpha [Helicobacter canadensis MIT 98-5491] Length = 329 Score = 240 bits (613), Expect = 2e-61, Method: Composition-based stats. Identities = 100/328 (30%), Positives = 165/328 (50%), Gaps = 10/328 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE +G N+ + A P G+A TL + LRR+L+ S G A A+ I GV HE Sbjct: 11 PTKIEVKEVG---VNKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPVALHIAGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++GV ED++ I+N+K I K+ DS V GP V+T D+ +EV+ P Sbjct: 68 FDSVRGVTEDVSQFIVNLKTIRFKIKDDSDSVSVDYTFNGPKVITGADLSNDL-VEVVTP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + ++ DA + + + KG GYVP++ R N P G + +DA ++P+ +Y E+ Sbjct: 127 DVHLATINKDATLSFSIVIYKGIGYVPSEEIRA-NVPEGFMPLDAYFTPVTSATYATENM 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +Y+K+ I TDG + + A ++ Q+ +F N E + + I+ + Sbjct: 186 LLEDDPNYEKVIFEIQTDGQVDPLTAFKNALSVMHKQMSIF-NSELNIEIPEVAISEEER 244 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P L + ++ L S R NCL I Y+G+L+ E + + N G+KSL EI L Sbjct: 245 PELKVLSQTIDSLNFSARCFNCLDRSGIKYLGELVLLNEEQIKNIKNLGKKSLDEITAKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYED 338 +G + + + + ++ L KK+ + Sbjct: 305 DELGYPVNREISE---DLMQILKKKFSN 329 >gi|119668309|emb|CAK95455.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 200 Score = 240 bits (613), Expect = 2e-61, Method: Composition-based stats. Identities = 89/199 (44%), Positives = 130/199 (65%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 + EPL RGF TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+K Sbjct: 1 VVEPLERGFGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNLK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + L+ + K + + GP VTA D++ D+EVLNPD IC + + M + V Sbjct: 61 KLVLRAYTEEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDVC 120 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 G GYVPA ++T IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+GS Sbjct: 121 NGRGYVPASENKTAEMFIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNGS 180 Query: 211 ITGEDSVALASRILQDQLG 229 I D++ A+R+L + Sbjct: 181 IAPNDALNFAARVLVEHFK 199 >gi|154424745|emb|CAL18475.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 214 Score = 240 bits (613), Expect = 2e-61, Method: Composition-based stats. Identities = 93/214 (43%), Positives = 144/214 (67%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ Sbjct: 1 PLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K + K + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV+ Sbjct: 61 VKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGASLKATMTVATNR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I Sbjct: 121 GYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ED++ L++R+L + L +F + + K Sbjct: 181 EDALGLSARVLIEHLNLFTDLTDVAKATDVMKET 214 >gi|237752997|ref|ZP_04583477.1| RNA polymerase alpha subunit [Helicobacter winghamensis ATCC BAA-430] gi|229375264|gb|EEO25355.1| RNA polymerase alpha subunit [Helicobacter winghamensis ATCC BAA-430] Length = 329 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 97/329 (29%), Positives = 169/329 (51%), Gaps = 12/329 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P IE +G N+ + A P G+A TL + LRR+L+ S G A A++I+GV HE Sbjct: 11 PTKIEVKEVG---ANKIEITAYPFEAGYAITLAHPLRRLLLGSSVGFAPVALRIEGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR--GPGVVTAGDIQTVNDIEVLN 129 S++GV ED++ I+N+K I K+ D + V+I + GP V+T D++ ++++ Sbjct: 68 FDSVRGVVEDVSHFIVNLKTIRFKVKDD-SESVSIDYKFIGPKVITGEDLKNDL-VDIVT 125 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 P+ + ++ DA++ + V KG GYVP++ R + +DA ++P+ V+Y E+ Sbjct: 126 PNIHLATINEDAILNFSIIVRKGIGYVPSEDIRNLISEGYM-PLDAYFTPVTSVTYDTEN 184 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +Y+K+ I TDG I + A ++ Q+ +F N E + + + + Sbjct: 185 VLVEDDPNYEKVVFNIQTDGQIEPLTAFKNALSVMHKQMAIF-NSELNIEVPEVSLGEED 243 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 P L + ++ L S R NCL I Y+G+L+ +E + + N G+KSL EI Sbjct: 244 SPEIRVLSQSIDSLNFSARCFNCLDRSGIKYLGELVLLSEDQIKNIKNLGKKSLDEITVK 303 Query: 310 LGTMGLFLGMNLPDWPPESIEELAKKYED 338 L +G +G + + + L KK+ + Sbjct: 304 LEELGYPIGKVIAE---DLAALLKKKFSN 329 >gi|119668299|emb|CAK95504.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 91/210 (43%), Positives = 144/210 (68%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ Sbjct: 1 GYGTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLH 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV Sbjct: 61 VEEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVA 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ +++ Sbjct: 121 ADQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAI 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINV 247 +LA++I+ + L +F++ + K + + Sbjct: 181 SLAAKIMTEHLAIFVDLTDEAKNAEIMVEK 210 >gi|150036744|emb|CAM98026.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 95/221 (42%), Positives = 141/221 (63%), Gaps = 2/221 (0%) Query: 31 IAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIK 90 I EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K Sbjct: 1 IVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLK 60 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KVVLAIDSDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAV 120 Query: 151 KGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+ Sbjct: 121 KGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTN 180 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 GSI D+++L ++IL + LG+F++ E + + Sbjct: 181 GSIKPSDALSLGAKILAEHLGLFMDISPVAAEASVMVEAEP 221 >gi|254373336|ref|ZP_04988824.1| DNA-directed RNA polymerase [Francisella tularensis subsp. novicida GA99-3549] gi|151571062|gb|EDN36716.1| DNA-directed RNA polymerase [Francisella novicida GA99-3549] Length = 318 Score = 240 bits (612), Expect = 3e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKNGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTLIENWPQD 317 >gi|118497985|ref|YP_899035.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. novicida U112] gi|134301520|ref|YP_001121488.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis WY96-3418] gi|194323208|ref|ZP_03056992.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. novicida FTE] gi|254374799|ref|ZP_04990280.1| DNA-directed RNA polymerase [Francisella novicida GA99-3548] gi|158512424|sp|A0Q7R6|RPOA2_FRATN RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|158513850|sp|A4IWR6|RPOA2_FRATW RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|118423891|gb|ABK90281.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Francisella novicida U112] gi|134049297|gb|ABO46368.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis WY96-3418] gi|151572518|gb|EDN38172.1| DNA-directed RNA polymerase [Francisella novicida GA99-3548] gi|194322572|gb|EDX20052.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. novicida FTE] Length = 318 Score = 239 bits (611), Expect = 3e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTLIENWPQD 317 >gi|224373703|ref|YP_002608075.1| DNA-directed RNA polymerase subunit alpha [Nautilia profundicola AmH] gi|223588998|gb|ACM92734.1| DNA-directed RNA polymerase, alpha subunit [Nautilia profundicola AmH] Length = 330 Score = 239 bits (611), Expect = 3e-61, Method: Composition-based stats. Identities = 98/337 (29%), Positives = 171/337 (50%), Gaps = 8/337 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K E++ P+++ + EE N+ + P GF ++ + +RR L++S G A Sbjct: 1 MNKIKTEVLIPSDVSFK----EEGNKATIEVYPFEAGFGVSVAHPIRRTLIASTPGFAPI 56 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 A++I+GV HE S+KG+ ED+ I+N+K I K+ V GP + D+ Sbjct: 57 ALKIEGVKHEFDSLKGMLEDVASFIINLKNIRFKIKEGDEAVVDYVFVGPKEIKGSDLAN 116 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++++ P+ I L+ +A +++ L + KG G+V ++ R E P G I +DA +SPIK Sbjct: 117 DL-VDIVTPNEYIATLNEEAELKLTLIIRKGMGFVAVENFRDEI-PEGFIGLDAYFSPIK 174 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 KV Y +E+ +++K+ ++TDG I+ D+ A +Q +F +E K E Sbjct: 175 KVVYNIENILVEDDPNFEKVIFEVETDGQISPIDAFKNAVNNYLNQFSVF--SKEFKLEQ 232 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 K +V+ L + +E L L RS N L I ++G+L+ + + + N G K Sbjct: 233 KTSQSVELDEVYNVLFEPIENLNLRSRSFNALDRAGIRFVGELVLMGKEKISNIKNLGTK 292 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 SL EI L +G L LP ++IE+ + ++ Sbjct: 293 SLEEIFDKLEEIGFPLNKTLPLDIKKAIEDKLSQLKE 329 >gi|161511749|emb|CAP16885.1| DNA-directed RNA polymerase subunit alpha [Pediococcus parvulus] Length = 214 Score = 239 bits (611), Expect = 3e-61, Method: Composition-based stats. Identities = 97/214 (45%), Positives = 145/214 (67%), Gaps = 2/214 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSAD 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 ENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +L+++IL + L +F+N + ++ + + + Sbjct: 181 SLSAKILTEHLALFVNLTDEAQDAEIMVEKEETN 214 >gi|254368844|ref|ZP_04984857.1| hypothetical protein FTAG_00654 [Francisella tularensis subsp. holarctica FSC022] gi|157121765|gb|EDO65935.1| hypothetical protein FTAG_00654 [Francisella tularensis subsp. holarctica FSC022] Length = 317 Score = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 12/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + ++ D +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEDVEMGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVEDP 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 239 K---DINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 295 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 296 KDKLSELGLSLGTLIENWPQD 316 >gi|119668365|emb|CAK95514.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 205 Score = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 94/205 (45%), Positives = 143/205 (69%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS 100 TLGN+LRR+L+SSL GAA++++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D Sbjct: 1 TTLGNSLRRILLSSLPGAAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A Sbjct: 61 DKNIEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQ 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 +++++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA Sbjct: 121 NKSDDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDI 245 ++IL + L +F+N + K + + Sbjct: 181 AKILTEHLDIFVNLTDEAKNAEIMV 205 >gi|56708484|ref|YP_170380.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis SCHU S4] gi|110670955|ref|YP_667512.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis FSC198] gi|224457644|ref|ZP_03666117.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis MA00-2987] gi|254371109|ref|ZP_04987111.1| DNA-directed RNA polymerase [Francisella tularensis subsp. tularensis FSC033] gi|254875331|ref|ZP_05248041.1| rpoA2, DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis MA00-2987] gi|81597191|sp|Q5NF12|RPOA2_FRATT RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|122970868|sp|Q14GG5|RPOA2_FRAT1 RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|54113777|gb|AAV29522.1| NT02FT1997 [synthetic construct] gi|56604976|emb|CAG46075.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis SCHU S4] gi|110321288|emb|CAL09458.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis FSC198] gi|151569349|gb|EDN35003.1| DNA-directed RNA polymerase [Francisella tularensis subsp. tularensis FSC033] gi|254841330|gb|EET19766.1| rpoA2, DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. tularensis MA00-2987] gi|282159688|gb|ADA79079.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. tularensis NE061598] Length = 318 Score = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNILDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTLIENWPQD 317 >gi|150036818|emb|CAM98041.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 222 Score = 239 bits (611), Expect = 4e-61, Method: Composition-based stats. Identities = 94/221 (42%), Positives = 142/221 (64%), Gaps = 2/221 (0%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K Sbjct: 1 VEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKK 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + L + D K + I +GP VTA D+Q DIEVLNP+ + + + M +T K Sbjct: 61 VVLAIDSDEEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVK 120 Query: 152 GHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 G GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+G Sbjct: 121 GRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 SI D+++L ++IL + L +F + E + ++V+ Sbjct: 181 SIKPSDALSLGAKILSEHLNLFTDISSVAAETEVMVDVEQT 221 >gi|317016853|gb|ADU85967.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 228 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 92/218 (42%), Positives = 138/218 (63%), Gaps = 2/218 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 LAIDSDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 D+++L ++IL + L +F++ E + + Sbjct: 181 KPSDALSLGAKILAEHLNLFMDISPVAAEASVMVEAEP 218 >gi|161513436|emb|CAP16861.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 214 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 98/214 (45%), Positives = 145/214 (67%), Gaps = 2/214 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSAD 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 ENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +L+++IL + L +F+N + K+ + + + Sbjct: 181 SLSAKILTEHLALFVNLTDEAKDAEIMVEKEETH 214 >gi|208779606|ref|ZP_03246951.1| DNA-directed RNA polymerase, alpha subunit [Francisella novicida FTG] gi|208744567|gb|EDZ90866.1| DNA-directed RNA polymerase, alpha subunit [Francisella novicida FTG] Length = 318 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKEGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTLIENWPQD 317 >gi|89256013|ref|YP_513375.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica LVS] gi|115314492|ref|YP_763215.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica OSU18] gi|167010243|ref|ZP_02275174.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FSC200] gi|254367357|ref|ZP_04983383.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica 257] gi|122325482|sp|Q0BMV6|RPOA2_FRATO RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|122501012|sp|Q2A4H7|RPOA2_FRATH RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|89143844|emb|CAJ79056.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica LVS] gi|115129391|gb|ABI82578.1| DNA-directed RNA polymerase [Francisella tularensis subsp. holarctica OSU18] gi|134253173|gb|EBA52267.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica 257] Length = 317 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 105/321 (32%), Positives = 181/321 (56%), Gaps = 12/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVEDP 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 239 K---DINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 295 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 296 KDKLSELGLSLGTLIENWPQD 316 >gi|187932094|ref|YP_001892079.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. mediasiatica FSC147] gi|187713003|gb|ACD31300.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Francisella tularensis subsp. mediasiatica FSC147] Length = 318 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 103/321 (32%), Positives = 179/321 (55%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + ++ +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLTEGVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK EEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHAEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 297 KDKLSELGLSLGTLIENWPQD 317 >gi|328813985|gb|AEB52108.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 228 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 106/228 (46%), Positives = 152/228 (66%), Gaps = 2/228 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A Sbjct: 61 ETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAE 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT +++ Sbjct: 121 DNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAI 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +L+++IL D L +F+N + K + + L +EEL+L Sbjct: 181 SLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTIEELDL 228 >gi|290489672|gb|ADD31220.1| RNA polymerase alpha subunit protein [Phoradendron serotinum] Length = 326 Score = 239 bits (610), Expect = 4e-61, Method: Composition-based stats. Identities = 80/307 (26%), Positives = 154/307 (50%), Gaps = 21/307 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RR L+ + G IT + D + HE S+I+G+ Sbjct: 21 RVDNKRFYYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSDQIPHEYSTIRGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N+K I L+ + +I+ +GP +TA DI +E+++ +I +L Sbjct: 81 QESVHDILINLKEIVLRSNLYGTCNASIYIKGPRYITAQDIILPPYVEIIDHTQIIASLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + L + K GY +N G +I+A++ P++ ++++ + Sbjct: 141 EQIDFGIGLQIEKNRGYRIIT---PKNLQEGNFSIEAIFMPVRNANHSIHNY----NEKL 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ A+R L D F++ ++ K V+++ + SL L+ Sbjct: 194 EILFLEIWTNGSLTPKEALHEAARNLIDLFIPFLHVKKEKLHVEDNQHKLSLFTFHDRLQ 253 Query: 259 K--------------VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K +++ ELS R NCL+ NI + DL+ + D++++ +F + L Sbjct: 254 KLRKTKEKIALKSIFIDQSELSPRIYNCLKSSNIQNILDLLNKNREDLMKIEHFRIEDLK 313 Query: 305 EIKGVLG 311 I G+L Sbjct: 314 HIWGILE 320 >gi|12467|emb|CAA30670.1| RNA polymerase alpha-subunit (AA 1-341) [Zea mays] Length = 341 Score = 239 bits (610), Expect = 5e-61, Method: Composition-based stats. Identities = 89/323 (27%), Positives = 155/323 (47%), Gaps = 25/323 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G ALRR L+ + G IT + V HE S+I G+ Sbjct: 21 RVDSKRLYYGRFILSPLRKGQADTVGIALRRALLGEIEGTCITRAKFGNVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I+LN+K I L+ + + +I +GP +TA DI +E+ + I NL Sbjct: 81 EESIQEILLNLKEIVLRSNLYGVRDASICVKGPRYITAQDIILPPSVEIDDTTQPIANLR 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 +EL + + Y +N G IDA++ P++ V+Y++ S G + Sbjct: 141 EPVDFCIELQIKRDRAYHTELR---KNSQDGSYPIDAVFMPVRNVNYSIFSCGNGNE-KH 196 Query: 199 DKLSMTIDTDGSITGED-SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + L + I T+G +T ++ + ASR L D F++ EE +E+ N + P Sbjct: 197 EILFLEIWTNGKLTPKEGGIYEASRNLIDLFLPFLHTEEEGTSFEENKNRLTPPLLTFQK 256 Query: 258 K----------------KVEELELSVRSTNCLRGENIVY-MGDLIQRTEADMLRMANFGR 300 + +++LEL R+ NCL+ NI + DL+ +TE D++++ +FG Sbjct: 257 RFTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIPSALLDLLVKTEEDLIKINSFG- 315 Query: 301 KSLVEIKGVLGTMGLFLGMNLPD 323 + + K + T+ L ++LP Sbjct: 316 --MEDGKLIWDTLEKHLPIDLPK 336 >gi|197131692|gb|ACH47364.1| RNA polymerase alpha subunit [Geranium macrorrhizum] Length = 329 Score = 239 bits (610), Expect = 5e-61, Method: Composition-based stats. Identities = 70/297 (23%), Positives = 136/297 (45%), Gaps = 8/297 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + I PL +G A +G A+RR L+ + G IT + D + HE +++ G+ E Sbjct: 23 DSKRLYYGRFILSPLKKGQADMIGIAMRRALLGEIEGTCITHAKFDKIPHEYTTLVGIQE 82 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I++N+K I L+ + +I RGP VT+ DI +++ I L Sbjct: 83 SIYEILMNLKEIVLRSHLYGTRDASICVRGPRDVTSQDIILPTFATIVDNTQHIVTLTEP 142 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 + L + + GY + IDA++ P+K V++++ S G + Sbjct: 143 IDFCVGLQIERNRGYFIQIPMLSNLHDDRGYPIDAVFMPVKNVNHSIHSYENG---IHAM 199 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I T+GS+T ++++ ASR L + F++ EE + + N + + Sbjct: 200 LFLEIWTNGSLTPKEALRGASRKLINLFIPFLHAEEQNCHFENNQNEHTDELSIDFCALK 259 Query: 261 EE-----LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 + +EL R CL+G I + DL+ + D++++ F ++ + ++ +L Sbjct: 260 DIYIDQLVELPARFYKCLKGSGIDTVMDLLNKNTDDLIKITQFCQQDVEKVMNILNN 316 >gi|242309345|ref|ZP_04808500.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pullorum MIT 98-5489] gi|239523916|gb|EEQ63782.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pullorum MIT 98-5489] Length = 329 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 95/328 (28%), Positives = 168/328 (51%), Gaps = 7/328 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P+ I + + N+ + A P G+A TL + LRR+L+ S G A A++I GV HE Sbjct: 8 PHIPTKIEVRETGNNKVQITAYPFENGYAITLAHPLRRLLLGSSVGFAPIALRISGVAHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++GV ED++ I+N+K I ++ +S V G V+T D+ + +EV+ P Sbjct: 68 FDSVRGVVEDVSQFIVNLKAIRFRIKDNSDNVSVDYKFNGSKVITGADL-SNELVEVVTP 126 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D + ++ DA + + + KG GYVP++ R + P G + +DA ++P+ +YT E+ Sbjct: 127 DIHLATINEDATLAFSIIIYKGIGYVPSEEIRA-SVPEGFMPLDAYFTPVTSATYTTENM 185 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +Y+K+ I TDG + + A ++ Q+ +F N E + + ++ + Sbjct: 186 LLEDDPNYEKIIFDIQTDGQVDPLTAFKNALSVMHKQMSIF-NSELNIEMPETTVSEEER 244 Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 P L + ++ L S R NCL I Y+G+L+ E + + N G+KSL EI L Sbjct: 245 PELKVLSQTIDSLNFSARCFNCLDRSGIRYLGELVLLNEDQIKNIKNLGKKSLDEITAKL 304 Query: 311 GTMGLFLGMNLPDWPPESIEELAKKYED 338 +G + +P+ + ++ L KK+ + Sbjct: 305 DELGYPVNREIPE---DLLQILKKKFSN 329 >gi|150036746|emb|CAM98260.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 226 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 94/216 (43%), Positives = 139/216 (64%), Gaps = 2/216 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKV 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 VLAIDSDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKG 120 Query: 153 HGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 121 RGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 I D+++L ++IL + LG+F++ E + Sbjct: 181 IKPSDALSLGAKILAEHLGLFMDISPVAAEASVMVE 216 >gi|190411115|gb|ACE78312.1| RpoA [Vibrio parahaemolyticus] Length = 252 Score = 239 bits (609), Expect = 6e-61, Method: Composition-based stats. Identities = 107/255 (41%), Positives = 169/255 (66%), Gaps = 8/255 (3%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIF 107 R+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ Sbjct: 1 RILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLN 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRT 163 K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ Sbjct: 61 KSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHNEE 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ I Sbjct: 121 DERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GD Sbjct: 181 LAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGD 237 Query: 284 LIQRTEADMLRMANF 298 L+QRTE ++L+ N Sbjct: 238 LVQRTEVELLKTPNL 252 >gi|156502016|ref|YP_001428081.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FTNF002-00] gi|290954162|ref|ZP_06558783.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica URFT1] gi|295312432|ref|ZP_06803209.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica URFT1] gi|171769927|sp|A7NAX2|RPOA2_FRATF RecName: Full=DNA-directed RNA polymerase subunit alpha 2; Short=RNAP subunit alpha 2; AltName: Full=RNA polymerase subunit alpha 2; AltName: Full=Transcriptase subunit alpha 2 gi|156252619|gb|ABU61125.1| DNA-directed RNA polymerase, alpha subunit [Francisella tularensis subsp. holarctica FTNF002-00] Length = 317 Score = 238 bits (608), Expect = 7e-61, Method: Composition-based stats. Identities = 103/321 (32%), Positives = 181/321 (56%), Gaps = 12/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ + + + +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQDNFKDCE----FLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGIFVEDP 238 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 239 K---DINPILLKHVEELNLTARSSNCLKAVNIRLIGELVQKTENELLKAPNFGKKSLTEI 295 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L +GL LG + +WP + Sbjct: 296 KDKLSELGLSLGTLIENWPQD 316 >gi|119668361|emb|CAK95513.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 211 Score = 238 bits (608), Expect = 7e-61, Method: Composition-based stats. Identities = 98/210 (46%), Positives = 149/210 (70%), Gaps = 2/210 (0%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RG+ TLGN+LRRVL++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++L Sbjct: 1 LERGYGTTLGNSLRRVLIASLPGAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSL 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K+ + K + + +GP VTA DIQ N++ +LNPD I + A + ++LT KG G Sbjct: 61 KLDSEDQKNLELDVKGPAEVTASDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRG 120 Query: 155 YVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 Y+ A R ++ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T Sbjct: 121 YLSANDNKARMDDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLT 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK 242 ++V+L ++IL + L MF++ E + + Sbjct: 181 PTEAVSLGAKILTEHLAMFVDLTETAQNAQ 210 >gi|301353363|ref|YP_003795612.1| RNA polymerase alpha subunit [Pteridium aquilinum subsp. aquilinum] gi|301016281|gb|ADK47568.1| RNA polymerase alpha subunit [Pteridium aquilinum subsp. aquilinum] Length = 347 Score = 238 bits (608), Expect = 8e-61, Method: Composition-based stats. Identities = 78/310 (25%), Positives = 143/310 (46%), Gaps = 22/310 (7%) Query: 15 IEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 I++ + + E + + P RG T+G A+RR + + G +IT + GV+H Sbjct: 13 IQWKCVESKTESKRLHYGRFVVSPFKRGQVSTVGIAMRRASLEEVEGTSITCARFHGVVH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+I G+ E + D+++N+K I K + + GP VTAGD ++ ++ Sbjct: 73 EYSTITGIQETIRDVLVNLKEIAPKSDSNDIQEAVSSVTGPKKVTAGDTLLPPSVKAIDD 132 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 + + V +E + K GY H G +DA+ P++ V+Y+V Sbjct: 133 SQYVVTITQPISVNIESKIEKDCGYRIENSH---GYGGGEFPVDAVSMPVRNVNYSVHLF 189 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN--------------FEE 236 G+ + + L + I T+GS+T ++++ AS+ L D L F++ F Sbjct: 190 GSGKAM-RETLFIEIWTNGSLTPDEAICEASKKLIDLLTPFLHVKCEDVPHSGDNQDFSA 248 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 +V L + +++LEL R+ NCL+ I + DL+ + D R+ Sbjct: 249 STGSPSHFDDVSELEGKISKNTFIDQLELPARAFNCLKRAEIHTISDLLNYSREDSSRIK 308 Query: 297 NFGRKSLVEI 306 +FG+KS+ ++ Sbjct: 309 SFGQKSVDQV 318 >gi|307128729|ref|YP_003880759.1| DNA-directed RNA polymerase subunit alpha [Candidatus Sulcia muelleri CARI] gi|306483191|gb|ADM90061.1| DNA-directed RNA polymerase subunit alpha [Candidatus Sulcia muelleri CARI] Length = 335 Score = 238 bits (608), Expect = 8e-61, Method: Composition-based stats. Identities = 107/322 (33%), Positives = 180/322 (55%), Gaps = 12/322 (3%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 E +++ + EPL G+ T+GN+LRRVL+SSL G AI++V+I+GV +E Sbjct: 7 TKNENLIILKLTPEEGSFKIEPLYPGWGLTIGNSLRRVLLSSLEGYAISSVKIEGVNNEY 66 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-----TIFKRGPGVVTAGDI-QTVNDIE 126 S+IKGV ED+T+IILN+K I K + I +TAGD+ + +N E Sbjct: 67 STIKGVIEDMTEIILNLKKIRFKKKIEDEDFESEEFHIIINNNKKEITAGDLGEFLNLFE 126 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++NPD +I N + + + L + +G GY+P++ ++ + IG I ID +++PIKKV Y Sbjct: 127 IINPDLIILNKEKLISLNITLVIKRGIGYLPSEKNKDMPNMIGTIPIDTIFTPIKKVKYK 186 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL------GMFINFEEPKKE 240 +++ + Y+ + + I TDGSI ++ AS +L + + +++PKK Sbjct: 187 IDNCSINKNPFYESIILKIKTDGSINPRKALTRASNLLIRHFQCLSNEKILLEYKKPKKR 246 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 K D N+ + + E LSVR+ NCL+ I GDL++ ++D+L++ NFGR Sbjct: 247 NKYDKNILKMRNLLKSSLEEEIDYLSVRTLNCLKSAKIFTWGDLVKSNKSDLLKLKNFGR 306 Query: 301 KSLVEIKGVLGTMGLFLGMNLP 322 KSL E+ + + ++ GM++ Sbjct: 307 KSLSELDKRMKKLNIYSGMDIS 328 >gi|150036820|emb|CAM98279.1| DNA-directed RNA polymerase alpha chain [Fructobacillus ficulneus] Length = 238 Score = 238 bits (608), Expect = 9e-61, Method: Composition-based stats. Identities = 99/238 (41%), Positives = 143/238 (60%), Gaps = 2/238 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +I N+K + Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEXSTVDGVVEDVTQLIXNLKKV 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + I +GP VTA D+ DIEVLNPD I L + M +T KG Sbjct: 61 VFATDSAEEHALEIDVQGPKDVTAADLAGSADIEVLNPDLHIATLAAGKSLHMTVTAVKG 120 Query: 153 HGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A+ ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GS Sbjct: 121 RGYSSAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 I D+++L S+IL + L +F +E K + +E+L+LSVR Sbjct: 181 INPSDALSLGSKILTEHLNLFTXISPVAQETKVMVETXQAASTATDAAPIEDLDLSVR 238 >gi|150187107|emb|CAK30172.1| RNA polymerase alpha subunit [Streptococcus downei MFe28] Length = 219 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 96/215 (44%), Positives = 146/215 (67%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K Sbjct: 61 AVKSYVEDEKTIELDVTGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGHTLKATMTVAKN 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I Sbjct: 121 RGYVPAEGNKNDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNAGFDKLTIEIMTNGTII 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ED++ L++R+L + L +F + E K + Sbjct: 181 PEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKET 215 >gi|161367356|gb|ABX71083.1| DNA-directed RNA polymerase alpha subunit [Vibrio cholerae O1] Length = 244 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 105/247 (42%), Positives = 165/247 (66%), Gaps = 8/247 (3%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM- 96 GF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ Sbjct: 1 GFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVA 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGY 155 G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V +G GY Sbjct: 61 EGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGY 120 Query: 156 VPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 VPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T+G++ Sbjct: 121 VPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLE 180 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS NC Sbjct: 181 PEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANC 237 Query: 273 LRGENIV 279 L+ E I Sbjct: 238 LKAEAIH 244 >gi|150036736|emb|CAM98023.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 223 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 93/218 (42%), Positives = 138/218 (63%), Gaps = 2/218 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 LAIDSDDERSLEIDVQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 D+++L S+IL + L +F++ E + + Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAEANVMVEAEP 218 >gi|119668297|emb|CAK95503.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 207 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 90/207 (43%), Positives = 143/207 (69%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ Sbjct: 1 YGTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A Sbjct: 61 EEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++ Sbjct: 121 DQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAIS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDI 245 LA++I+ + L +F++ + K + + Sbjct: 181 LAAKIMTEHLAIFVDLTDEAKNAEIMV 207 >gi|153217671|ref|ZP_01951352.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae 1587] gi|124113383|gb|EAY32203.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae 1587] Length = 244 Score = 238 bits (607), Expect = 1e-60, Method: Composition-based stats. Identities = 102/239 (42%), Positives = 154/239 (64%), Gaps = 7/239 (2%) Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGY 155 G +T+ K G G V AGDI D+E++NP+HVIC+L +A + M + V +G GY Sbjct: 8 EGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGY 67 Query: 156 VPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 VPA H + PIG + +DA +SP+ K++Y+VE+AR Q D DKL + ++T+G++ Sbjct: 68 VPASARIHTEEDERPIGRLLVDATFSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLE 127 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 E+++ A+ IL +QL F++ + + +++ + P LL+ V++LEL+VRS NC Sbjct: 128 PEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANC 184 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 L+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI E Sbjct: 185 LKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAE 243 >gi|150036762|emb|CAM98031.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 221 Score = 237 bits (606), Expect = 1e-60, Method: Composition-based stats. Identities = 94/218 (43%), Positives = 138/218 (63%), Gaps = 2/218 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 LAIDSDEERVLEIDVQGPSEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 D+++L S+IL + L +F++ E + + Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAEANVMVEAEP 218 >gi|86438810|emb|CAJ43370.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 208 Score = 237 bits (606), Expect = 2e-60, Method: Composition-based stats. Identities = 91/208 (43%), Positives = 134/208 (64%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + ME+ V G GYV A Sbjct: 61 DERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDIN 246 A++I + +F + + K + + Sbjct: 181 FAAKISVEHFKVFESADADTKFSEVMVE 208 >gi|119662355|emb|CAJ33166.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 94/197 (47%), Positives = 141/197 (71%), Gaps = 2/197 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT VQIDGVLHE S+I GV ED+T IILN+K + L M Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITDVQIDGVLHEFSTIPGVLEDVTLIILNLKKVALSMES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + + + I GP VTAGDIQ+ +D+EVLNP+ IC + A + + + +KG GYV A Sbjct: 61 EDSQALEINVTGPMEVTAGDIQSNSDVEVLNPEQYICTVADGAELHVRMNANKGRGYVSA 120 Query: 159 KHHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++ Sbjct: 121 NDNKALADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFIN 233 ++L+++IL + L +F++ Sbjct: 181 ISLSAKILTEHLALFVD 197 >gi|150036814|emb|CAM98040.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 226 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 92/222 (41%), Positives = 140/222 (63%), Gaps = 2/222 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D+E+LNPD + + + M +T KG Sbjct: 61 LAIDSDDERSLEIDVQGPADVTAADLQAGADVEILNPDLHLATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 D+++L S+IL + L +F++ E + + + N Sbjct: 181 KPSDALSLGSKILAEHLNLFMDISPVAAEASVMVEAEPVATN 222 >gi|162955842|gb|ABY25296.1| RNA polymerase alpha subunit [Vibrio sp. MSSRF7] Length = 240 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 101/235 (42%), Positives = 154/235 (65%), Gaps = 5/235 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 Q + EPL RGF HTLGNALRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED Sbjct: 1 QISTTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQED 60 Query: 82 LTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + +I+LN+KG+ +++ G +T+ K G G V AGDI D+E++NP+HVIC+L+ D Sbjct: 61 ILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDITHDGDVEIVNPEHVICHLNDD 120 Query: 141 -AVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 A V M + V +G GYVPA H ++ PIG + +DA YSP+ K++YTVE+AR Q Sbjct: 121 NAEVAMRIKVQRGRGYVPASARIHTDEDDRPIGRLLVDATYSPVDKIAYTVEAARVEQRT 180 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D DKL + ++T+G+I E+++ A+ IL +QL F++ + + +++ + P Sbjct: 181 DLDKLVIDMETNGTIEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP 235 >gi|193795085|gb|ACF21672.1| RpoA [Rhizobium tropici] gi|193795087|gb|ACF21673.1| RpoA [Rhizobium tropici] Length = 212 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 152/213 (71%), Positives = 182/213 (85%), Gaps = 1/213 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSITGED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSITGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASMG 212 >gi|119662383|emb|CAJ33180.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 212 Score = 237 bits (605), Expect = 2e-60, Method: Composition-based stats. Identities = 90/212 (42%), Positives = 144/212 (67%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ Sbjct: 1 YGTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A Sbjct: 61 EEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++ Sbjct: 121 VQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAIS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 LA++I+ + L +F++ + K + + + Sbjct: 181 LAAKIMTEHLAIFVDLTDEAKNAEIMVEKEET 212 >gi|161513434|emb|CAP16860.1| DNA-directed RNA polymerase subunit alpha [Pediococcus cellicola] Length = 214 Score = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 97/210 (46%), Positives = 143/210 (68%), Gaps = 2/210 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIEND 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 EEKSLEINVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAVLTADTGRGYVSAD 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ Sbjct: 121 ENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINV 247 +L+++IL + L +F+N + + ++ Sbjct: 181 SLSAKILTEHLALFVNLTDEAQRLRSWSKR 210 >gi|119662343|emb|CAJ33160.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 101/204 (49%), Positives = 144/204 (70%), Gaps = 2/204 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A Sbjct: 61 DETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++ Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKE 240 ++L+++IL D L +F+N + K Sbjct: 181 ISLSAKILTDHLSIFVNLTDEAKN 204 >gi|119668353|emb|CAK95471.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 219 Score = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 101/219 (46%), Positives = 146/219 (66%), Gaps = 2/219 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A Sbjct: 61 DETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++ Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++L+++IL D L +F+N + K + + Sbjct: 181 ISLSAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKEKM 219 >gi|153820464|ref|ZP_01973131.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae NCTC 8457] gi|126508991|gb|EAZ71585.1| DNA-directed RNA polymerase, alpha subunit [Vibrio cholerae NCTC 8457] Length = 215 Score = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 92/218 (42%), Positives = 141/218 (64%), Gaps = 8/218 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDAL 176 D+E++NP+HVIC+L +A + M + V +G GYVPA H + PIG + +DA Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPIGRLLVDAT 177 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 +SP+ K++Y+VE+AR Q D DKL + ++T+G++ E Sbjct: 178 FSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPE 215 >gi|90567619|emb|CAJ31077.1| RNA polymerase alpha subunit [Lactobacillus helveticus R0052] Length = 197 Score = 237 bits (604), Expect = 2e-60, Method: Composition-based stats. Identities = 91/197 (46%), Positives = 132/197 (67%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSFS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + ME+ V G GYV A Sbjct: 61 DERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFE 235 A++IL + +F + + Sbjct: 181 FAAKILVEHFKVFESAD 197 >gi|119668281|emb|CAK95497.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 217 Score = 237 bits (604), Expect = 3e-60, Method: Composition-based stats. Identities = 93/207 (44%), Positives = 136/207 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK + Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSNS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ +D+EVLNPD IC + + M++ V G GYV A Sbjct: 61 DEQKVIELDVEGPATVTADDLKVDSDVEVLNPDQYICTIAEGGHLHMQIAVKNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++E+ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSEDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSINPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDI 245 A+ IL + +F + + K + + Sbjct: 181 FAANILVEHFKVFESADADNKFSEVMV 207 >gi|119662279|emb|CAJ33126.1| RNA polymerase alpha subunit [Lactobacillus amylovorus] Length = 210 Score = 236 bits (603), Expect = 3e-60, Method: Composition-based stats. Identities = 92/209 (44%), Positives = 135/209 (64%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GYV A Sbjct: 61 DEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYVTA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINV 247 A++IL + +F + + + + + Sbjct: 181 FAAKILVEHFKVFESADANTQFSEVMVEK 209 >gi|119668319|emb|CAK95460.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 198 Score = 236 bits (603), Expect = 3e-60, Method: Composition-based stats. Identities = 98/197 (49%), Positives = 140/197 (71%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA Sbjct: 61 DEEKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKNGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ Sbjct: 121 SENKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALS 180 Query: 219 LASRILQDQLGMFINFE 235 A++IL + +F++ + Sbjct: 181 FAAKILVEHFKVFMSTD 197 >gi|150187161|emb|CAK30184.1| RNA polymerase alpha subunit [Streptococcus equi subsp. ruminatorum] Length = 225 Score = 236 bits (603), Expect = 3e-60, Method: Composition-based stats. Identities = 94/225 (41%), Positives = 148/225 (65%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+ Sbjct: 1 FVIEPLERGNGTTLGNSLRRVLLSSLPGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNV 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV Sbjct: 61 KGLAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIADGYTLKASMTV 120 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 +K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G Sbjct: 121 AKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNG 180 Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +I ED++ L++R+L + L +F + + K + + + Sbjct: 181 TIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKEAEKVNDEK 225 >gi|193795063|gb|ACF21663.1| RpoA [Rhizobium giardinii] Length = 212 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 150/213 (70%), Positives = 180/213 (84%), Gaps = 1/213 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPNHVICTLDEGAEIRMEFTVNNGKGYVPADRN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R+E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM I+TDGS+TGED+VA A+ Sbjct: 61 RSEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMQIETDGSVTGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >gi|332184519|gb|AEE26773.1| DNA-directed RNA polymerase alpha subunit [Francisella cf. novicida 3523] Length = 318 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 104/321 (32%), Positives = 179/321 (55%), Gaps = 11/321 (3%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI+ + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNIK---IDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K + + + G +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLPVTLAEGVETGIITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL ++ EE K + + Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLRNIVDIEEINKGI--FVE 236 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + NP LLK VEEL L+ RS+NCL+ NI +G+L+Q+TE ++L+ NFG+KSL EI Sbjct: 237 DPTKDINPILLKHVEELNLTARSSNCLKAVNIKLIGELVQKTENELLKAPNFGKKSLTEI 296 Query: 307 KGVLGTMGLFLGMNLPDWPPE 327 K L + L LG + +WP + Sbjct: 297 KDKLSELSLSLGTIIENWPQD 317 >gi|71056933|emb|CAH59025.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 221 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 99/220 (45%), Positives = 147/220 (66%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGLALKLYA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I GP VTAGDI +D+E+LN D VIC++ A LTV G GYV A Sbjct: 61 EEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPGRGYVQA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++ Sbjct: 121 DENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 LA++I+ + L +F+N + K + + + L Sbjct: 181 LAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 220 >gi|119668317|emb|CAK95459.1| RNA polymerase alpha subunit [Lactobacillus gallinarum] Length = 214 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 92/213 (43%), Positives = 136/213 (63%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + ME+ V G GYV A Sbjct: 61 DERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 A++IL + +F + + K + + + Sbjct: 181 FAAKILVEHFKVFESADADTKFSEVMVEKEDDK 213 >gi|119668321|emb|CAK95507.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 214 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 98/214 (45%), Positives = 143/214 (66%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA Sbjct: 61 DEEKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKNGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ Sbjct: 121 SENKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 A++IL + +F++ + + + + Sbjct: 181 FAAKILVEHFKVFMSTDMDAQFDDVMVEKEDDKN 214 >gi|71056949|emb|CAH59035.1| DNA-directed RNA polymerase alpha chain [Enterococcus hirae] gi|72534401|emb|CAH59031.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 219 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 100/219 (45%), Positives = 146/219 (66%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM Sbjct: 1 RGYGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKM 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 G K + I GP VTAGDI +++E+LN D IC++ A LTV G GYV Sbjct: 61 YGQEEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPGRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++ Sbjct: 121 QADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIEPLEA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++L+++I+ + L +F+N + K + + + Sbjct: 181 MSLSAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 219 >gi|119662317|emb|CAJ33146.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 214 Score = 236 bits (602), Expect = 4e-60, Method: Composition-based stats. Identities = 98/214 (45%), Positives = 143/214 (66%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA Sbjct: 61 DEEKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ Sbjct: 121 SENKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 A++IL + +F++ + + + + Sbjct: 181 FAAKILVEHFKVFMSTDMDAQFDDVMVEKEDDKN 214 >gi|119662367|emb|CAJ33172.1| RNA polymerase alpha subunit [Lactobacillus ultunensis] Length = 212 Score = 236 bits (601), Expect = 5e-60, Method: Composition-based stats. Identities = 93/212 (43%), Positives = 136/212 (64%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GYV A Sbjct: 61 DEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYVTA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 A++IL + +F + + K + + + Sbjct: 181 FAAKILVEHFKVFESADANTKFSEVMVEKEDD 212 >gi|193795090|gb|ACF21674.1| RpoA [Rhizobium tropici] Length = 212 Score = 236 bits (601), Expect = 5e-60, Method: Composition-based stats. Identities = 151/213 (70%), Positives = 182/213 (85%), Gaps = 1/213 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSITGED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSITGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E+ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >gi|317447066|emb|CBX24362.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 201 Score = 236 bits (601), Expect = 5e-60, Method: Composition-based stats. Identities = 94/201 (46%), Positives = 133/201 (66%), Gaps = 3/201 (1%) Query: 28 TLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIIL 87 + ++ EP RG+ HTLGNALRRV++SSL G A T V I+GVLHE S + G+ ED+ ++L Sbjct: 1 SKVVLEPFERGYGHTLGNALRRVMLSSLVGYAPTEVSINGVLHEYSVVDGLQEDVIGVLL 60 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI +L + M++ Sbjct: 61 NLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAHLSQGGKLDMQI 120 Query: 148 TVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 V KG GYVP IG I +DA +SP+++VSY VESAR Q D DKL M Sbjct: 121 KVEKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSYAVESARVEQRTDLDKLVME 180 Query: 205 IDTDGSITGEDSVALASRILQ 225 I+T+G I+ E+++ ++RIL Sbjct: 181 IETNGVISAEEAIRSSARILV 201 >gi|193795092|gb|ACF21675.1| RpoA [Sinorhizobium sp. 206] Length = 212 Score = 236 bits (601), Expect = 6e-60, Method: Composition-based stats. Identities = 150/212 (70%), Positives = 180/212 (84%), Gaps = 1/212 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPG VTAGDIQTV DIE+LNPDHVIC LD A +RME TV+ G GYVPA + Sbjct: 1 KRMVVRKQGPGAVTAGDIQTVGDIEILNPDHVICTLDEGAEIRMEFTVNNGKGYVPADRN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKL+MTI+TDGS+TGED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLTMTIETDGSVTGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E +V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-ESVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|7388083|sp|O98462|RPOA_SPIMX RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|4007878|gb|AAC95318.1| RNA polymerase alpha subunit [Spirogyra maxima] Length = 344 Score = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 97/332 (29%), Positives = 158/332 (47%), Gaps = 36/332 (10%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +E + L IA PL G A TLG A+RR L+ S++G AI A +I G HE S++ Sbjct: 20 KIDSTKEECLDYMLFIASPLLAGQATTLGVAIRRTLLESIQGTAIVAAKIYGAAHEYSTL 79 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 +G+ E + DI+LN+K + +K ++ I GP VTA DI+ +I + NP H I Sbjct: 80 EGIQESIHDILLNLKQVIIKNKICEFQKCLISIIGPKKVTAADIELSQNITISNPYHHIA 139 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + ++EL ++KG GY + G +DAL++P++ V++++ + E Q Sbjct: 140 TITKPIRFQVELIINKGRGY---LIQDGNDVQDGYFPVDALFNPVRNVNFSIHNLAEQQ- 195 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQL--------------------------G 229 + L + I T+G+IT D++ S L Sbjct: 196 ---EALILEIWTNGAITPLDALRQGSENLIHLFLPPFGLEDDTYMTSLGSQDYNIHIKNS 252 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 + FE E ED ++ F +E LELS R CL+ NI + DL++ ++ Sbjct: 253 LKEKFELHSIERIEDSHLIKDQFLEYSKTPIELLELSTRPFKCLKNANIYTINDLLKLSQ 312 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 D+L+++N G S+ +I L G+NL Sbjct: 313 QDLLKISNMGPSSVKQIVEALD---KRFGINL 341 >gi|119668301|emb|CAK95453.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 212 Score = 235 bits (600), Expect = 7e-60, Method: Composition-based stats. Identities = 90/212 (42%), Positives = 143/212 (67%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + Sbjct: 1 GTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVE 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A Sbjct: 61 EDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAAD 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++L Sbjct: 121 QNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 A++I+ + L +F++ + K + + + Sbjct: 181 AAKIMTEHLAIFVDLTDEAKNAEIMVEKEETH 212 >gi|193795065|gb|ACF21664.1| RpoA [Sinorhizobium sp. 72] Length = 212 Score = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 147/213 (69%), Positives = 181/213 (84%), Gaps = 1/213 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPNHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R+E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKL+M+I+TDGS+TGED++A A+ Sbjct: 61 RSEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLTMSIETDGSVTGEDAIAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQL +F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLSVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR NFGRKSL EIK VL + G Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASSG 212 >gi|150036794|emb|CAM98273.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 213 Score = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 93/212 (43%), Positives = 138/212 (65%), Gaps = 2/212 (0%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKV 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 VLAIDSDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKG 120 Query: 153 HGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 121 RGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGS 180 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + D+++L ++IL + LG+F++ E Sbjct: 181 VKPSDALSLGAKILAEHLGLFMDISPVAAEAS 212 >gi|193795067|gb|ACF21665.1| RpoA [Rhizobium tropici] Length = 212 Score = 235 bits (599), Expect = 8e-60, Method: Composition-based stats. Identities = 151/212 (71%), Positives = 181/212 (85%), Gaps = 1/212 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSITGED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSITGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|150036796|emb|CAM98274.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 214 Score = 235 bits (599), Expect = 9e-60, Method: Composition-based stats. Identities = 93/214 (43%), Positives = 138/214 (64%), Gaps = 2/214 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 LAIDSDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI Sbjct: 121 GYTSADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 D+++L ++IL + LG+F++ E + Sbjct: 181 KPSDALSLGAKILAEHLGLFMDISPVAAEASVMV 214 >gi|150036808|emb|CAM98277.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 235 bits (599), Expect = 9e-60, Method: Composition-based stats. Identities = 97/235 (41%), Positives = 144/235 (61%), Gaps = 2/235 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 PLERGYGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + I +GP VTA D+ DIEVLNPD I L + M +T KG Sbjct: 61 FATDSAEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI Sbjct: 121 GYSSAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 D+++L S+IL + L +F + ++ K + + A +E+L+LS Sbjct: 181 KPSDALSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLS 235 >gi|71056900|emb|CAH59007.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 219 Score = 235 bits (599), Expect = 9e-60, Method: Composition-based stats. Identities = 99/219 (45%), Positives = 147/219 (67%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGLALKLYA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I GP VTAGDI +D+E+LN D VIC++ A LTV G GYV A Sbjct: 61 EEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPGRGYVQA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++ Sbjct: 121 DENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 LA++I+ + L +F+N + K + + + L Sbjct: 181 LAAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLE 219 >gi|119662321|emb|CAJ33148.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefirgranum] Length = 215 Score = 235 bits (599), Expect = 9e-60, Method: Composition-based stats. Identities = 93/215 (43%), Positives = 136/215 (63%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + MEL V G GYV A Sbjct: 61 DEQKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAKGGHLHMELAVKNGRGYVTA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 A++IL + +F + + K + + + Sbjct: 181 FAAKILVEHFKVFESADANTKFSEVMVEKEDDKKE 215 >gi|193795070|gb|ACF21666.1| RpoA [Rhizobium tropici CIAT 899] gi|193795078|gb|ACF21669.1| RpoA [Rhizobium tropici] Length = 212 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 150/212 (70%), Positives = 181/212 (85%), Gaps = 1/212 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSI+GED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSISGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|119662363|emb|CAJ33170.1| RNA polymerase alpha subunit [Lactobacillus spicheri] Length = 210 Score = 234 bits (598), Expect = 1e-59, Method: Composition-based stats. Identities = 98/210 (46%), Positives = 143/210 (68%), Gaps = 4/210 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK++G Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNVKKIALKLNG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I +GP VTAGDI D++VLNPD I + A M +T KG GYV Sbjct: 61 ADDQEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGATFHMRMTADKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI Sbjct: 121 SADENKARNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKED 244 ++++LA++IL + L MF++ + K + Sbjct: 181 EAISLAAKILTEHLAMFVDLTDEAKNAEIM 210 >gi|161511723|emb|CAP16872.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 229 Score = 234 bits (597), Expect = 1e-59, Method: Composition-based stats. Identities = 105/229 (45%), Positives = 145/229 (63%), Gaps = 2/229 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I GP VTAGDI D+ VLNPD IC + LT G GY A Sbjct: 61 DEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ Sbjct: 121 ENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +L+++IL + L +F+N + KE + + + L +EEL+LS Sbjct: 181 SLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 229 >gi|193795075|gb|ACF21668.1| RpoA [Rhizobium tropici] gi|193795083|gb|ACF21671.1| RpoA [Rhizobium tropici] Length = 212 Score = 234 bits (597), Expect = 1e-59, Method: Composition-based stats. Identities = 150/212 (70%), Positives = 182/212 (85%), Gaps = 1/212 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSI+GED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSISGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E+ V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKETEEEA-VTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|193795081|gb|ACF21670.1| RpoA [Rhizobium gallicum] Length = 212 Score = 234 bits (597), Expect = 1e-59, Method: Composition-based stats. Identities = 149/212 (70%), Positives = 181/212 (85%), Gaps = 1/212 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKL+MTI+TDGS++GED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLTMTIETDGSVSGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+ELELSVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDELELSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 GDLIQ+TEA+MLR NFGRKSL EIK VL +M Sbjct: 180 GDLIQKTEAEMLRTPNFGRKSLNEIKEVLASM 211 >gi|71056937|emb|CAH59027.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 221 Score = 234 bits (597), Expect = 2e-59, Method: Composition-based stats. Identities = 100/220 (45%), Positives = 145/220 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A Sbjct: 61 EEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGRGYVQA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++++ Sbjct: 121 DENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 LA++IL + L +F+N + K + + + L Sbjct: 181 LAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 220 >gi|71056864|emb|CAH58987.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 217 Score = 234 bits (597), Expect = 2e-59, Method: Composition-based stats. Identities = 96/217 (44%), Positives = 143/217 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKLYA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 K + I GP VTAGDI +D+E+LN D +C + A LTV G GYV A Sbjct: 61 QEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLYLCTVSEGATFHARLTVKPGRGYVQA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++TE+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI +++++ Sbjct: 121 DENKTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGNRQDFDKLTMEIWTDGSIIPQEALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 L+++IL + L +F+N + K + + + Sbjct: 181 LSAKILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKM 217 >gi|117575079|emb|CAJ84779.1| RNA polymerase alpha subunit [Lactobacillus amylotrophicus] Length = 202 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 93/201 (46%), Positives = 139/201 (69%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL++SL G+A++ VQIDGVLHE S+I GV ED+T IILN+K + LK Sbjct: 1 YGTTLGNSLRRVLLASLPGSAVSYVQIDGVLHEFSTIPGVLEDVTQIILNLKKLTLKSIA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 K I GP VTAGD++ +++E+LNP+ I + A +RM + V +G GYVPA Sbjct: 61 ADEKLAEIDVEGPATVTAGDLKVDDEVEILNPNQYIATVAEGAHLRMTVAVKQGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG++ +D+L+SPI+KV+Y VE R G+ DYDKL+M + TDGSIT D+++ Sbjct: 121 DQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTRVGRNNDYDKLTMEVWTDGSITPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKK 239 ++IL + L +F+N + Sbjct: 181 FGAKILTEHLNVFMNTNLETE 201 >gi|119662825|emb|CAJ33205.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 190 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 90/190 (47%), Positives = 133/190 (70%), Gaps = 2/190 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKQVA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + I +GP VTA DIQ D+ +LN D I + A + +++T KG Sbjct: 61 LKIDSEDAKDLEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTADKGR 120 Query: 154 GYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+GS+ Sbjct: 121 GYSSADDNKTRMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTNGSL 180 Query: 212 TGEDSVALAS 221 T ++++LA+ Sbjct: 181 TPTEAISLAA 190 >gi|193795072|gb|ACF21667.1| RpoA [Rhizobium tropici] Length = 212 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 149/213 (69%), Positives = 179/213 (84%), Gaps = 1/213 (0%) Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 KR+ + K+GPGVVTAGDIQTV DIE+LNP+HVIC LD A +RME TV+ G GYVPA+ + Sbjct: 1 KRMVVRKQGPGVVTAGDIQTVGDIEILNPEHVICTLDEGAEIRMEFTVNNGKGYVPAERN 60 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E+ PIGLI +D+LYSP+KKVSY VE+ REGQVLDYDKLSM+I+TDGSITGED+VA A+ Sbjct: 61 RAEDAPIGLIPVDSLYSPVKKVSYKVENTREGQVLDYDKLSMSIETDGSITGEDAVAFAA 120 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 RILQDQLG+F+NF+EP+KE +E V L FNPALLKKV+E E SVRS NCL+ +NIVY+ Sbjct: 121 RILQDQLGVFVNFDEPQKEAEE-EAVTELAFNPALLKKVDERERSVRSANCLKNDNIVYI 179 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 GDLIQ+TEA+MLR N GRKSL EIK VL +MG Sbjct: 180 GDLIQKTEAEMLRTPNLGRKSLNEIKEVLASMG 212 >gi|119668341|emb|CAK95468.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 209 Score = 234 bits (596), Expect = 2e-59, Method: Composition-based stats. Identities = 93/208 (44%), Positives = 142/208 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K Sbjct: 1 GNSLRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKN 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTA DI D+EVLNP+ IC + + +TV KG GYV A +++ Sbjct: 61 IEIDVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKS 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I Sbjct: 121 DDMPIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLP 251 L + L +F+N + K + + + Sbjct: 181 LTEHLDIFVNLTDEAKNAEIMVEKEETH 208 >gi|71056939|emb|CAH59028.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecalis] Length = 220 Score = 233 bits (595), Expect = 2e-59, Method: Composition-based stats. Identities = 99/219 (45%), Positives = 146/219 (66%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+I GV ED+T IILNIKG+ LK+ + Sbjct: 1 GTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIPGVREDVTQIILNIKGLALKLYAE 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI +D+E+LN D VIC++ A LTV G GYV A Sbjct: 61 EEKTLEIDITGPATVTAGDIIVDSDVEILNKDLVICSVAEGATFHARLTVKPGRGYVQAD 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++L Sbjct: 121 ENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALSL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 A++I+ + L +F+N + K + + + L Sbjct: 181 AAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 219 >gi|195973794|gb|ACG63462.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 290 Score = 233 bits (595), Expect = 2e-59, Method: Composition-based stats. Identities = 102/291 (35%), Positives = 166/291 (57%), Gaps = 7/291 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V E Sbjct: 5 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKE 64 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I L Sbjct: 65 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTN 124 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G TE + +G I +D+ ++PIK+V++ + + Sbjct: 125 ERKFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF-----DNGTNE 179 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A +Q+ +F++ P K + +P LLK Sbjct: 180 TLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILLKP 238 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 239 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|255027946|ref|ZP_05299932.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 219 Score = 233 bits (595), Expect = 3e-59, Method: Composition-based stats. Identities = 89/219 (40%), Positives = 139/219 (63%) Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GPGVVTA DI +D+E+LNPD I L +A + L ++G GY PA Sbjct: 1 DEEKTLEIDMQGPGVVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNATRGRGYTPA 60 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKL+ + TDGSI+ E++V+ Sbjct: 61 DQNKRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLTFDVLTDGSISPEEAVS 120 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 L ++IL + L +F+N + ++ + I + L +EEL+LSVRS NCL+ I Sbjct: 121 LGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRSYNCLKRAGI 180 Query: 279 VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 181 NTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 219 >gi|149195168|ref|ZP_01872259.1| DNA-directed RNA polymerase subunit alpha [Caminibacter mediatlanticus TB-2] gi|149134720|gb|EDM23205.1| DNA-directed RNA polymerase subunit alpha [Caminibacter mediatlanticus TB-2] Length = 333 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 100/321 (31%), Positives = 162/321 (50%), Gaps = 7/321 (2%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 +E N+ + P GF ++ + +RR L+++ G A ++I+GV HE S+KG+ ED Sbjct: 17 NKEGNKASIEVYPFEAGFGVSVAHPIRRTLIAATTGFAPVGLKIEGVKHEFDSLKGMLED 76 Query: 82 LTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 + I+N+K I K+ V F GP + D+ +I+V+ PD I L+ Sbjct: 77 VASFIINLKNIRFKIKNSSKDEVVVEYFFTGPKEIKGADLI-NEEIDVVTPDEYIATLNE 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + +++ L + KG G+V A + + P G I +DA +SPIKK Y +E+ +Y+ Sbjct: 136 EGELKLTLLIKKGMGFV-AVENFRDTLPEGFIGLDAYFSPIKKAVYNIENVLVEDDPNYE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 K+ ++TDG I D+ A +Q G+F +E K E K+ NV+ L K Sbjct: 195 KVIFEVETDGQIDPIDAFKNAVNNYLNQFGVF--SKEFKLETKKVENVELPDEYNILFKP 252 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +EEL L RS N L I ++G+L+ + + + N G KSL EI L +G + Sbjct: 253 IEELNLRSRSFNALDRAGIKFIGELVLMGKEKISNIKNLGTKSLEEIFEKLEEIGFSINK 312 Query: 320 NLP-DWPPESIEELAKKYEDK 339 LP D+ E+LAK ++ Sbjct: 313 TLPLDFKKAIEEKLAKLKGEE 333 >gi|119662845|emb|CAJ33215.1| RNA polymerase alpha subunit [Lactobacillus hamsteri] Length = 212 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 95/212 (44%), Positives = 138/212 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ +D+EVLNPD IC + + M++ V G GYV A Sbjct: 61 DEQKVIELDVEGPATVTADDLKVDSDVEVLNPDQYICTIAEGGHLHMQIAVKNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++E+ PIG+I +D+L+SPIKKV+Y VESAR G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSEDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 AS+IL + +F + + K + + + Sbjct: 181 FASKILVEHFKVFESADANAKFSEVMVEKEDD 212 >gi|86438806|emb|CAJ43368.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 192 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 90/192 (46%), Positives = 129/192 (67%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK Sbjct: 1 FGTTLGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTA D++ D++VLNPD IC + + ME+ V G GYV A Sbjct: 61 DERKVIELDVEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 SDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 180 Query: 219 LASRILQDQLGM 230 A++IL + + Sbjct: 181 FATKILVEHFKV 192 >gi|195973796|gb|ACG63463.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] gi|195973798|gb|ACG63464.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] gi|195973800|gb|ACG63465.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] Length = 290 Score = 233 bits (594), Expect = 3e-59, Method: Composition-based stats. Identities = 102/291 (35%), Positives = 166/291 (57%), Gaps = 7/291 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V E Sbjct: 5 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKE 64 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I L Sbjct: 65 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTN 124 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G TE + +G I +D+ ++PIK+V++ + + Sbjct: 125 EREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF-----DNGTNE 179 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A +Q+ +F++ P K + +P LLK Sbjct: 180 TLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILLKP 238 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 239 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|71056866|emb|CAH58988.1| DNA-directed RNA polymerase alpha chain [Enterococcus hermanniensis] Length = 214 Score = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 98/213 (46%), Positives = 143/213 (67%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAAIT +QIDG LHE S+IKGV ED+ IILNIKG+ LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAITNIQIDGALHEFSTIKGVREDVVQIILNIKGLALKLFA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A Sbjct: 61 EEEKTLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPGRGYVQA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++++ Sbjct: 121 DENKKEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 LA++IL + L +F+N + K + + + Sbjct: 181 LAAKILTEHLDIFVNLTDEAKNAEIMVEKEETQ 213 >gi|150036822|emb|CAM98042.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax KCTC 3537] Length = 204 Score = 232 bits (593), Expect = 4e-59, Method: Composition-based stats. Identities = 91/204 (44%), Positives = 135/204 (66%), Gaps = 2/204 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG Sbjct: 61 LAIDSDEEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI Sbjct: 121 GYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFE 235 D+++L ++IL + L +F + Sbjct: 181 KPSDALSLGAKILSEHLNLFTDIS 204 >gi|151416840|emb|CAO78491.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 233 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 98/233 (42%), Positives = 149/233 (63%), Gaps = 2/233 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 TLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEE 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A + Sbjct: 61 RSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADEN 120 Query: 162 RT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 121 KQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 S+IL + L +F++ E + V+ + + + +E+L+LSVRS NC Sbjct: 181 GSKILAEHLNLFMDISPVAAEANVMVEVEPVAVSASDSAPIEDLDLSVRSYNC 233 >gi|195973802|gb|ACG63466.1| DNA-directed RNA polymerase subunit alpha [Francisella philomiragia] Length = 290 Score = 232 bits (592), Expect = 6e-59, Method: Composition-based stats. Identities = 101/291 (34%), Positives = 165/291 (56%), Gaps = 7/291 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V IDGVLHE S+++ V E Sbjct: 5 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNIDGVLHEYSTLEDVKE 64 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + G VTAGD +T IE++N D I L Sbjct: 65 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGAVTAGDFKTTQGIEIINKDQPIATLTN 124 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G TE + +G I +D+ ++PIK+V++ + + Sbjct: 125 EREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF-----DNGTNE 179 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A +Q+ +F++ P K + +P LLK Sbjct: 180 TLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILLKP 238 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 239 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|154424803|emb|CAL18504.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 212 Score = 232 bits (591), Expect = 8e-59, Method: Composition-based stats. Identities = 89/212 (41%), Positives = 141/212 (66%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ + Sbjct: 1 LERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAV 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K + K + + +GP VTAGDI T +D+E++N DH + + A + +TV+ G Sbjct: 61 KSYVEDEKIIELDVQGPAEVTAGDILTDSDVEIVNSDHYLFTIAEGASFKASMTVATNRG 120 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 YV A+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I E Sbjct: 121 YVAAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPE 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 D++ L++R+L + L +F + E K Sbjct: 181 DALGLSARVLIEHLNLFTDLTEVAKTTDVMKE 212 >gi|150036778|emb|CAM98268.1| DNA-directed RNA polymerase alpha chain [Fructobacillus fructosus KCTC 3544] Length = 206 Score = 232 bits (591), Expect = 8e-59, Method: Composition-based stats. Identities = 92/206 (44%), Positives = 132/206 (64%), Gaps = 2/206 (0%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 I EPL RG+ TLGN+LRRVL+SSL G AI VQIDGV+HE S++ GV ED+T +ILN+ Sbjct: 1 FIVEPLERGYGTTLGNSLRRVLLSSLPGVAINTVQIDGVVHEFSTVDGVVEDVTQLILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + + + GP VTA D+ D+EVLNPD I L + M +TV Sbjct: 61 KKVVFATDSAEEHSLELDVTGPRDVTAADLVGSADVEVLNPDLHIATLAAGKSLHMTVTV 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 KG GY A+ ++ + PIG++T+D++Y+PI++V+Y VE R G D+DKL+M + T Sbjct: 121 VKGRGYASAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVEQKRVGARDDFDKLTMEVWT 180 Query: 208 DGSITGEDSVALASRILQDQLGMFIN 233 +GSI D+++L S+IL + L +F + Sbjct: 181 NGSIKPSDALSLGSKILTEHLNLFTD 206 >gi|161511729|emb|CAP16875.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 229 Score = 232 bits (591), Expect = 8e-59, Method: Composition-based stats. Identities = 102/229 (44%), Positives = 147/229 (64%), Gaps = 2/229 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI D+ +LNP+ IC + LT G GY A Sbjct: 61 EDKTLEINVAGPANVTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 160 HHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ Sbjct: 121 ENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +L+++IL + L +F+N + KE + + + L +EEL+LS Sbjct: 181 SLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 229 >gi|195973808|gb|ACG63469.1| DNA-directed RNA polymerase subunit alpha [Francisella noatunensis] Length = 290 Score = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 101/291 (34%), Positives = 165/291 (56%), Gaps = 7/291 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V E Sbjct: 5 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKE 64 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I L Sbjct: 65 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTN 124 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G E + +G I +DA ++PIK+V++ + + Sbjct: 125 EREFSLVATVSVGRNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIFDNGAS-----E 179 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A +Q+ +F++ + P K + +P LLK Sbjct: 180 TLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLKVP-SNGKTGDALLDSNIDPILLKP 238 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 239 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|256370803|ref|YP_003108628.1| DNA-directed RNA polymerase subunit alpha [Candidatus Sulcia muelleri SMDSEM] gi|256009595|gb|ACU52955.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Sulcia muelleri SMDSEM] Length = 349 Score = 231 bits (590), Expect = 1e-58, Method: Composition-based stats. Identities = 108/337 (32%), Positives = 176/337 (52%), Gaps = 24/337 (7%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K E + + + EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFTKKENLRVLKLTNYEGHFKIEPLYPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV---------------TIFKRGPGV 113 HE ++IKGV ED+T+I+LN+K I K + + I K Sbjct: 63 DHEFATIKGVKEDMTEILLNLKKIRFKKKMEMEEEEEEEEEEEEEEGEKFNIIIKNEKEE 122 Query: 114 VTAGDI-QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 +TAGD+ + ++ E++NPD +I N + + + + KG GYVP++ + + G I+ Sbjct: 123 ITAGDLGEYIHLFEIINPDLIILNKKKFIYLNITIVIKKGIGYVPSEENEKHINTNGTIS 182 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D++++PIKKV YT+E+ + Y++L I TDG+I +D++ AS ++ L + Sbjct: 183 MDSIFTPIKKVKYTIENCSVSKNSTYERLFFEIKTDGTINPKDALIKASNLVIRHLKLLS 242 Query: 233 NFE-----EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 N + K + K+ N L L +E LSVR+ NCL+ I GDLI+ Sbjct: 243 NKKISLNYNKKYKKKKQTNENYLKLRNILNSSLERKNLSVRTLNCLKKAKIFTWGDLIKS 302 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 G+KSL E+ ++ + ++ GMNL D+ Sbjct: 303 NPT---NFKYLGKKSLEELDLIMKKLTIYYGMNLEDY 336 >gi|325989737|ref|YP_004249436.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma suis KI3806] gi|323574822|emb|CBZ40482.1| DNA-directed RNA polymerase subunit alpha (RNAP subunit alpha) [Mycoplasma suis] Length = 337 Score = 231 bits (589), Expect = 1e-58, Method: Composition-based stats. Identities = 89/322 (27%), Positives = 153/322 (47%), Gaps = 20/322 (6%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 IE V+ E ++ PL RG +T+GN LRR+L+SS+ A+ A+++ G+ HE S Sbjct: 9 IETEVVDS-SETSASVVFYPLERGLGNTIGNTLRRLLLSSIPSPAVFAIRVAGLPHEFSP 67 Query: 75 IKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQT 121 IKGV ED+T +I+ IK + LK+ + + I K GVV A DI+ Sbjct: 68 IKGVAEDVTQLIIAIKKLVLKVDEKIADFEHLKDLPIEKWPFLKIRKSKVGVVQAKDIEC 127 Query: 122 VNDIEVLNPDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+NP+ +C + + + ++L G+ + +R + LI ID +SP+ Sbjct: 128 FAGVEVVNPELKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPV 187 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--- 237 V + V + + D+L + + T+GSI D+V A++IL + Sbjct: 188 LLVDWKVSEEKTTKYGISDRLRLNVSTNGSIKALDAVWYAAKILISMFTKIAEHDVELFK 247 Query: 238 --KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K D K + +E+LEL+ R+ N L+ I + +L+ + ++ Sbjct: 248 LDSYAKKVDRKEKEEVHSSISSSPIEDLELTQRTFNILKNSGINTISELVAYSFDELAEF 307 Query: 296 ANFGRKSLVEIKGVLGTMGLFL 317 N G+K+L+E++ L G Sbjct: 308 RNLGKKALLEVQAKLEERGYKF 329 >gi|161511721|emb|CAP16871.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 102/225 (45%), Positives = 141/225 (62%), Gaps = 2/225 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D Sbjct: 1 GTTLGNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA- 158 K + I GP VTAGDI D+ VLNPD IC + LT G GY A Sbjct: 61 DEKTLDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSAD 120 Query: 159 -KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ Sbjct: 121 ENKARKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEAT 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 +L+++IL + L +F+N + KE + + + L +EE Sbjct: 181 SLSAKILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEE 225 >gi|325973301|ref|YP_004250365.1| DNA-directed RNA polymerase, subunit alpha [Mycoplasma suis str. Illinois] gi|323651903|gb|ADX97985.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma suis str. Illinois] Length = 340 Score = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 89/322 (27%), Positives = 153/322 (47%), Gaps = 20/322 (6%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 IE V+ E ++ PL RG +T+GN LRR+L+SS+ A+ A+++ G+ HE S Sbjct: 12 IETEVVDS-SETSASVVFYPLERGLGNTIGNTLRRLLLSSIPSPAVFAIRVAGLPHEFSP 70 Query: 75 IKGVHEDLTDIILNIKGINLKMSG-------------DSHKRVTIFKRGPGVVTAGDIQT 121 IKGV ED+T +I+ IK + LK+ + + I K GVV A DI+ Sbjct: 71 IKGVAEDVTQLIIAIKKLVLKVDEKIADFEHLKDLPIEKWPFLKIRKSKVGVVQAKDIEC 130 Query: 122 VNDIEVLNPDHVICNLDVDA-VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +EV+NP+ +C + + + ++L G+ + +R + LI ID +SP+ Sbjct: 131 FAGVEVVNPELKLCEITEEGTSLEIDLYCMVDRGHRSSNENRERLSTLSLIPIDTTFSPV 190 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--- 237 V + V + + D+L + + T+GSI D+V A++IL + Sbjct: 191 LLVDWKVSEEKTTKYGISDRLRLNVSTNGSIKALDAVWYAAKILISMFTKIAEHDVELFK 250 Query: 238 --KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 K D K + +E+LEL+ R+ N L+ I + +L+ + ++ Sbjct: 251 LDSYAKKVDRKEKEEVHSSISSSPIEDLELTQRTFNILKNSGINTISELVAYSFDELAEF 310 Query: 296 ANFGRKSLVEIKGVLGTMGLFL 317 N G+K+L+E++ L G Sbjct: 311 RNLGKKALLEVQAKLEERGYKF 332 >gi|161511755|emb|CAP16888.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 187 Score = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 94/186 (50%), Positives = 132/186 (70%), Gaps = 2/186 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE SSI+GV ED+T IILNIK ++LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSSIEGVVEDVTQIILNIKKVSLKIES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A Sbjct: 61 DDEKSLEIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ Sbjct: 121 DENKARKDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEA 180 Query: 217 VALASR 222 +L+++ Sbjct: 181 TSLSAK 186 >gi|119662841|emb|CAJ33213.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 220 Score = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 102/220 (46%), Positives = 149/220 (67%), Gaps = 4/220 (1%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D Sbjct: 1 GTTLGNSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSD 60 Query: 100 S--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 K ++I GP VTAGDI T +D+E+LNPD I + A M +T +KG GYV Sbjct: 61 DNETKSMSINVTGPADVTAGDIVTDSDVEILNPDLHIATVADGATFHMNMTANKGRGYVS 120 Query: 158 AKHHRTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A+ ++ +ND PIG++ +D++Y+PI++V+Y VE AR GQ DYDKL++ + T+GSIT D Sbjct: 121 AEENKAKNDGMPIGVLPVDSIYTPIERVNYQVEDARVGQRDDYDKLTLDVWTNGSITPSD 180 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +++LA++IL +FI+ + K + + Sbjct: 181 AISLAAKILNQHFQLFIDLTDRAKNANVMVEKEESHKEKM 220 >gi|158148899|dbj|BAF81984.1| RNA polymerase alpha subunit [Lactobacillus senmaizukei] Length = 199 Score = 231 bits (588), Expect = 2e-58, Method: Composition-based stats. Identities = 98/198 (49%), Positives = 141/198 (71%), Gaps = 4/198 (2%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG- 98 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I LK++G Sbjct: 1 GTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKIALKLNGS 60 Query: 99 -DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 D + + I +GP VTAGDI T D++VLNPD I + A M +T KG GYV Sbjct: 61 DDQEETMEINVKGPAQVTAGDIVTGADVDVLNPDLYIATVADGATFHMRMTADKGRGYVS 120 Query: 158 A--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A R + PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI + Sbjct: 121 ADENKARNTDMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSE 180 Query: 216 SVALASRILQDQLGMFIN 233 ++ALA++IL + L MF++ Sbjct: 181 AIALAAKILTEHLAMFVD 198 >gi|195973806|gb|ACG63468.1| DNA-directed RNA polymerase subunit alpha [Francisella noatunensis] gi|198417145|gb|ACH87846.1| RpoA [Francisella noatunensis subsp. noatunensis] Length = 290 Score = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 104/295 (35%), Positives = 168/295 (56%), Gaps = 8/295 (2%) Query: 18 IVLGQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I L +E + P+ +G AH LGN++RR L+SSL GA+I V I G+LHE S+++ Sbjct: 1 IQLKEELGTFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGILHEYSTLE 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 V ED+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I Sbjct: 61 DVKEDVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIA 120 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 L + + TVS G TE + +G I +DA ++PIK+V++ + Sbjct: 121 TLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGAS-- 178 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 + L + + T+G+I +V A +Q+ +F++ P K + +P Sbjct: 179 ---ETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPI 234 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 235 LLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMKIPNLGKKSLNEIKQIL 289 >gi|150036754|emb|CAM98262.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 220 Score = 230 bits (587), Expect = 2e-58, Method: Composition-based stats. Identities = 94/219 (42%), Positives = 136/219 (62%), Gaps = 2/219 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL G AI VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 PLERGYGTTLGNSLRRVLLSSLPGVAINTVQIDGVVHEFSTVDGVAEDVTQLILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 + I +GP VTA D DIEVLNPD I L + M +TV KG Sbjct: 61 FATDSAEEHTLEIDVQGPKDVTAADFVGSADIEVLNPDLHIATLAAGKSLHMTVTVVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 GY A+ ++ + PIG++T+D++Y+PI++V+Y VE R G D+DKL+M + T+GSI Sbjct: 121 GYASAEENKQLRDEMPIGVLTVDSIYTPIERVNYHVEQKRVGSRDDFDKLTMEVWTNGSI 180 Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 D+++L S+IL + L +F + +E K + ++ Sbjct: 181 KPSDALSLGSKILTEHLNLFTDISPVAQETKVMVEAEAP 219 >gi|119668355|emb|CAK95472.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 214 Score = 230 bits (586), Expect = 3e-58, Method: Composition-based stats. Identities = 100/214 (46%), Positives = 144/214 (67%), Gaps = 2/214 (0%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D Sbjct: 1 TLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDET 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--K 159 K + I +GP VTA DI D+EVLNPD IC + A M +T + G GYV A Sbjct: 61 KTLEIDVKGPANVTASDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDN 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++++L Sbjct: 121 KHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 +++IL D L +F+N + K + + Sbjct: 181 SAKILTDHLSIFVNLTDEAKNTDVMVEKEETHKE 214 >gi|154424747|emb|CAL18476.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 216 Score = 229 bits (585), Expect = 4e-58, Method: Composition-based stats. Identities = 94/215 (43%), Positives = 142/215 (66%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RG+ TLGN+LRRVL++SL GAA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K Sbjct: 1 ERGYGTTLGNSLRRVLLASLPGAAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + K + + GP VTAGDI T +DIE++NPDH + + + ++ +TV+ G GY Sbjct: 61 SYVEDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGY 120 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 VPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED Sbjct: 121 VPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPED 180 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 ++ L++RIL + L +F N E K + + Sbjct: 181 ALGLSARILTEHLDLFTNLTEIAKSTEVMKEADTE 215 >gi|150187035|emb|CAK30156.1| RNA polymerase alpha subunit [Streptococcus entericus] Length = 222 Score = 229 bits (585), Expect = 4e-58, Method: Composition-based stats. Identities = 91/222 (40%), Positives = 143/222 (64%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ Sbjct: 1 PLERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNLKGLA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K D K + + GP VTAGDI T +DIE++N +H + + A + L V+ Sbjct: 61 IKSHVDEEKTMELDIVGPAEVTAGDILTDSDIEIINTNHYLFTIAEGASFKAVLKVNTDR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVPA++++ + P+G + IDA+Y+P+KKV+Y VE AR G +DKL++ I+T+G+I Sbjct: 121 GYVPAENNKKGDAPVGTLAIDAIYTPVKKVNYQVEPARVGSNDGFDKLTIDIETNGTIIP 180 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ED++ L++ +L + L +F + + + + + Sbjct: 181 EDALGLSANVLINHLNLFTDLTDIANNMDVLKETEVVSDEKV 222 >gi|150036760|emb|CAM98030.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 223 Score = 229 bits (585), Expect = 4e-58, Method: Composition-based stats. Identities = 89/214 (41%), Positives = 135/214 (63%), Gaps = 2/214 (0%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 GYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAID 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY Sbjct: 61 SDDERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTS 120 Query: 158 AKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D Sbjct: 121 ADENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSD 180 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +++L ++IL + L +F++ E + + Sbjct: 181 ALSLGAKILAEHLNLFMDISPVAAEASVMVEAEP 214 >gi|195973804|gb|ACG63467.1| DNA-directed RNA polymerase subunit alpha [Francisella noatunensis subsp. orientalis] gi|225624845|gb|ACN96557.1| RpoA [Francisella noatunensis subsp. orientalis] Length = 290 Score = 229 bits (584), Expect = 4e-58, Method: Composition-based stats. Identities = 102/291 (35%), Positives = 166/291 (57%), Gaps = 7/291 (2%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ +G AH LGN++RR L+SSL GA+I V I GVLHE S+++ V E Sbjct: 5 EELGAFGYKIQVSPVEKGMAHILGNSIRRFLLSSLSGASIIKVNISGVLHEYSTLEDVKE 64 Query: 81 DLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 D+ +I+ N+K + +K+ + K + + GVVTAGD +T IE++N D I L Sbjct: 65 DVVEIVSNLKKVAIKLDKNVSKVELELSVTKSGVVTAGDFKTTQGIEIINKDQPIATLTN 124 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + TVS G TE + +G I +DA ++PIK+V++ + + Sbjct: 125 EREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGAS-----E 179 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 L + + T+G+I +V A + +Q+ +F++ P K + +P LLK Sbjct: 180 TLEVFVKTNGTIESLAAVTKALKYFCEQISVFVSLRVP-SNGKTGDALLDSNIDPILLKP 238 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ ++++ N G+KSL EIK +L Sbjct: 239 IDDLELTVRSSNCLRAENIKYLGDLVQYSESQLIKIPNLGKKSLNEIKQIL 289 >gi|150036838|emb|CAM98284.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 228 Score = 229 bits (584), Expect = 4e-58, Method: Composition-based stats. Identities = 92/228 (40%), Positives = 142/228 (62%), Gaps = 2/228 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D++ Sbjct: 121 ENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +L ++IL + L +F++ E + + + + + +E+L+L Sbjct: 181 SLGAKILAEHLNLFMDISPVAAEANVMVEAEPVAVSASDSAPIEDLDL 228 >gi|228017206|gb|ACP52026.1| RNA polymerase alpha subunit [Pinus leiophylla var. chihuahuana] Length = 335 Score = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 75/317 (23%), Positives = 143/317 (45%), Gaps = 23/317 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 + + T+G A+RR L+ + G IT V+++ + HE S+I G+ E Sbjct: 24 SKRLHYGRFXXXXXXXXXXDTIGIAMRRALLGEVEGTCITRVKLENIKHEYSAIIGIEES 83 Query: 82 LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 + DI++N+K I L+ + +I+ GP VTA DI +++++ I L Sbjct: 84 VHDILMNLKEIVLRSDSYGIREASIYIVGPRNVTAQDIILPPSVKIIDTTQHIARLTKSI 143 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + L + K GY+ H N G+ IDA++ P++ +Y++ S G + + L Sbjct: 144 TSDIRLQIEKNRGYII---HSPNNYQDGIFPIDAVFMPVRDANYSIHSYGSGNEI-REVL 199 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL----------- 250 + I T+G +T +++ ASR L D F++ EE + + ++ Sbjct: 200 FLEIWTNGGLTPREALYEASRNLIDLFIPFLHGEEQNIDGMNNKKGSNMLPFPLSHLLTD 259 Query: 251 -----PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 L +++L LR NI + DL+ + D++R+ +FG++S+ + Sbjct: 260 TGETKEKIAFQLIFIDQLXXXXXXXXXLRRANIHTLLDLLNYSREDLMRIEHFGKESVEQ 319 Query: 306 IKGVLGTMGLFLGMNLP 322 + VL + ++ P Sbjct: 320 VLEVLQKL---FAIDPP 333 >gi|190411125|gb|ACE78317.1| RpoA [Vibrio parahaemolyticus] Length = 244 Score = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 106/247 (42%), Positives = 165/247 (66%), Gaps = 8/247 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HH 161 + K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ Sbjct: 61 LNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ Sbjct: 121 EEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQRT 288 GDL+QRT Sbjct: 238 GDLVQRT 244 >gi|119668307|emb|CAK95506.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. delbrueckii] Length = 209 Score = 229 bits (584), Expect = 5e-58, Method: Composition-based stats. Identities = 86/209 (41%), Positives = 131/209 (62%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 GF TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+K + L+ Sbjct: 1 GFGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNLKKLVLRAY 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + K + + GP VTA D++ D+EVLNPD IC + + M + V G GYVP Sbjct: 61 TEEVKTIELNVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVP 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A ++T IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+GSI D++ Sbjct: 121 ASENKTAEMFIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDIN 246 A+R+L + F + + + + + Sbjct: 181 NFAARVLVEHFKAFESADAAAEIGEVMVE 209 >gi|119668339|emb|CAK95509.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 218 Score = 229 bits (583), Expect = 6e-58, Method: Composition-based stats. Identities = 103/217 (47%), Positives = 144/217 (66%), Gaps = 4/217 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G Sbjct: 1 YGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I GP VTAGDIQ D+ VLNPD I + A M LT +KG GYV Sbjct: 61 PEDEEENLEIDVIGPADVTAGDIQADGDVTVLNPDLHIATVAEGATFHMRLTANKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I TDGSIT Sbjct: 121 SAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 ++V+LA++IL + L MF++ + K + + + Sbjct: 181 EAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEKEETH 217 >gi|150187048|emb|CAK30159.1| RNA polymerase alpha subunit [Streptococcus australis ATCC 700641] Length = 217 Score = 229 bits (583), Expect = 6e-58, Method: Composition-based stats. Identities = 92/217 (42%), Positives = 140/217 (64%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRRVL++SL GAA+T++ I+GVLHE ++ GV ED+ IILN+KGI +K Sbjct: 1 RGYGTTLGNSLRRVLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKS 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 K + + GP VTAGDI T +DIE++NPDH + + + + LTV+ G GYV Sbjct: 61 YVQDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGSSFKATLTVNSGRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 PA ++ ++ P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED+ Sbjct: 121 PADQNKKDDAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + L++RIL + L +F N E V + + Sbjct: 181 LGLSARILTEHLNLFTNLTEIAIATDVMKEVDTASDD 217 >gi|72534420|emb|CAH59046.1| DNA-directed RNA polymerase alpha chain [Enterococcus canis] Length = 218 Score = 229 bits (583), Expect = 6e-58, Method: Composition-based stats. Identities = 97/217 (44%), Positives = 143/217 (65%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LK+ Sbjct: 1 TLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKLYAQEE 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + I GP VTAGDI +D+E+LN D +C + A LTV G GYV A + Sbjct: 61 KTLEIDITGPATVTAGDIIVDSDVEILNKDLYLCTVSEGATFHARLTVKPGRGYVQADEN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 +TE+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI +++++L++ Sbjct: 121 KTEDMPIGVLPVDSIYTPVRRVNYQVENTRVGNRQDFDKLTMEIWTDGSIIPQEALSLSA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +IL + L +F+N + K + + + L Sbjct: 181 KILTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 217 >gi|119662811|emb|CAJ33197.1| RNA polymerase alpha subunit [Lactobacillus psittaci] Length = 205 Score = 229 bits (583), Expect = 6e-58, Method: Composition-based stats. Identities = 92/194 (47%), Positives = 134/194 (69%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++S+ G A++ +QIDGVLHE S++ GV ED+T IILN+K + LK D K Sbjct: 1 GNSLRRVLLTSIPGTALSYIQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSVADEEKI 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTAGD++ +D+ VLNPD IC++ + M+L V G GYV A ++T Sbjct: 61 IELDVEGPATVTAGDLKVDSDVTVLNPDQYICSIAEGGHLHMQLAVKTGRGYVSASENKT 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG+I +D+L+SPIKKV+Y VES R G+ DYDKL++ + TDGSIT D+++ A++I Sbjct: 121 EDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDYDKLTLEVWTDGSITPSDALSFAAKI 180 Query: 224 LQDQLGMFINFEEP 237 L + +F + Sbjct: 181 LVEHFKVFEFSDAE 194 >gi|154424781|emb|CAL18493.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 205 Score = 229 bits (583), Expect = 6e-58, Method: Composition-based stats. Identities = 92/205 (44%), Positives = 142/205 (69%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK 95 RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K Sbjct: 1 ERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVK 60 Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + K + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GY Sbjct: 61 SYVEDEKILELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGY 120 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 VPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED Sbjct: 121 VPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPED 180 Query: 216 SVALASRILQDQLGMFINFEEPKKE 240 ++ L++R+L + L +F + + K Sbjct: 181 ALGLSARVLIEHLNLFTDLTDVAKA 205 >gi|119668303|emb|CAK95505.1| RNA polymerase alpha subunit [Lactobacillus curvatus] Length = 217 Score = 228 bits (582), Expect = 7e-58, Method: Composition-based stats. Identities = 90/216 (41%), Positives = 143/216 (66%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + K Sbjct: 1 LGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A ++ Sbjct: 61 TIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAADQNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 +++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++ Sbjct: 121 SDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 I+ + L +F++ + K + + + L Sbjct: 181 IMTEHLAIFVDLTDEAKNAEIMVEKEETHKEKMLEM 216 >gi|161511709|emb|CAP16865.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 204 Score = 228 bits (582), Expect = 8e-58, Method: Composition-based stats. Identities = 95/204 (46%), Positives = 141/204 (69%), Gaps = 2/204 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D K + Sbjct: 1 NSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESDDEKSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHR 162 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A R Sbjct: 61 EIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKAR 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L+++ Sbjct: 121 KDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDIN 246 IL + L +F+N + K+ + + Sbjct: 181 ILTEHLALFVNLTDEAKDAEIMVE 204 >gi|150036810|emb|CAM98038.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 235 Score = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 97/235 (41%), Positives = 144/235 (61%), Gaps = 2/235 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 YGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVFATDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + I +GP VTA D+ DIEVLNPD I L + M +T KG GY A Sbjct: 61 AEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKALHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI D+ Sbjct: 121 EENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 ++L S+IL + L +F + ++ K + + A +E+L+LSVRS N Sbjct: 181 LSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSVRSYN 235 >gi|71056858|emb|CAH58984.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 208 Score = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 98/208 (47%), Positives = 142/208 (68%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G Sbjct: 1 GTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQ 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI +++E+LN D IC++ A LTV G GYV A Sbjct: 61 EEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPGRGYVQAD 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L Sbjct: 121 ENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHCEDFDKLTMEIWTDGSIEPLEAMSL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINV 247 +++I+ + L +F+N + K + + Sbjct: 181 SAKIMTEHLDIFVNLTDEAKNAEIMVEK 208 >gi|119668279|emb|CAK95450.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus] Length = 213 Score = 228 bits (581), Expect = 1e-57, Method: Composition-based stats. Identities = 91/203 (44%), Positives = 134/203 (66%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK + D K Sbjct: 1 LGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSNSDEQK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP VTA D++ +D+EVLNPD IC + + M++ V G GYV A ++ Sbjct: 61 VIELDVEGPATVTADDLKVDSDVEVLNPDQYICTIAEGGHLHMQIAVKNGRGYVAASDNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 +E+ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A+ Sbjct: 121 SEDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSINPNDALSFAAN 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDI 245 IL + +F + + K + + Sbjct: 181 ILVEHFKVFESADADNKFSEVMV 203 >gi|119662833|emb|CAJ33209.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 180 Score = 227 bits (580), Expect = 1e-57, Method: Composition-based stats. Identities = 85/180 (47%), Positives = 125/180 (69%), Gaps = 1/180 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRV+++SL GAAIT++ IDGVLHE S+++GV ED+T I+LN+K + Sbjct: 1 PLERGYGTTLGNSLRRVMLASLPGAAITSIDIDGVLHEFSTVEGVTEDVTQIVLNLKKVA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 LK+ + K + + +GP VTA DIQ D+ +LNPD I + A + M +T G Sbjct: 61 LKIESEDAKNLELDVKGPAEVTAADIQADGDVTILNPDLHIATVADGAELHMRMTADTGR 120 Query: 154 GYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY A ++ + IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + TDGS+T Sbjct: 121 GYNSADVNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTDGSLT 180 >gi|71056856|emb|CAH58983.1| DNA-directed RNA polymerase alpha chain [Enterococcus villorum] Length = 219 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 99/219 (45%), Positives = 144/219 (65%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G Sbjct: 1 GTTLGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQ 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I GP VTAGDI +++E+LN D IC++ A LTV G GYV A Sbjct: 61 EEKTLEIDITGPATVTAGDIIVDSEVEILNKDMYICSVSEGATFHARLTVKPGRGYVQAD 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L Sbjct: 121 ENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGHCEDFDKLTMEIWTDGSIEPLEAMSL 180 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +++I+ + L +F+N + K + + + L Sbjct: 181 SAKIMTEHLDIFVNLTDEAKNAEIMVEKEETQKEKMLEM 219 >gi|190411123|gb|ACE78316.1| RpoA [Vibrio parahaemolyticus] Length = 243 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 105/246 (42%), Positives = 164/246 (66%), Gaps = 8/246 (3%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVT 105 LRR+L+SS+ G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T Sbjct: 1 LRRILLSSMPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFIT 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HH 161 + K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H+ Sbjct: 61 LNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ Sbjct: 121 EEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 IL +QL F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 181 TILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYI 237 Query: 282 GDLIQR 287 GDL+QR Sbjct: 238 GDLVQR 243 >gi|119662371|emb|CAJ33174.1| RNA polymerase alpha subunit [Lactobacillus amylolyticus DSM 11664] Length = 208 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 91/205 (44%), Positives = 134/205 (65%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK + D K Sbjct: 1 LGNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSNSDEQK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP VTA D++ +D+EVLNPD IC + + M++ V G GYV A ++ Sbjct: 61 VIELDVEGPATVTADDLKVDSDVEVLNPDQYICTIAEGGHLHMQIAVKNGRGYVAASDNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 +E+ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A+ Sbjct: 121 SEDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSINPNDALSFAAN 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINV 247 IL + +F + + K + + Sbjct: 181 ILVEHFKVFESADADNKFSEVMVEK 205 >gi|119662361|emb|CAJ33169.1| RNA polymerase alpha subunit [Lactobacillus zymae] Length = 202 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 98/202 (48%), Positives = 143/202 (70%), Gaps = 4/202 (1%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG-- 98 TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK++G Sbjct: 1 TTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNVKKIALKLNGAD 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTAGDI D++VLNPD I + A M +T KG GYV A Sbjct: 61 DQEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGATFHMRMTADKGRGYVSA 120 Query: 159 KHHRTEN--DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI ++ Sbjct: 121 DENKTRNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSEA 180 Query: 217 VALASRILQDQLGMFINFEEPK 238 ++LA++IL + L MF++ + Sbjct: 181 ISLAAKILTEHLAMFVDLTDEA 202 >gi|150187071|emb|CAK30164.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 215 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 91/210 (43%), Positives = 143/210 (68%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K Sbjct: 1 RGYGTTLGNSLRRVLLSSLPGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNVKGLAVKS 60 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GYV Sbjct: 61 YVEDEKIIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIADGYTLKASMTVAKKRGYV 120 Query: 157 PAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 PA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED+ Sbjct: 121 PAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDIN 246 + L++R+L + L +F + + K + Sbjct: 181 LGLSARVLIEHLNLFTDLTDVAKATEVMKE 210 >gi|119668325|emb|CAK95462.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 200 Score = 227 bits (579), Expect = 2e-57, Method: Composition-based stats. Identities = 100/199 (50%), Positives = 139/199 (69%), Gaps = 4/199 (2%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G Sbjct: 1 YGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I GP VTAGDIQ +D+ VLNPD I + A M LT ++G GYV Sbjct: 61 PEDEDENLEIDVIGPADVTAGDIQGDSDVTVLNPDLHIATVAEGATFHMRLTANRGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I T+GSIT Sbjct: 121 SAVENKKRATEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTNGSITPS 180 Query: 215 DSVALASRILQDQLGMFIN 233 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVD 199 >gi|119668273|emb|CAK95495.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 203 Score = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 102/203 (50%), Positives = 140/203 (68%), Gaps = 4/203 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G Sbjct: 1 YGTTLGNSLRRTLLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I GP VTAGDIQ D+ VLNPD I + A M LT +KG GYV Sbjct: 61 PEDEEENLEIDVIGPADVTAGDIQADGDVTVLNPDLHIATVAEGATFHMRLTANKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I TDGSIT Sbjct: 121 SAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFINFEEP 237 ++V+LA++IL + L MF++ + Sbjct: 181 EAVSLAAKILTEHLEMFVDLTDE 203 >gi|295809866|emb|CBL85109.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 247 Score = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 104/250 (41%), Positives = 163/250 (65%), Gaps = 8/250 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMANFG 299 ++L+ N G Sbjct: 238 VELLKTPNLG 247 >gi|308125193|gb|ADO14945.1| DNA-directed RNA polymerase alpha chain [Enterococcus saccharolyticus] Length = 204 Score = 227 bits (578), Expect = 2e-57, Method: Composition-based stats. Identities = 96/204 (47%), Positives = 139/204 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LKM G+ K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKMYGEEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D IC + LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGTTFHARLTVRPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI D+++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIEPLDAMSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K + + Sbjct: 181 MTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|161511747|emb|CAP16884.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 215 Score = 227 bits (578), Expect = 3e-57, Method: Composition-based stats. Identities = 96/215 (44%), Positives = 143/215 (66%), Gaps = 2/215 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D K + Sbjct: 1 NSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESDDEKSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHR 162 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A R Sbjct: 61 EIDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKAR 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSI+ ++ +L+++ Sbjct: 121 KDDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSISPSEATSLSAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 IL + L +F+N + K+ + + + L Sbjct: 181 ILTEHLALFVNLTDEAKDAEIMVEKEETHKEKMLE 215 >gi|119672813|emb|CAK95487.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 195 Score = 226 bits (577), Expect = 3e-57, Method: Composition-based stats. Identities = 94/195 (48%), Positives = 137/195 (70%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++S+ G A++ +QIDGVLHE S++ GV ED+T IILN+K + LK D K Sbjct: 1 GNSLRRVLLTSIPGTALSYIQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDEEKI 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA ++T Sbjct: 61 AEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKNGRGYVPASENKT 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ A++I Sbjct: 121 DDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKI 180 Query: 224 LQDQLGMFINFEEPK 238 L + +F++ + Sbjct: 181 LVEHFKVFMSTDMDA 195 >gi|150036834|emb|CAM98282.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 228 Score = 226 bits (577), Expect = 3e-57, Method: Composition-based stats. Identities = 92/228 (40%), Positives = 143/228 (62%), Gaps = 2/228 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A Sbjct: 61 EEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D++ Sbjct: 121 ENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +L ++IL + L +F + E + ++V+ + +E+L+L Sbjct: 181 SLGAKILSEHLNLFTDISSVAAETEVMVDVEQTVSSVQDSAPIEDLDL 228 >gi|150036784|emb|CAM98269.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 211 Score = 226 bits (577), Expect = 3e-57, Method: Composition-based stats. Identities = 89/210 (42%), Positives = 133/210 (63%), Gaps = 2/210 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DDERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDIN 246 ++L ++IL + L +F++ E + Sbjct: 181 LSLGAKILAEHLNLFMDISPVAAEANVMVE 210 >gi|308125189|gb|ADO14943.1| DNA-directed RNA polymerase alpha chain [Enterococcus pallens] Length = 204 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 97/204 (47%), Positives = 140/204 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LK+ + K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVVQIILNIKGLALKLFTEEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDLYICTVSEGATFHARLTVRPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P++KV+Y VE+ R G+ DYDKL+M I TDGSI +++++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDYDKLTMEIWTDGSIIAQEALSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 L + L +F+N + K + + Sbjct: 181 LTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|119662299|emb|CAJ33137.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 214 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 85/213 (39%), Positives = 132/213 (61%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+K + L+ Sbjct: 1 FGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNLKKLELRAYT 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP VTA D++ D+EVLNPD IC + + M + V G GYVPA Sbjct: 61 EEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++T IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+GSI D++ Sbjct: 121 SENKTAEMSIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDALN 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 A+R+L + F + + + + + ++ Sbjct: 181 FAARVLVEHFKAFESADAAAEIGEVMVEQENDQ 213 >gi|119662815|emb|CAJ33199.1| RNA polymerase alpha subunit [Lactobacillus kefiranofaciens subsp. kefiranofaciens] Length = 203 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 90/203 (44%), Positives = 132/203 (65%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K Sbjct: 1 GNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTA D++ D++VLNPD IC + + MEL V G GYV A +++ Sbjct: 61 IELDVEGPATVTADDLKVDADVQVLNPDQYICTIAKGGHLHMELAVKNGRGYVTASDNKS 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++I Sbjct: 121 DDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDIN 246 L + +F + + K + + Sbjct: 181 LVEHFKVFESADANTKFSEVMVE 203 >gi|119668295|emb|CAK95502.1| RNA polymerase alpha subunit [Lactobacillus crispatus] Length = 203 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 90/203 (44%), Positives = 132/203 (65%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K Sbjct: 1 GNSLRRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDEQKV 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTA D++ D++VLNPD IC + + MEL V G GYV A +++ Sbjct: 61 IELDIEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYVAASDNKS 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ PIG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++I Sbjct: 121 DDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDIN 246 L + +F + + K + + Sbjct: 181 LVEHFKVFESADANAKFSEVMVE 203 >gi|119662323|emb|CAJ33149.1| RNA polymerase alpha subunit [Lactobacillus kimchii] Length = 213 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 87/213 (40%), Positives = 140/213 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL++SL G A++ +QIDGVLHE S++ GV ED+T I+LN+K + LK Sbjct: 1 YGTTLGNSLRRVLLASLPGTAVSDIQIDGVLHEFSAVDGVIEDVTQIVLNVKKLKLKSYA 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + I GP VTA DI+ +D+E+L+P+ IC + M++TV G GY PA Sbjct: 61 DDSLKAEIDVVGPATVTANDIKADDDLEILDPEQFICTVAEGGHFHMQMTVINGRGYTPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++T+ PIG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++ Sbjct: 121 EQNKTDETPIGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAIS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 L+++IL + L F+N E K I + Sbjct: 181 LSAKILTEHLTSFVNLTEEAKSADMMIEKEETQ 213 >gi|161511715|emb|CAP16868.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 225 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 103/225 (45%), Positives = 143/225 (63%), Gaps = 2/225 (0%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K Sbjct: 1 GNSLRRILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHH 161 + I GP VTAGDI D+ VLNPD IC + LT G GY A Sbjct: 61 LDINVVGPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSADENKA 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ +L++ Sbjct: 121 RKADMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSLSA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 +IL + L +F+N + KE + + + L +EEL+LS Sbjct: 181 KILTEHLAIFVNLNDQAKETEIMVEKEETHKEKMLEMTIEELDLS 225 >gi|119662305|emb|CAJ33140.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 214 Score = 226 bits (576), Expect = 4e-57, Method: Composition-based stats. Identities = 85/213 (39%), Positives = 132/213 (61%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 F TLGN+LRRVL++S+ G + V+IDG+LHE +++ GV ED+T IILN+K + L+ Sbjct: 1 FGTTLGNSLRRVLLTSVPGTGLVKVKIDGILHEFTTVPGVKEDVTKIILNLKKLVLRAYT 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP VTA D++ D+EVLNPD IC + + M + V G GYVPA Sbjct: 61 EEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++T IG I +D+L+SPI+KV+Y VES R G+ D+DKL++ I T+GSI D++ Sbjct: 121 SENKTAEMFIGDIPVDSLFSPIEKVNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDALN 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 A+R+L + F + + + + + ++ Sbjct: 181 FAARVLVEHFKAFESADAAAEIGEVMVEQENDQ 213 >gi|308125183|gb|ADO14940.1| DNA-directed RNA polymerase alpha chain [Enterococcus aquimarinus] Length = 204 Score = 226 bits (576), Expect = 5e-57, Method: Composition-based stats. Identities = 94/204 (46%), Positives = 139/204 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S++KGV ED+ IILNIKG+ LKM G K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKMYGQEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN + IC + A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKEMYICTVSEGATFHARLTVRPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL++ I TDGSI D+++LA++I Sbjct: 121 DDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTIEIWTDGSIEPLDAMSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K + + Sbjct: 181 MTEHLDIFVNLTDEAKHAEIMVEK 204 >gi|154424751|emb|CAL18478.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 216 Score = 226 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 89/216 (41%), Positives = 142/216 (65%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV+ GYVPA Sbjct: 61 EDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIADGASLKATMTVATNRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 121 DENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALG 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 L++R+L + L +F + + K + + Sbjct: 181 LSARVLIEHLNLFTDLTDVAKATDVMKETEKVNDEK 216 >gi|119662375|emb|CAJ33176.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 201 Score = 226 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 100/199 (50%), Positives = 140/199 (70%), Gaps = 4/199 (2%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR L+SSL G+A+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G Sbjct: 1 YGTTLGNSLRRTLLSSLPGSAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I GP VTAGDIQ +D+ VLNPD I + A M LT +KG GYV Sbjct: 61 PEDEEENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANKGRGYV 120 Query: 157 PA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 A R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + TDGSIT Sbjct: 121 SAVENKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTDGSITPS 180 Query: 215 DSVALASRILQDQLGMFIN 233 ++V+LA++IL + L MF++ Sbjct: 181 EAVSLAAKILTEHLEMFVD 199 >gi|193216735|ref|YP_001999977.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma arthritidis 158L3-1] gi|193002058|gb|ACF07273.1| DNA-directed RNA polymerase alpha subunit [Mycoplasma arthritidis 158L3-1] Length = 350 Score = 226 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 78/308 (25%), Positives = 146/308 (47%), Gaps = 16/308 (5%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 ++ + T + EPL RG+A+TLG LRR L+SS+ A A++I+ V HE ++ GV E Sbjct: 15 ERKTDFDTTFVIEPLMRGYANTLGTVLRRTLLSSITSVAPFAIKINNVQHEFETLPGVKE 74 Query: 81 DLTDIILNIKGINLKMSGDSHK-----RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 D+ +I NI+ I + + R++ G +TA DI + +E++N D IC Sbjct: 75 DVVTLIANIRKIRFTYKPELFEKENLARISFKATHDGDITASDINEPSGLEIVNKDQHIC 134 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSPIKKVS 184 +L + +L + G GY+ + ++T + ID+ +SP+K + Sbjct: 135 SLQKGTTLEFDLFLRVGRGYIDFEENKTIIQEYGPKLESKIKKGQFLAIDSDFSPVKNCA 194 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 E ++L +++ TDG++ + ++ A+ I+ + N + + Sbjct: 195 IHFEELNTSAKNVEERLKISVQTDGTLDAKSAMQQAATIIVAHFQIIGNIDALGTINLFE 254 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 L +E+L L++RS N LR N + +L++ +E ++ + N G+KS+ Sbjct: 255 EARDKKEKTTKLNLPIEKLNLTIRSLNALRRANYNTIDELLKLSEDELSNIKNLGKKSVQ 314 Query: 305 EIKGVLGT 312 +I L Sbjct: 315 DIIDKLVE 322 >gi|71056862|emb|CAH58986.1| DNA-directed RNA polymerase alpha chain [Enterococcus malodoratus] Length = 205 Score = 226 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 98/205 (47%), Positives = 141/205 (68%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ + K Sbjct: 1 LGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFAEEEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A ++ Sbjct: 61 TLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGRGYVQADENK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++ Sbjct: 121 KEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINV 247 IL + L +F+N + K + + Sbjct: 181 ILTEHLDIFVNLTDEAKNAEIMVEK 205 >gi|71056860|emb|CAH58985.1| DNA-directed RNA polymerase alpha chain [Enterococcus gilvus] Length = 205 Score = 226 bits (575), Expect = 5e-57, Method: Composition-based stats. Identities = 98/205 (47%), Positives = 141/205 (68%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ + K Sbjct: 1 LGNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFAEEEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A ++ Sbjct: 61 TLEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPGRGYVQADENK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++ Sbjct: 121 KEDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINV 247 IL + L +F+N + K + + Sbjct: 181 ILTEHLDIFVNLTDEAKNAEIMVEK 205 >gi|119668293|emb|CAK95452.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 191 Score = 225 bits (574), Expect = 6e-57, Method: Composition-based stats. Identities = 96/191 (50%), Positives = 137/191 (71%), Gaps = 3/191 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN K I+LK+ G Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNTKKISLKLEG 60 Query: 99 --DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 D + + I +GP VTAGDI +D+ VLNPD I + A M +T +KG GYV Sbjct: 61 PDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYIATVAEGATFHMRMTANKGRGYV 120 Query: 157 PAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 A ++ E+ PIG++ ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TD SIT + Sbjct: 121 SADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDSSITPSE 180 Query: 216 SVALASRILQD 226 S++LA++IL + Sbjct: 181 SISLAAKILTE 191 >gi|289803215|ref|ZP_06533844.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 222 Score = 225 bits (574), Expect = 7e-57, Method: Composition-based stats. Identities = 99/223 (44%), Positives = 149/223 (66%), Gaps = 7/223 (3%) Query: 113 VVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAK---HHRTENDPI 168 VVTA DI D+E++ P HVIC+L D +A + M + V +G GYVPA H + PI Sbjct: 2 VVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERPI 61 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +DA YSP+++++Y VE+AR Q D DKL + ++T+G+I E+++ A+ IL +QL Sbjct: 62 GRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQL 121 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 F++ + ++ ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRT Sbjct: 122 EAFVDLRDVRQP---EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRT 178 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 E ++L+ N G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 179 EVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 221 >gi|71056854|emb|CAH58982.1| DNA-directed RNA polymerase alpha chain [Enterococcus asini] Length = 204 Score = 225 bits (573), Expect = 8e-57, Method: Composition-based stats. Identities = 97/204 (47%), Positives = 141/204 (69%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT++QIDGVLHE S++KGV ED+ IILNIKG+ LKM K Sbjct: 1 GNSLRRILLSSLPGAAITSIQIDGVLHEFSTVKGVREDVAQIILNIKGLALKMYTQEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D IC++ A LTV G GYV A ++ Sbjct: 61 LEIDIAGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI ++++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSILPLEAMSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K V+ I Sbjct: 181 MTEHLDIFVNLTDEAKNVEIMIEK 204 >gi|154424851|emb|CAL18528.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 212 Score = 225 bits (573), Expect = 9e-57, Method: Composition-based stats. Identities = 89/211 (42%), Positives = 141/211 (66%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNLKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP +TAGDI T +DIE++NPDH + + A ++ LTV GY+PA Sbjct: 61 EEEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGASLKATLTVGTNRGYIPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++ ++ P+G + ID++Y+P+KKV+Y VE AR G ++DKL++ I T+G+I ED++ Sbjct: 121 EENKKDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALG 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKS 249 L++R+L + L +F + E K + Sbjct: 181 LSARVLIEHLNLFTDLTEVAKATDVMKETEQ 211 >gi|119662847|emb|CAJ33216.1| RNA polymerase alpha subunit [Lactobacillus kunkeei] Length = 202 Score = 224 bits (572), Expect = 1e-56, Method: Composition-based stats. Identities = 96/202 (47%), Positives = 139/202 (68%), Gaps = 4/202 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-- 100 LGN+LRR+L+SSL GAA+T++QID VLHE S++ GV ED+T IILN+K I+LK+ + Sbjct: 1 LGNSLRRILLSSLPGAAVTSIQIDDVLHEFSTVPGVVEDVTQIILNVKKISLKLDAEDGE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA-- 158 K + I GP VTAGDIQ D+ VLNPD I + + M +T +KG GYV A Sbjct: 61 DKEMEINVTGPAQVTAGDIQADGDVTVLNPDLHIATVAEGSTFHMRMTANKGRGYVSADE 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 R + PIG++ +D++Y+PI++V+Y VE+AR GQ D+DKL++ + TDGSIT ++++ Sbjct: 121 NKARNDGMPIGVLPVDSIYTPIERVNYQVENARVGQRSDFDKLTLDVWTDGSITPSEAIS 180 Query: 219 LASRILQDQLGMFINFEEPKKE 240 LA++IL D L MF++ + K Sbjct: 181 LAAKILNDHLAMFVDLTDEAKN 202 >gi|113170453|ref|YP_717245.1| RpoA [Ostreococcus tauri] gi|122241423|sp|Q0P3L0|RPOA_OSTTA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|112806860|emb|CAL36367.1| RpoA [Ostreococcus tauri] Length = 356 Score = 224 bits (572), Expect = 1e-56, Method: Composition-based stats. Identities = 81/346 (23%), Positives = 155/346 (44%), Gaps = 51/346 (14%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + + P+ G T+GN LRR+L++ L G + +I+GV E S++ G+ E Sbjct: 16 NSLTDCYGRLSFGPVNPGQGLTIGNTLRRILLNDLPGIGVIGAEINGVQSEFSTLPGIRE 75 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFK--------------RGPGVVTAGDIQTVNDIE 126 + +I LN++ + + ++V K P VVTA D+ + E Sbjct: 76 SVIEIFLNLRELIFTPTATCAQKVKQTKPFVYAKLNSELKIDNFPYVVTAKDLHIP-EYE 134 Query: 127 VLNPDHVICNL---DVDAVVRMELTVSKGHGYV-----------------PAKHHRTEND 166 ++P+ I + ++ L + +G GY N Sbjct: 135 FVDPNQQIATILSPTAAENFKLTLLIGQGRGYQSWKKLPGVPQLMDQRFFEQFDSTQTNS 194 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 IDA++ PI++V++TV+ +D + + + T+GSI D+V A+++ Sbjct: 195 KSVTFPIDAIFMPIRQVNFTVQ----EHSVDGEYIYFEVWTNGSINPFDAVKSAAKVGMK 250 Query: 227 QLGMFINFEE------PKKEVKEDINVKSLPFNPALLKK------VEELELSVRSTNCLR 274 + + + + ++ E N + +N + +E+LELS+R+ NCL+ Sbjct: 251 LMTACLTTLQDQQVYLDESKLPETPNFVQVNYNKMESESNFDQIFIEQLELSLRAYNCLK 310 Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 NI+ + DL Q++ D++++ NFG+KS E++ L T G+ L + Sbjct: 311 RANILTLADLSQQSFRDLMKLRNFGQKSADEVRAALSTYGIELKED 356 >gi|119668373|emb|CAK95478.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 203 Score = 224 bits (572), Expect = 1e-56, Method: Composition-based stats. Identities = 87/203 (42%), Positives = 139/203 (68%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + K + Sbjct: 1 NSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDKTI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV A ++++ Sbjct: 61 EIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAAVQNKSD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I+ Sbjct: 121 DMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIM 180 Query: 225 QDQLGMFINFEEPKKEVKEDINV 247 + L +F++ + K + + Sbjct: 181 TEHLAIFVDLTDEAKNAEIMVEK 203 >gi|322378754|ref|ZP_08053183.1| DNA-directed RNA polymerase subunit alpha [Helicobacter suis HS1] gi|322380603|ref|ZP_08054755.1| DNA-directed RNA polymerase subunit alpha [Helicobacter suis HS5] gi|321146925|gb|EFX41673.1| DNA-directed RNA polymerase subunit alpha [Helicobacter suis HS5] gi|321148784|gb|EFX43255.1| DNA-directed RNA polymerase subunit alpha [Helicobacter suis HS1] Length = 337 Score = 224 bits (571), Expect = 1e-56, Method: Composition-based stats. Identities = 90/332 (27%), Positives = 159/332 (47%), Gaps = 9/332 (2%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P+ I + + + + G+A TL + LRR+L+ S G A A++I+GV HE Sbjct: 9 PHVPTDIRVERLGDRGIRVSVSAFESGYAITLAHPLRRLLLQSSVGFAPIAIKIEGVAHE 68 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSG----DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 S++G+ ED+ I N+K I L + V GP ++ D+ T ++EV Sbjct: 69 FDSVRGMAEDVALFIANLKNIRLVAKNLENAEDQLVVHYSFNGPAKLSGKDLAT-EEVEV 127 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 ++ + + ++ D + L + KG GYVP++ R I +DA ++PIKK Y + Sbjct: 128 VDTETYLATINEDGQLGFSLIIQKGMGYVPSESIRGFISS-DYIPLDACFTPIKKAIYHI 186 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ +++K+ I++DG + + + A + + Q+ +F K N Sbjct: 187 ENILVDGNPNFEKVIFEIESDGQVDPKQAFQEAIKTMHAQMHIFSTNLSDSKNAYHLENN 246 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 + L+KKVE+L+LS R NCL I Y+G+L+ ++ + N G+KS EI Sbjct: 247 LEI---KELIKKVEDLDLSARCLNCLDKVGIKYIGELVLMDVYELKGIKNLGKKSYDEIA 303 Query: 308 GVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L + +G LP+ S++ K + + Sbjct: 304 EKLEQLKYPVGQELPEGFKASLKARIDKLKSE 335 >gi|119672805|emb|CAK95518.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 197 Score = 224 bits (571), Expect = 2e-56, Method: Composition-based stats. Identities = 96/192 (50%), Positives = 143/192 (74%), Gaps = 2/192 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRR+L++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K I+LK+ + K Sbjct: 1 LGNSLRRILLASLPGAAITSIQIDGVLHEFSTVEGVTEDVTQIILNMKQISLKIDSEEDK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KH 160 + I +GP VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A Sbjct: 61 TLEIDVKGPAAVTAGDIEADGDVEVLNPELHIATVADGAELHIQMTANTGRGYVSADDNK 120 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 R ++ PIG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + +DGSIT +S++LA Sbjct: 121 ARMDDLPIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWSDGSITPSESISLA 180 Query: 221 SRILQDQLGMFI 232 ++IL + L MF+ Sbjct: 181 AKILTEHLAMFV 192 >gi|224437309|ref|ZP_03658281.1| DNA-directed RNA polymerase subunit alpha [Helicobacter cinaedi CCUG 18818] gi|313143764|ref|ZP_07805957.1| DNA-directed RNA polymerase subunit alpha [Helicobacter cinaedi CCUG 18818] gi|313128795|gb|EFR46412.1| DNA-directed RNA polymerase subunit alpha [Helicobacter cinaedi CCUG 18818] Length = 334 Score = 224 bits (571), Expect = 2e-56, Method: Composition-based stats. Identities = 94/316 (29%), Positives = 161/316 (50%), Gaps = 5/316 (1%) Query: 10 IKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVL 69 I+P I + + NR + A P G+A TL + LRR+L+ S G A TA++I GV Sbjct: 6 IEPYIPTDISIEEVSSNRIKISAYPFESGYAITLAHPLRRLLLLSSVGYAPTALKIQGVT 65 Query: 70 HEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE SI+G+ ED++ I N+K I K +V +GP V++A ++ + ++V Sbjct: 66 HEFDSIRGIVEDVSHFISNLKNIRFLIKDETLDSVQVHYEFKGPMVLSANELANES-VDV 124 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +NP+ + ++ +A + L V KG GYVP++ R + I +DA ++P+KK Y + Sbjct: 125 VNPEAYLATINENASISFSLIVQKGIGYVPSESIRGKIAE-DYIPLDAYFTPVKKAIYEI 183 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ +Y+K+ I+TDG I + A ++ Q+ +F + I Sbjct: 184 ENVLVEDNPNYEKIIFDIETDGQIEPLTAFKEAISVMHKQMSIFGVDLSATPNGSKSIAE 243 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 S ++K ++ L LS R NCL + Y+G+L+ +E ++ + N G+KS EI Sbjct: 244 DSGELKTLMIK-IDTLNLSARCFNCLDRSGLKYVGELVIMSENELKNIKNMGKKSYDEIT 302 Query: 308 GVLGTMGLFLGMNLPD 323 L +G +G + + Sbjct: 303 EKLEELGYPVGGEIAE 318 >gi|308125187|gb|ADO14942.1| DNA-directed RNA polymerase alpha chain [Enterococcus devriesei] Length = 204 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 97/204 (47%), Positives = 140/204 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ + K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFAEEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D IC + A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDMYICTVAEGATFHARLTVKPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P++KV+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 L + L +F+N + K + + Sbjct: 181 LTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|150036786|emb|CAM98270.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 221 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 88/212 (41%), Positives = 133/212 (62%), Gaps = 2/212 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DERSLEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D++ Sbjct: 121 ENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +L ++IL + L +F++ E + + Sbjct: 181 SLGAKILAEHLNLFMDISPVAAEASVMVEAEP 212 >gi|308125199|gb|ADO14948.1| DNA-directed RNA polymerase alpha chain [Enterococcus termitis] Length = 204 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 97/204 (47%), Positives = 143/204 (70%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LK+ + K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKLYAEEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D VIC++ A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDLVICSVSEGATFHARLTVKPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K + + Sbjct: 181 MTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|119668345|emb|CAK95469.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 186 Score = 224 bits (570), Expect = 2e-56, Method: Composition-based stats. Identities = 89/186 (47%), Positives = 133/186 (71%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K + I Sbjct: 1 LRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VTA DI D+EVLNP+ IC + + +TV KG GYV A +++++ Sbjct: 61 DVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + Sbjct: 121 PIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTE 180 Query: 227 QLGMFI 232 L +F+ Sbjct: 181 HLDIFV 186 >gi|150036830|emb|CAM98044.1| DNA-directed RNA polymerase alpha chain [Leuconostoc kimchii] Length = 216 Score = 223 bits (569), Expect = 2e-56, Method: Composition-based stats. Identities = 87/213 (40%), Positives = 134/213 (62%), Gaps = 2/213 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+E+LNPD + + + M +T KG GY A Sbjct: 61 DDERSLEIDVQGPADVTAADLQAGADVEILNPDLHLATVAAGKSLHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 ++L S+IL + L +F++ E + + Sbjct: 181 LSLGSKILAEHLNLFMDISPVAAEASVMVEAEP 213 >gi|150036798|emb|CAM98035.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 208 Score = 223 bits (569), Expect = 3e-56, Method: Composition-based stats. Identities = 88/208 (42%), Positives = 133/208 (63%), Gaps = 2/208 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A Sbjct: 61 DEEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKED 244 ++L ++IL + L +F + E + Sbjct: 181 LSLGAKILSEHLNLFTDISSVAAETEVM 208 >gi|168805077|gb|ACA28617.1| DNA-directed RNA polymerase subunit alpha [Thiomonas arsenivorans] Length = 228 Score = 223 bits (568), Expect = 3e-56, Method: Composition-based stats. Identities = 98/228 (42%), Positives = 152/228 (66%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ K+ +++ K G GVVTA DIQT +D+E++NP+HVI + Sbjct: 1 GLQEDVIAVLLNLKGVVFKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPEHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP R ++ I +DA +SP+++VSY VE+AR Sbjct: 61 LSQQGKIDMQIKVEKGRGYVPGNLRRYADEGGKTIGRIVLDASFSPVRRVSYAVENARVE 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL M I+T+GSI+ E+++ ++RIL +QL +F + E +K ++ + + F+ Sbjct: 121 QRTDLDKLVMEIETNGSISAEEAIRTSARILVEQLSVFASLEGAEKTLETGGSASAQQFD 180 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRK Sbjct: 181 PILLRPVDDLELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRK 228 >gi|308125195|gb|ADO14946.1| DNA-directed RNA polymerase alpha chain [Enterococcus sanguinicola] Length = 204 Score = 223 bits (568), Expect = 3e-56, Method: Composition-based stats. Identities = 97/204 (47%), Positives = 140/204 (68%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D IC++ A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDMYICSVSEGATFHARLTVKPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L+++I Sbjct: 121 EDMPIGVLPVDSIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIEPLEAMSLSAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K + + Sbjct: 181 MTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|150036816|emb|CAM98278.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 220 Score = 222 bits (567), Expect = 4e-56, Method: Composition-based stats. Identities = 89/213 (41%), Positives = 136/213 (63%), Gaps = 2/213 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + I +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A Sbjct: 61 EEKSLEIDVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D++ Sbjct: 121 ENKQLRDEMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +L ++IL + L +F + E + ++V+ Sbjct: 181 SLGAKILSEHLNLFTDISSVAAETEVMVDVEQT 213 >gi|308125185|gb|ADO14941.1| DNA-directed RNA polymerase alpha chain [Enterococcus caccae] gi|308125191|gb|ADO14944.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. CCRI-16985] gi|308125197|gb|ADO14947.1| DNA-directed RNA polymerase alpha chain [Enterococcus silesiacus] gi|308125201|gb|ADO14949.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. CCRI-16620] gi|308125203|gb|ADO14950.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. CCRI-16986] Length = 204 Score = 222 bits (567), Expect = 5e-56, Method: Composition-based stats. Identities = 96/204 (47%), Positives = 143/204 (70%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LK+ + K Sbjct: 1 GNSLRRILLSSLPGAAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKLYAEEEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I GP VTAGDI +D+E+LN D +IC++ A LTV G GYV A ++ Sbjct: 61 LEIDITGPATVTAGDIIVDSDVEILNKDLIICSVSEGATFHARLTVKPGRGYVQADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++I Sbjct: 121 EDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDINV 247 + + L +F+N + K + + Sbjct: 181 MTEHLDIFVNLTDEAKNAEIMVEK 204 >gi|311990468|gb|ADQ26364.1| RNA polymerase alpha subunit [Lactobacillus fermentum] Length = 220 Score = 222 bits (567), Expect = 5e-56, Method: Composition-based stats. Identities = 94/220 (42%), Positives = 144/220 (65%), Gaps = 2/220 (0%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRV+++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K + LK+ + K Sbjct: 1 GNSLRRVMLASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKQVALKIDSEDAKD 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHH 161 + I +GP VTA DIQ D+ +LN D I + A + +++T KG GY A Sbjct: 61 LEIDVKGPAEVTAADIQGDGDVTILNSDLHIATVSDGAELHVKMTADKGRGYSSADDNKT 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 R E IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + T+GS+T ++++LA+ Sbjct: 121 RMEGLAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTNGSLTPTEAISLAA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 +IL + L MF+N E + + + + L K +E Sbjct: 181 KILTEHLTMFVNLTEEAQVTQVMVEREETHQEKVLDKTIE 220 >gi|150036802|emb|CAM98037.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 231 Score = 222 bits (566), Expect = 5e-56, Method: Composition-based stats. Identities = 94/231 (40%), Positives = 141/231 (61%), Gaps = 2/231 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 YGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVFATDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + I +GP VTA D+ DIEVLNPD I L + M +T KG GY A Sbjct: 61 AEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKALHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI D+ Sbjct: 121 EENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 ++L S+IL + L +F + ++ K + + A +E+L+LSV Sbjct: 181 LSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSV 231 >gi|150036804|emb|CAM98275.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 230 Score = 222 bits (566), Expect = 6e-56, Method: Composition-based stats. Identities = 93/230 (40%), Positives = 140/230 (60%), Gaps = 2/230 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL G A+ VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 YGTTLGNSLRRVLLSSLPGVAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVFATDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + I +GP VTA D+ DIEVLNPD I L + M +T KG GY A Sbjct: 61 AEEHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKSLHMTVTAVKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI D+ Sbjct: 121 EENKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 ++L S+IL + L +F + ++ K + + A +E+L+LS Sbjct: 181 LSLGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLS 230 >gi|119662837|emb|CAJ33211.1| RNA polymerase alpha subunit [Lactobacillus satsumensis] Length = 210 Score = 222 bits (566), Expect = 6e-56, Method: Composition-based stats. Identities = 87/210 (41%), Positives = 141/210 (67%), Gaps = 2/210 (0%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAAIT++QIDGVLHE S+IKGV ED+T IILN+K + L++ + + Sbjct: 1 GNSLRRILLSSLPGAAITSIQIDGVLHEFSTIKGVLEDVTQIILNLKKVALRIDSEEDQT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHH 161 + I GP V AGDIQ +D+EVLNPD +C + A + + + G GYV A Sbjct: 61 LEISVNGPLEVKAGDIQGSSDVEVLNPDLYLCTVAEGASFHVRMNANTGRGYVSADENKI 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+G+++ ++++L++ Sbjct: 121 KADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDVWTNGAVSPSEAISLSA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +IL + L +F++ + K + + + Sbjct: 181 KILTEHLTLFVDLTDEAKNAEIMVEKEETH 210 >gi|119668313|emb|CAK95457.1| RNA polymerase alpha subunit [Lactobacillus fructivorans KCTC 3543] Length = 192 Score = 222 bits (565), Expect = 7e-56, Method: Composition-based stats. Identities = 98/192 (51%), Positives = 141/192 (73%), Gaps = 4/192 (2%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--H 101 GN+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D Sbjct: 1 GNSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSDDNET 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K ++I GP VTAGDI T +D+E+LNPD I + A M +T +KG GYV A+ + Sbjct: 61 KSMSINVTGPADVTAGDIVTDSDVEILNPDLHIATVADGATFHMNMTANKGRGYVSAEEN 120 Query: 162 RTEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + +ND PIG++ +D++Y+PI++V+Y VE AR GQ DYDKL++ + T+GSIT D+++L Sbjct: 121 KAKNDGMPIGVLPVDSIYTPIERVNYQVEDARVGQRDDYDKLTLDVWTNGSITPSDAISL 180 Query: 220 ASRILQDQLGMF 231 A++IL +F Sbjct: 181 AAKILNQHFQLF 192 >gi|150036774|emb|CAN89786.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 219 Score = 222 bits (565), Expect = 7e-56, Method: Composition-based stats. Identities = 89/213 (41%), Positives = 135/213 (63%), Gaps = 2/213 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DEERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 ++L S+IL + L +F++ E + V+ Sbjct: 181 LSLGSKILAEHLNLFMDISPVAAEANVMVEVEP 213 >gi|328814011|gb|AEB52121.1| DNA-directed RNA polymerase alpha chain [Lactobacillus rhamnosus] Length = 218 Score = 222 bits (565), Expect = 8e-56, Method: Composition-based stats. Identities = 93/218 (42%), Positives = 143/218 (65%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 A++++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K + I GP VTA D Sbjct: 1 AVSSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAAD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I D+EVLNP+ IC + + +TV KG GYV A +++++ PIG++ ID++++ Sbjct: 61 IVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIFT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L +F+N + Sbjct: 121 PISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDEA 180 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 K + + + L +EEL+LSVRS NCL+ Sbjct: 181 KNAEIMVEKEETHKEKMLEMTIEELDLSVRSYNCLKRA 218 >gi|154424867|emb|CAL18536.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 210 Score = 221 bits (564), Expect = 1e-55, Method: Composition-based stats. Identities = 90/209 (43%), Positives = 139/209 (66%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++ DGVLHE +I GV ED+ IILNIKG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKFDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GYVPA Sbjct: 61 EDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 121 EGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALG 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINV 247 L++R+L + L +F + E K Sbjct: 181 LSARVLIEHLNLFTDLTEVAKATDVMKET 209 >gi|119668349|emb|CAK95511.1| RNA polymerase alpha subunit [Lactobacillus paraplantarum] Length = 177 Score = 221 bits (563), Expect = 1e-55, Method: Composition-based stats. Identities = 93/177 (52%), Positives = 126/177 (71%), Gaps = 2/177 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLES 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + I +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A Sbjct: 61 DETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSA 120 Query: 159 --KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT Sbjct: 121 EDNKHREDDMPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITP 177 >gi|269784298|emb|CBH50794.1| alpha subunit of RNA polymerase [Vibrio sp. C 15.19] Length = 244 Score = 221 bits (563), Expect = 1e-55, Method: Composition-based stats. Identities = 102/247 (41%), Positives = 161/247 (65%), Gaps = 8/247 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMA 296 ++L+ Sbjct: 238 VELLKTP 244 >gi|119662369|emb|CAJ33173.1| RNA polymerase alpha subunit [Lactobacillus versmoldensis] Length = 215 Score = 221 bits (562), Expect = 2e-55, Method: Composition-based stats. Identities = 86/214 (40%), Positives = 141/214 (65%), Gaps = 1/214 (0%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS- 97 + TLGN+LRRVL++SL G A++ +QIDGVLHE +I GV ED+T I+LNIK ++LK Sbjct: 1 YGTTLGNSLRRVLLASLPGTAVSDIQIDGVLHEFFAIDGVIEDVTQIVLNIKKLSLKSYA 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + + I GP +TA DIQ +D+E+L+P+ IC + M++T++ G GY P Sbjct: 61 EEGSLKAEIDISGPATITAKDIQADDDLEILDPEQYICTVAEGGHFHMQMTITNGRGYTP 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 A+ ++T+ PIG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI +++ Sbjct: 121 AEQNKTDETPIGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAI 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +L+++IL + L F+N E K I + Sbjct: 181 SLSAKILTEHLTSFVNLTEEAKSADMMIEKEETQ 214 >gi|119672791|emb|CAK95479.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 176 Score = 221 bits (562), Expect = 2e-55, Method: Composition-based stats. Identities = 85/176 (48%), Positives = 124/176 (70%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLGN+LRR+L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ Sbjct: 1 GYGTTLGNSLRRILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLH 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + K + I +GP VTA DI + +D+EVLN D IC + + +TV KG GYV Sbjct: 61 VEEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVA 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 A +++++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ Sbjct: 121 AVQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISP 176 >gi|293363953|ref|ZP_06610689.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma alligatoris A21JP2] gi|292552443|gb|EFF41217.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma alligatoris A21JP2] Length = 334 Score = 221 bits (562), Expect = 2e-55, Method: Composition-based stats. Identities = 88/328 (26%), Positives = 157/328 (47%), Gaps = 19/328 (5%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 + K + +E + I +PL RGF TLG ALRRVL+S++ A V+I+G Sbjct: 3 KFQKLDYLEVPSNSNTSDFENKFIIQPLERGFGTTLGVALRRVLLSNITSLAPFCVRIEG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V HE I+GV ED+ +I+N++ + + D RV + G + + ++ V Sbjct: 63 VTHEFRGIEGVVEDVPSLIMNLRKVRFSYDPELVKDDDIIRVELKADQVGEINSRYLEVV 122 Query: 123 N--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-----------HHRTENDPIG 169 + ++EV++ + I + + +R+EL + G G+V ++ T+ Sbjct: 123 DNLNVEVIDHNVHIAEVSQENALRLELYLRPGRGFVSSEENKALVSKLEAQLETKIKKGK 182 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I +D+ +SP++KV+Y V + +KL + TDG++ +D++ A+ IL Sbjct: 183 FIAVDSNFSPVEKVNYVVSELNSSSIKIEEKLEFNVYTDGTVKPKDAIKQAADILIAHFK 242 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 N +E + ++ E + K N + +L LSVRS N LR + D+ + + Sbjct: 243 EIGNVDEIRNDIFETADDKITD-NQETDIDITQLGLSVRSLNALRRIGRTKVSDISKMSY 301 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ + N G+KSL EI + G L Sbjct: 302 EELEQTKNLGKKSLDEIVQKIKEHGFEL 329 >gi|119662817|emb|CAJ33200.1| RNA polymerase alpha subunit [Lactobacillus homohiochii] Length = 205 Score = 220 bits (561), Expect = 2e-55, Method: Composition-based stats. Identities = 99/205 (48%), Positives = 145/205 (70%), Gaps = 4/205 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS--HK 102 N+LRRVL++SL GAA+T++QIDGVLHE S++KGV ED+T IILN+K INLK++ D K Sbjct: 1 NSLRRVLLASLPGAAVTSIQIDGVLHEFSTVKGVVEDVTQIILNVKKINLKINSDDNETK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 ++I GP VTAGDI T +D+E+LNPD I + A M +T +KG GYV A+ ++ Sbjct: 61 SMSINVTGPADVTAGDIVTDSDVEILNPDLHIATVADGATFHMNMTANKGRGYVSAEENK 120 Query: 163 TEND--PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 +ND PIG++ +D++Y+PI++V+Y VE AR GQ DYDKL++ + T+GSIT D+++LA Sbjct: 121 AKNDGMPIGVLPVDSIYTPIERVNYQVEDARVGQRDDYDKLTLDVWTNGSITPSDAISLA 180 Query: 221 SRILQDQLGMFINFEEPKKEVKEDI 245 ++IL +FI+ + K + Sbjct: 181 AKILNQHFQLFIDLTDRAKNANVMV 205 >gi|119662357|emb|CAJ33167.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 194 Score = 220 bits (561), Expect = 2e-55, Method: Composition-based stats. Identities = 90/194 (46%), Positives = 136/194 (70%), Gaps = 2/194 (1%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRR+L+SSL GAAIT VQIDGVLHE S+I GV ED+T IILN+K + L M + + + I Sbjct: 1 LRRILLSSLPGAAITDVQIDGVLHEFSTIPGVLEDVTLIILNLKKVALSMESEDSQALEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TE 164 GP VTAGDIQ+ +D+EVLNP+ IC + A + + + +KG GYV A ++ + Sbjct: 61 NVTGPMEVTAGDIQSNSDVEVLNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALAD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL Sbjct: 121 DMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKIL 180 Query: 225 QDQLGMFINFEEPK 238 + L +F++ + Sbjct: 181 TEHLALFVDLTDEA 194 >gi|315453710|ref|YP_004073980.1| DNA-directed RNA polymerase alpha chain [Helicobacter felis ATCC 49179] gi|315132762|emb|CBY83390.1| DNA-directed RNA polymerase alpha chain [Helicobacter felis ATCC 49179] Length = 336 Score = 220 bits (561), Expect = 2e-55, Method: Composition-based stats. Identities = 90/333 (27%), Positives = 153/333 (45%), Gaps = 11/333 (3%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + + + + G+A TL + LRR L+ S G A ++++GV HE Sbjct: 8 PQAPMDISVEKISDRHIKVCVSAFEAGYAITLAHPLRRFLLLSSVGYAPIGIKVEGVNHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSG-----DSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 S++G+ ED+ I N+K I L + V +GP ++ D++ +I Sbjct: 68 FDSLRGISEDMALFIANLKNIRLVGKHLDSAQNDQVVVHYTFKGPAKLSGKDLE-NEEIS 126 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 V+N D + ++ DA + L V KG GYVP++ R I +DA ++PIKKV Y Sbjct: 127 VVNHDAYLATINEDAHLEFSLIVQKGMGYVPSESIRGYISS-DYIPLDAYFTPIKKVVYN 185 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +E+ +++KL I++DG + + + A R + Q+ +F K Sbjct: 186 IENMLVDGNPNFEKLIFEIESDGQVDPQRAFQEAIRTMNAQMHIFNTNIADYKGNAHLEE 245 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LL ++E L LS R NCL + Y+G+L+ ++ + N G+KS EI Sbjct: 246 G----LERDLLMEIEGLNLSARCFNCLDKIGLKYVGELVLMDAYELKNIKNLGKKSYDEI 301 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 L +G +G + S+E K +++ Sbjct: 302 AEKLEGLGYPVGSEISAEFRASLETKLDKIKNQ 334 >gi|222084158|ref|YP_002519753.1| RNA polymerase alpha chain [Gnetum parvifolium] gi|149941454|dbj|BAF64894.1| RNA polymerase alpha subunit [Brassica napus] gi|220983495|dbj|BAH11263.1| RNA polymerase alpha chain [Gnetum parvifolium] Length = 326 Score = 220 bits (561), Expect = 3e-55, Method: Composition-based stats. Identities = 81/328 (24%), Positives = 151/328 (46%), Gaps = 17/328 (5%) Query: 6 WQEL-IKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 W +L I + +++ L + E + PL +G A+T+ A+RR L+ + G +I Sbjct: 3 WDKLEISKSPLQWKCLDSKTESKRYHYGRFSLSPLLKGQANTIAIAIRRTLLGEVEGTSI 62 Query: 61 TAVQIDGV-LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 T +I+ +H+ S++ G+ E + DI+LN+K I LK + +I GP VTA DI Sbjct: 63 TYAKIEKTTVHDYSTMSGIKESVHDILLNLKEIVLKSELYGIHKASICTVGPRNVTAQDI 122 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + I++++ I +L + LT+ + GY + GL IDA P Sbjct: 123 ILPSSIKIIDGTQHIASLTKSVPFNVMLTIERNQGYAIPSQSSRRHK-NGLFPIDAPCMP 181 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++ V++++ S + + + L I T+G +T ++ A L D + ++ EE Sbjct: 182 VRNVNFSIHSYKSENDI-REMLIFEIWTNGGLTPREAFYEACWKLIDLIVPLLHMEEDMN 240 Query: 240 EVKEDINVKSLPFNPALLK------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 K+ + L L K + +LELS ++++C + I + D + + + Sbjct: 241 GAKDFFALPILTRMDKLGKALFQHLFMNQLELSSKNSSCFQQTFIYRLSDFLNYSRQNSK 300 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNL 321 + +KS IK ++ G+NL Sbjct: 301 TFEDLDKKS---IKKIMEFFQKRFGINL 325 >gi|226968665|ref|YP_002808625.1| RNA polymerase alpha chain [Micromonas sp. RCC299] gi|226431143|gb|ACO55549.1| RNA polymerase alpha chain [Micromonas sp. RCC299] Length = 352 Score = 220 bits (560), Expect = 3e-55, Method: Composition-based stats. Identities = 80/350 (22%), Positives = 141/350 (40%), Gaps = 45/350 (12%) Query: 9 LIKPN---NIEYIVLGQEE--ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 I PN +E + + ++ ++ PL G TLGN RR+L++ L G AITA Sbjct: 3 FIVPNSSAKLECVEFRENNPRDHYARLVLGPLAPGQGVTLGNTFRRLLLNDLPGVAITAA 62 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS-----------HKRVTIFKRGPG 112 +++ E ++ G+ E + +I LN++ I + + T + Sbjct: 63 KLNETRTEFMTLPGIRESVVEIFLNLRDIVFFNTFPDVLAPQGTITISPRPQTDESKSFH 122 Query: 113 ---VVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS--------------KGHG 154 V+ AGD+Q I ++P I L + D + + G G Sbjct: 123 TPRVICAGDMQLPEGITCVDPTQPIATLMNGDTAFNLTFILEQSTGYRVWKKPTQSYGTG 182 Query: 155 YVPAKHHR----TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 + P+ + ID + P+K V++ V + + I T+GS Sbjct: 183 FYPSPQIESVQIEQVKSGVFQPIDGNFMPVKNVNFAVHEV----QPHGEYIHFEITTNGS 238 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPK---KEVKEDINVKSLPFNPALLKKVEELELSV 267 I ++ A IL + + P E ++ +E+LELS+ Sbjct: 239 IHPHNAFKHAGAILTEITRATLQDPRPVVGIDEASTPVDTAVAQKAYFENIAIEQLELSL 298 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 R+ NCL+ I+ + DL + + + +L + NFG+KS E+ L T G+ L Sbjct: 299 RAYNCLKRAQILTLADLSRESYSSLLALRNFGQKSAEEVAKALETYGIEL 348 >gi|295809864|emb|CBL85108.1| alpha subunit of RNA polymerase [Vibrio tapetis] Length = 244 Score = 219 bits (559), Expect = 3e-55, Method: Composition-based stats. Identities = 102/247 (41%), Positives = 161/247 (65%), Gaps = 8/247 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +K+ G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVKVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADMLRMA 296 ++L+ Sbjct: 238 VELLKTP 244 >gi|154424821|emb|CAL18513.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 200 Score = 219 bits (559), Expect = 4e-55, Method: Composition-based stats. Identities = 92/200 (46%), Positives = 140/200 (70%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + Sbjct: 1 TLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEEE 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K V + GP +TAGDI T +DIE++NPDH + + A ++ +TV+ GYVPA+ + Sbjct: 61 KIVELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGANLKATMTVATNRGYVPAEKN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + ++ P+G + ID++Y+P+KKV+Y VE AR G ++DKL++ I T+G+I ED++ L++ Sbjct: 121 KRDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSA 180 Query: 222 RILQDQLGMFINFEEPKKEV 241 R+L + L +F + E K Sbjct: 181 RVLIEHLNLFTDLTEVAKAT 200 >gi|150036842|emb|CAM98286.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 179 Score = 219 bits (559), Expect = 4e-55, Method: Composition-based stats. Identities = 84/179 (46%), Positives = 119/179 (66%), Gaps = 2/179 (1%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 PLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVV 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L + D + + I +GP VTA D+Q D++VLNPD I + + M +T KG Sbjct: 61 LAIDSDEERVLEIDVQGPSEVTAADLQAGADVKVLNPDLHIATVAAGKSLHMTVTAVKGR 120 Query: 154 GYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GS Sbjct: 121 GYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGS 179 >gi|150036756|emb|CAM98263.1| DNA-directed RNA polymerase alpha chain [Leuconostoc inhae KCTC 3774] Length = 214 Score = 219 bits (557), Expect = 6e-55, Method: Composition-based stats. Identities = 89/212 (41%), Positives = 134/212 (63%), Gaps = 2/212 (0%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 EERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D++ Sbjct: 121 ENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 +L S+IL + L +F++ E + V+ Sbjct: 181 SLGSKILAEHLNLFMDISPVAAEANVMVEVEP 212 >gi|150186982|emb|CAK30141.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 205 Score = 219 bits (557), Expect = 6e-55, Method: Composition-based stats. Identities = 93/204 (45%), Positives = 142/204 (69%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL++SL GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K Sbjct: 1 LGNSLRRVLLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 ++ + GP VTAGDI T +DIE++NPDH + + A + LTV+ G GYVPA+ ++ Sbjct: 61 KIELDVVGPAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTVNSGRGYVPAEDNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G+I ED++ L++R Sbjct: 121 KDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNGTIIPEDALGLSAR 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDIN 246 IL + LG+F + E K + Sbjct: 181 ILMEHLGLFTDLTEVAKSAEVMKE 204 >gi|119662329|emb|CAJ33152.1| RNA polymerase alpha subunit [Lactobacillus mindensis] Length = 197 Score = 219 bits (557), Expect = 6e-55, Method: Composition-based stats. Identities = 85/197 (43%), Positives = 136/197 (69%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRVL++SL G A++ +QIDGVLHE S+I GV ED+T I+LN+K + LK + Sbjct: 1 TLGNSLRRVLLASLPGTAVSDIQIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYAEDS 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + I GP VTA DI+ +D+EVL+P+ IC + M++T+ G GY PA+ + Sbjct: 61 LKAEIDVVGPATVTAKDIKADDDLEVLDPEQFICTVAEGGHFHMQMTIKNGRGYTPAEQN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 +T+ PIG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++L++ Sbjct: 121 KTDETPIGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSA 180 Query: 222 RILQDQLGMFINFEEPK 238 +IL + L F+N E Sbjct: 181 KILTEHLNSFVNLTEEA 197 >gi|150036772|emb|CAN89785.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum LMG 18811] Length = 203 Score = 219 bits (557), Expect = 6e-55, Method: Composition-based stats. Identities = 87/199 (43%), Positives = 131/199 (65%), Gaps = 2/199 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DEERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMFINFE 235 ++L S+IL + L +F++ Sbjct: 181 LSLGSKILAEHLNLFMDIS 199 >gi|119668275|emb|CAK95496.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 216 Score = 219 bits (557), Expect = 7e-55, Method: Composition-based stats. Identities = 100/216 (46%), Positives = 143/216 (66%), Gaps = 4/216 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DS 100 LGN+LRR L+SSL G+A+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G D Sbjct: 1 LGNSLRRTLLSSLPGSAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA-- 158 + + I GP VTAGDIQ +D+ VLNPD I + A M LT +KG GYV A Sbjct: 61 EENLEIDVIGPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVE 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 R+ PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ + TDGSIT ++V+ Sbjct: 121 NKKRSSEMPIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTDGSITPSEAVS 180 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 LA++IL + L MF++ + K + + + Sbjct: 181 LAAKILTEHLEMFVDLTDEAKNTEIMVEKEETHKEK 216 >gi|168805075|gb|ACA28616.1| DNA-directed RNA polymerase subunit alpha [Thiomonas perometabolis] Length = 228 Score = 219 bits (557), Expect = 7e-55, Method: Composition-based stats. Identities = 100/228 (43%), Positives = 148/228 (64%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI + Sbjct: 1 GLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP IG I +DA +SP+++VSY VESAR Sbjct: 61 LSQGGKLDMQIKVEKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSYAVESARVE 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + + ++ Sbjct: 121 QRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAEATEAAEAAAGAQTYD 180 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRK Sbjct: 181 PILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRK 228 >gi|168805065|gb|ACA28611.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. CB1] gi|168805067|gb|ACA28612.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. 3As] gi|168805069|gb|ACA28613.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. CB3] gi|168805071|gb|ACA28614.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. CB6] gi|168805073|gb|ACA28615.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. CB2] Length = 228 Score = 219 bits (557), Expect = 7e-55, Method: Composition-based stats. Identities = 100/228 (43%), Positives = 147/228 (64%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NPDHVI + Sbjct: 1 GLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPDHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPA---KHHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP IG I +DA +SP+++VSY VESAR Sbjct: 61 LSQGGKLDMQIKVEKGRGYVPGTLRNFGEEGGKSIGHIVLDASFSPVRRVSYAVESARVE 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + ++ Sbjct: 121 QRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAETTEAAEAAAGGQTYD 180 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRK Sbjct: 181 PILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRK 228 >gi|150036740|emb|CAM98259.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 195 Score = 219 bits (557), Expect = 7e-55, Method: Composition-based stats. Identities = 88/195 (45%), Positives = 130/195 (66%), Gaps = 2/195 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGMF 231 ++L ++IL + LG+F Sbjct: 181 LSLGAKILAEHLGLF 195 >gi|119668335|emb|CAK95508.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 185 Score = 218 bits (556), Expect = 8e-55, Method: Composition-based stats. Identities = 93/185 (50%), Positives = 131/185 (70%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK D K I Sbjct: 1 LRRVLLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLSDEEKIAEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA ++T++ Sbjct: 61 DVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPASENKTDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ A++IL + Sbjct: 121 PIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVE 180 Query: 227 QLGMF 231 +F Sbjct: 181 HFKVF 185 >gi|255645616|gb|ACU23302.1| unknown [Glycine max] Length = 269 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 68/239 (28%), Positives = 123/239 (51%), Gaps = 4/239 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + I PL +G A T+G A+RRVL+ + G IT V+++ + HE S+I G+ Sbjct: 21 RIDSKRLYYGRFILSPLMKGQADTIGIAMRRVLLGEIEGTCITRVKLEKIPHEYSTIIGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GPG VTA DI +E+++ I N+ Sbjct: 81 EESVHEILMNLKEIVLRSNLYGTRDASICFKGPGYVTAQDIILPPSVEIVDNTQHIANVT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + +EL + + GY +N G IDA + P++ V++++ S G Sbjct: 141 EPVNLCIELKIERNRGYRIKT---LKNFQDGSYPIDATFMPVRNVNHSIHSYVNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL 257 + L + I T+GS+T ++++ ASR L D F++ EE ++ + + +LP Sbjct: 197 EILFLEIWTNGSLTPKEALYEASRNLIDLFIPFLHAEEDNFNLENNQHKVTLPLFTFHD 255 >gi|11467766|ref|NP_050817.1| RNA polymerase alpha chain [Nephroselmis olivacea] gi|24638188|sp|Q9TL28|RPOA_NEPOL RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|5880695|gb|AAD54788.1|AF137379_11 alpha subunit of RNA polymerase [Nephroselmis olivacea] Length = 495 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 91/376 (24%), Positives = 149/376 (39%), Gaps = 77/376 (20%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +IE + PLP G TLGNALRR+L+ L G A T+ + G HE Sbjct: 5 KHIETKRISART-YYGRFCVLPLPAGQGITLGNALRRILLGDLVGFAATSANLAGASHEF 63 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHK-------RVTIFKRGPGVVTAGDIQTVNDI 125 ++ G+ E + +I+LNIK + K K R ++ GP VTA D+ + + Sbjct: 64 DTLPGIRESVLEILLNIKQLVFKQISSRPKDTNRFAMRASLNLTGPATVTAKDLVLPSWM 123 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGY------------------------------ 155 +V++P I L A + E+ +S+G GY Sbjct: 124 KVVDPSQYIATLASGASLEFEIQLSQGSGYRLRRTSLVPPGFTLPPPRDPLEPENDSKSE 183 Query: 156 -------------VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY---- 198 + +I D+ + +K + + S R+ + + Sbjct: 184 TKSKSKGKSKNTSTSDVQLADTDVNAQIIDTDSNSTETEKEAPHIPSMRDDHMTLHIDAV 243 Query: 199 ---------------------DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 ++L + I T+GS++ ++ A+ IL L Sbjct: 244 FFPVTRVNYRVEEEVINGRRREELVIDIWTNGSLSPRKALDQAAVILIRMLASLQAPPPL 303 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 E ++ K++ A L +E L+LSVRS NCL+ NI +G LI T ++L++ N Sbjct: 304 LIEPEKKPTTKTIAKEIA-LTPIESLDLSVRSFNCLKRANITNVGKLIAYTRQELLQLKN 362 Query: 298 FGRKSLVEIKGVLGTM 313 FG KS E+ VL + Sbjct: 363 FGTKSASEVVDVLNSR 378 >gi|119668347|emb|CAK95470.1| RNA polymerase alpha subunit [Lactobacillus paracasei subsp. paracasei] Length = 180 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 87/180 (48%), Positives = 129/180 (71%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRR+L+SSL GAAI+++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K + I Sbjct: 1 LRRILLSSLPGAAISSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VTA DI D+EVLNP+ IC + + +TV KG GYV A +++++ Sbjct: 61 DVNGPAKVTAADIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++ ID++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + Sbjct: 121 PIGVLPIDSIFTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTE 180 >gi|150036728|emb|CAM98255.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 194 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 87/194 (44%), Positives = 129/194 (66%), Gaps = 2/194 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRILQDQLGM 230 ++L ++IL + LG+ Sbjct: 181 LSLGAKILAEHLGL 194 >gi|150036844|emb|CAM98287.1| DNA-directed RNA polymerase alpha chain [Leuconostoc holzapfelii] Length = 199 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 89/198 (44%), Positives = 130/198 (65%), Gaps = 2/198 (1%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DERSLEIDVQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D++ Sbjct: 121 ENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDAL 180 Query: 218 ALASRILQDQLGMFINFE 235 +L S+IL + L +F++ Sbjct: 181 SLGSKILAEHLNLFMDIS 198 >gi|328813999|gb|AEB52115.1| DNA-directed RNA polymerase alpha chain [Lactobacillus plantarum] Length = 215 Score = 218 bits (555), Expect = 1e-54, Method: Composition-based stats. Identities = 97/215 (45%), Positives = 141/215 (65%), Gaps = 2/215 (0%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D K + I Sbjct: 1 RRILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEID 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTEN 165 +GP VTAGDI D+EVLNPD IC + A M +T + G GYV A HR ++ Sbjct: 61 VKGPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 PIG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL Sbjct: 121 MPIGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILT 180 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 D L +F+N + K + + L + Sbjct: 181 DHLSIFVNLTDEAKNTDVMVEKEETHKEKMLEMTI 215 >gi|115391932|ref|YP_778521.1| RNA polymerase alpha subunit [Jasminum nudiflorum] gi|110456253|gb|ABG74658.1| RNA polymerase alpha subunit [Jasminum nudiflorum] Length = 270 Score = 217 bits (554), Expect = 1e-54, Method: Composition-based stats. Identities = 65/250 (26%), Positives = 118/250 (47%), Gaps = 8/250 (3%) Query: 13 NNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + E+ I PL +G A T+ +RR L+ + G IT V+ V Sbjct: 11 RTLQWKCVESREDSKRLYYGRFILSPLRKGQADTIAIGIRRALLGEIEGTCITRVKSKNV 70 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I++N K I L+ + +I RGPG VTA DI +E++ Sbjct: 71 PHEYSTIAGIQESVHEILMNFKEIVLRSNLYGTCDASICVRGPGYVTAQDIILPPYVEIV 130 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I +L + + L + + GY N G IDA++ P++ ++++ Sbjct: 131 DNTQHIASLTEPIDLCIGLQIERNRGY---LMKMPHNSQDGSYPIDAVFMPVRNANHSIH 187 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ A R L D F++ EE ++++ + Sbjct: 188 SYGSGNE-KHEILFLEIWTNGSLTPKEALHEACRNLIDLFIPFLHKEEETSPLEDNHHTV 246 Query: 249 SLPFNPALLK 258 L K Sbjct: 247 PLSPLTFHDK 256 >gi|72080507|ref|YP_287565.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyopneumoniae 7448] gi|90110848|sp|Q4A8J7|RPOA_MYCH7 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71913631|gb|AAZ53542.1| DNA-directed RNA polymerase alpha subunit [Mycoplasma hyopneumoniae 7448] Length = 332 Score = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 81/311 (26%), Positives = 150/311 (48%), Gaps = 17/311 (5%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q E T +PL RG +TLGNALRR ++SS+ A+ V+I+G+ HE + + V Sbjct: 14 VEQVNEFETSFEIKPLERGLGNTLGNALRRTVLSSIPSCAVFGVKIEGIKHEFTVLDDVI 73 Query: 80 EDLTDIILNIKGINL-----KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 ED+ I+ N+K + S +S + + G + A DI++ + ++++NPD I Sbjct: 74 EDVVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYI 133 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI----------GLITIDALYSPIKKVS 184 ++ ++ EL ++ G G+V + ++ + + ++ +D+ +SP+ + Sbjct: 134 ADVSKVGALKFELFITNGKGFVDFETNKKYVNEVISRLESQIEGSVLAVDSDFSPVLNAN 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE- 243 Y + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 194 YQAVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADF 253 Query: 244 -DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ L+LSVRS N LR + D+ + ++ D + N GRKS Sbjct: 254 FGDQEIKEEPIRRFSNSIDALDLSVRSLNALRRAQYYKISDIEKLSQDDFENIKNLGRKS 313 Query: 303 LVEIKGVLGTM 313 + EI L Sbjct: 314 VQEIMEKLQNY 324 >gi|54020095|ref|YP_115726.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyopneumoniae 232] gi|71893520|ref|YP_278966.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyopneumoniae J] gi|81603664|sp|Q601I9|RPOA_MYCH2 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|90110849|sp|Q4AAG6|RPOA_MYCHJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|53987268|gb|AAV27469.1| DNA-directed RNA polymerase alpha chain [Mycoplasma hyopneumoniae 232] gi|71851647|gb|AAZ44255.1| DNA-directed RNA polymerase alpha subunit [Mycoplasma hyopneumoniae J] gi|312601096|gb|ADQ90351.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyopneumoniae 168] Length = 332 Score = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 81/311 (26%), Positives = 150/311 (48%), Gaps = 17/311 (5%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + Q E T +PL RG +TLGNALRR ++SS+ A+ V+I+G+ HE + + V Sbjct: 14 VEQVNEFETSFEIKPLERGLGNTLGNALRRTVLSSIPSCAVFGVKIEGIKHEFTVLDDVI 73 Query: 80 EDLTDIILNIKGINL-----KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 ED+ I+ N+K + S +S + + G + A DI++ + ++++NPD I Sbjct: 74 EDVVTILNNLKRVRFFYNPSVFSQNSIHVASFLGQKAGQIYARDIESHSGLKIVNPDLYI 133 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI----------GLITIDALYSPIKKVS 184 ++ ++ EL ++ G G+V + ++ + + ++ +D+ +SP+ + Sbjct: 134 ADVSKVGALKFELFITNGKGFVDFETNKKYVNEVISLLESQIEGSVLAVDSDFSPVLNAN 193 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE- 243 Y + +KL+ +I TDGSI +D+++ ++IL L + + E K + Sbjct: 194 YQAVEINSASPIIEEKLNFSIKTDGSIFAKDALSQGAKILIAHLNLLADVENLNKFSADF 253 Query: 244 -DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 ++ L+LSVRS N LR + D+ + ++ D + N GRKS Sbjct: 254 FGDQEIKEEPIRRFSNSIDALDLSVRSLNALRRAQYYKISDIEKLSQDDFENIKNLGRKS 313 Query: 303 LVEIKGVLGTM 313 + EI L Sbjct: 314 VQEIMEKLQNY 324 >gi|86438816|emb|CAJ43373.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 203 Score = 217 bits (553), Expect = 2e-54, Method: Composition-based stats. Identities = 86/203 (42%), Positives = 129/203 (63%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K + + Sbjct: 1 RRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSFSDERKVIELD 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP VTA D++ D++VLNPD IC + + ME+ V G GYV A +++++ P Sbjct: 61 VEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++IL + Sbjct: 121 IGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEH 180 Query: 228 LGMFINFEEPKKEVKEDINVKSL 250 +F + + K + + + Sbjct: 181 FKVFESADADTKFSEVMVEKEDD 203 >gi|168805061|gb|ACA28609.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. Ynys1] Length = 228 Score = 217 bits (552), Expect = 2e-54, Method: Composition-based stats. Identities = 99/228 (43%), Positives = 149/228 (65%), Gaps = 3/228 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G+ ED+ ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NP+HVI + Sbjct: 1 GLQEDVIGVLLNLKGVVLKLHNRDEVTLSLRKDGEGVVTAADIQTPHDVEIINPEHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP + IG I +DA +SP+++VSY VESAR Sbjct: 61 LSHGGKLDMQIKVEKGRGYVPGTLRNYGDEGGKSIGHIVLDASFSPVRRVSYAVESARVE 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + + ++ Sbjct: 121 QRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAETTETAEAAAGAQTYD 180 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GRK Sbjct: 181 PILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGRK 228 >gi|154424871|emb|CAL18538.1| RNA polymerase alpha subunit [Streptococcus vestibularis] Length = 211 Score = 217 bits (552), Expect = 2e-54, Method: Composition-based stats. Identities = 88/211 (41%), Positives = 140/211 (66%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ +K + K Sbjct: 1 LGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + +GP VTAGDI T +DIE++NPDH + + A ++ +TV+ GYVPA ++ Sbjct: 61 TIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTISEGASLKATMTVATNRGYVPADENK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R Sbjct: 121 KDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSAR 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 +L + L +F + + K + + Sbjct: 181 VLIEHLNLFTDLTDVAKATDVMKETEKVNDE 211 >gi|90567617|emb|CAJ31076.1| RNA polymerase alpha subunit [Lactobacillus helveticus] gi|119662365|emb|CAJ33171.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 193 Score = 217 bits (552), Expect = 2e-54, Method: Composition-based stats. Identities = 85/188 (45%), Positives = 125/188 (66%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRVL++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K + + Sbjct: 1 RRVLLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSFSDERKVIELD 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP VTA D++ D++VLNPD IC + + ME+ V G GYV A +++++ P Sbjct: 61 VEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++IL + Sbjct: 121 IGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFAAKILVEH 180 Query: 228 LGMFINFE 235 +F + + Sbjct: 181 FKVFESAD 188 >gi|161784224|ref|YP_001595540.1| RNA polymerase alpha subunit [Lemna minor] gi|88696802|gb|ABD48527.1| RNA polymerase alpha subunit [Lemna minor] Length = 284 Score = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 66/243 (27%), Positives = 122/243 (50%), Gaps = 4/243 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + + PL +G A T+G A+RR L+ + G IT + + V HE S+I G+ Sbjct: 21 RVDSKRLHYGRFVLSPLMKGQADTIGIAMRRALLEEMEGTCITRAKSEKVPHEYSTIVGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + +I++N+K I L+ + + +I +GP +TA DI +E+++ I L Sbjct: 81 EESVHEILMNLKEIVLRSNLYGTREASICVKGPKTITAEDIILPASVEIVDTTQHIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + L + + GY + T N G IDA++ P++ ++++ S G Sbjct: 141 EPLDLYIGLQIQRDRGY---RMRPTNNSQDGSYPIDAVFMPVRNANHSIYSYGNGNE-KQ 196 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLK 258 + L + I T+GS+T ++++ ASR L D F++ EE ++E+ + +LP K Sbjct: 197 EILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHAEEKDINLEENKSRFTLPLFTFHDK 256 Query: 259 KVE 261 V Sbjct: 257 LVN 259 >gi|150187066|emb|CAK30163.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 208 Score = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 90/206 (43%), Positives = 140/206 (67%) Query: 42 TLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + Sbjct: 1 TLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDE 60 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 K + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA+ + Sbjct: 61 KILELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGN 120 Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++ Sbjct: 121 KKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINV 247 R+L + L +F + + K + Sbjct: 181 RVLIEHLNLFTDLTDVAKATEVMKET 206 >gi|290489664|gb|ADD31216.1| RNA polymerase alpha subunit protein [Lonicera japonica] Length = 264 Score = 216 bits (551), Expect = 3e-54, Method: Composition-based stats. Identities = 66/262 (25%), Positives = 127/262 (48%), Gaps = 10/262 (3%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M+Q+ + +E+ + + I PL +G A T+G A+RR L+ + Sbjct: 1 MVQEKVT--VSTRTLEWKCVESRADSKRLYYGRFILSPLMKGQADTIGIAMRRALLGEIE 58 Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 G IT + + + HE S+I G+ E + +I++N+K I L+ + +I RGPG VTA Sbjct: 59 GTCITRAKSEKIPHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTCDASICVRGPGNVTA 118 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI + +E+++ I +L + L + + GY+ + ++ G IDA+ Sbjct: 119 QDIISPPYVEIIDNTQHIVSLTEPIDFCIGLQIERNRGYLIKTPNHFQD---GSYPIDAV 175 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + P++ ++++ S + L + I T+GS+T ++++ ASR L D F++ EE Sbjct: 176 FMPVRNANHSIHSYGNENE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIPFLHTEE 234 Query: 237 PKKEVKEDINVKSLPFNPALLK 258 ++++ + L K Sbjct: 235 ENLHLEDNQHTVPLTPFTFHEK 256 >gi|150186939|emb|CAK30132.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 185 Score = 216 bits (551), Expect = 4e-54, Method: Composition-based stats. Identities = 87/185 (47%), Positives = 132/185 (71%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D K + + GP VTAGDI T +D+E++NPDH + + ++ +TV+K GYVPA Sbjct: 61 DDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 121 EGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALG 180 Query: 219 LASRI 223 L++R+ Sbjct: 181 LSARV 185 >gi|119662347|emb|CAJ33162.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 203 Score = 216 bits (550), Expect = 4e-54, Method: Composition-based stats. Identities = 92/203 (45%), Positives = 143/203 (70%), Gaps = 2/203 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + Sbjct: 1 NSLRRVLIASLPGAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHR 162 + +GP VTA DIQ N++ +LNPD I + A + ++LT KG GY+ A R Sbjct: 61 ELDVKGPAEVTASDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKAR 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L ++ Sbjct: 121 MDDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSLGAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDI 245 IL + L MF++ E + + + Sbjct: 181 ILTEHLAMFVDLTETAQNAQVMV 203 >gi|150036828|emb|CAM98281.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 208 Score = 215 bits (548), Expect = 7e-54, Method: Composition-based stats. Identities = 87/208 (41%), Positives = 131/208 (62%), Gaps = 2/208 (0%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + Sbjct: 1 GNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERS 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 LEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQ 120 Query: 164 --ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L + Sbjct: 121 LREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKS 249 +IL + L +F++ E + + Sbjct: 181 KILAEHLNLFMDISPVAAEANVMVEAEP 208 >gi|289524824|emb|CBJ94468.1| alpha subunit of RNA polymerase [Vibrio sp. Cmf 6.5] Length = 241 Score = 215 bits (548), Expect = 7e-54, Method: Composition-based stats. Identities = 102/244 (41%), Positives = 158/244 (64%), Gaps = 8/244 (3%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGV 113 + G A+T V+I+GVLHE S+ +GV ED+ +I+LN+KG+ + G +T+ K G G Sbjct: 1 MPGCAVTEVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVCVAEGKDEVFITLNKSGSGP 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 61 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARIHTEEDERPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ A+ IL +QL Sbjct: 121 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRRAATILAEQLD 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 181 AFVDLRDVRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 237 Query: 290 ADML 293 ++L Sbjct: 238 VELL 241 >gi|226968553|ref|YP_002808506.1| RNA polymerase alpha chain [Micromonas pusilla CCMP1545] gi|226348848|gb|ACO50751.1| RNA polymerase alpha chain [Micromonas pusilla CCMP1545] Length = 358 Score = 215 bits (547), Expect = 9e-54, Method: Composition-based stats. Identities = 80/356 (22%), Positives = 140/356 (39%), Gaps = 51/356 (14%) Query: 9 LIKPN---NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 I PN +E + ++ ++ P+ G TLGN RR+L++ L G AITA Sbjct: 3 FIVPNSSAKLECVEFREKNPRTQYARLVLGPVAPGQGVTLGNTFRRLLLNDLPGVAITAA 62 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD----SHKRVTIF------------ 107 +++ E ++ G+ E + +I LN++ I + +TI Sbjct: 63 KLNDARTEFVTLPGIRESVVEIFLNLRDIVFFNTFPDVLAPQGTITIDPSVHEGPTDAGE 122 Query: 108 ----KRGPGVVTAGDIQTVNDIEVLNPDHVICNL-DVDAVVRMELTVS------------ 150 P V+ AGD+Q + ++P I L + + + Sbjct: 123 GFELSTSPRVICAGDMQLPEGVYCVDPTQPIATLMNAHTPFHLSFILEQATGYRVWKKPT 182 Query: 151 --KGHGYVPAKHHRTENDPIG----LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 G G+ P + ID + P++ V++ V + + Sbjct: 183 QPYGRGFYPPRQTAAPQMEQVKSGLFQPIDGNFMPVRTVNFKVH----DGPPHGEYIHFE 238 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEP---KKEVKEDINVKSLPFNPALLKKVE 261 I T+GSI + A IL + + P EV + +V + +E Sbjct: 239 ITTNGSIHPHAAFKHAGAILTEITRATLQEPRPLVGMDEVSQPADVPNNQMAYFETIAIE 298 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LELS+R+ NCL+ I+ + DL + + +L + NFG+KS E+ L T G+ L Sbjct: 299 QLELSLRAYNCLKRAQILTLADLSRESYQSLLALRNFGQKSAEEVAKALETYGIEL 354 >gi|119368531|ref|YP_913219.1| RNA polymerase alpha subunit [Gossypium barbadense] gi|119224893|dbj|BAF41279.1| RNA polymerase alpha subunit [Gossypium barbadense] Length = 270 Score = 215 bits (547), Expect = 9e-54, Method: Composition-based stats. Identities = 61/241 (25%), Positives = 118/241 (48%), Gaps = 8/241 (3%) Query: 16 EYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 ++ + + I PL +G A T+G A+RR L+ L G IT + + + HE Sbjct: 16 QWKCVESRTDSKRLYYGRFILSPLMKGQADTIGIAMRRALLGELEGTCITRAKSEKIPHE 75 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I G+ E + +I++N+K I L+ + + I +GPG VTA DI +E+++ Sbjct: 76 YSTIVGIQESVHEILMNLKEIVLRGNLYGTRNAFICAKGPGYVTAQDIILPPSVEIVDNT 135 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + +L + + L + + GY +N G IDA++ P++ ++++ Sbjct: 136 QHVASLTEPIDLCIGLQIERNRGYGIKT---PKNFHDGSYPIDAVFMPVRNANHSIHCYG 192 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + L + I T+GS+T ++++ ASR L D F++ +E ++ + + +L Sbjct: 193 NDNE-KQEILFLEIWTNGSLTPKEALHEASRNLIDLFIHFLHAKEENLHLENNQHDVTLH 251 Query: 252 F 252 F Sbjct: 252 F 252 >gi|150036748|emb|CAM98027.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 210 Score = 215 bits (547), Expect = 1e-53, Method: Composition-based stats. Identities = 86/208 (41%), Positives = 131/208 (62%), Gaps = 2/208 (0%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + Sbjct: 1 GNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERS 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 LEIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKK 120 Query: 164 --ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L + Sbjct: 121 LRDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGA 180 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKS 249 +IL + L +F++ E + + Sbjct: 181 KILAEHLNLFMDISPVAAEASVMVEAEP 208 >gi|39938713|ref|NP_950479.1| DNA-directed RNA polymerase alpha subunit [Onion yellows phytoplasma OY-M] gi|39721822|dbj|BAD04312.1| DNA-directed RNA polymerase alpha subunit [Onion yellows phytoplasma OY-M] Length = 247 Score = 214 bits (546), Expect = 1e-53, Method: Composition-based stats. Identities = 89/254 (35%), Positives = 142/254 (55%), Gaps = 12/254 (4%) Query: 4 KNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 KN + IKP +E I E I +PL RG+ T+GNALRRVL+SSL G AI V Sbjct: 2 KNIK-FIKPFFVEEI---DENPISGKFIIKPLERGYGITVGNALRRVLLSSLPGTAIVNV 57 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS---GDSHKRVTIFKRGPGVVTAGDIQ 120 +I GV E ++I GV+ED+ IILN+K I + D +++ + +GP +TA + Sbjct: 58 KIQGVEQEFTTIPGVYEDVMTIILNLKKIVFAVDDESDDFEEKLELIAKGPQRLTASSFE 117 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE-NDPIGLITIDALYSP 179 ++++NPDH I L D M +T+ KG GYV AK ++ + +G+I ID+L++P Sbjct: 118 LPAGVKIINPDHYITTLSDDVCFHMTVTLKKGIGYVGAKDNKVHGENQVGVIAIDSLFTP 177 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + VSY VE ++ + D+L++ I T+G++ ++++A A+ IL D + + + Sbjct: 178 VVNVSYQVEK----KLGNKDELTIEITTNGALLAKEALATAASILVDHFNVLVELSQKPA 233 Query: 240 EVKEDINVKSLPFN 253 V+ K N Sbjct: 234 HVEFVSESKKEAHN 247 >gi|154424847|emb|CAL18526.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 202 Score = 214 bits (546), Expect = 1e-53, Method: Composition-based stats. Identities = 90/202 (44%), Positives = 139/202 (68%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K Sbjct: 1 LGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA+ ++ Sbjct: 61 IIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R Sbjct: 121 KDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSAR 180 Query: 223 ILQDQLGMFINFEEPKKEVKED 244 +L + L +F + E K + Sbjct: 181 VLIEHLNLFTDLTEVAKATEVM 202 >gi|150187061|emb|CAK30162.1| RNA polymerase alpha subunit [Streptococcus didelphis] Length = 209 Score = 214 bits (545), Expect = 2e-53, Method: Composition-based stats. Identities = 90/205 (43%), Positives = 138/205 (67%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 +GN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K Sbjct: 1 IGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNLKGLAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA+ ++ Sbjct: 61 MIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ P+G + ID++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R Sbjct: 121 KDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSAR 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINV 247 +L + L +F + E K Sbjct: 181 VLIEHLNLFTDLTEVAKATDVMKET 205 >gi|154424753|emb|CAL18479.1| RNA polymerase alpha subunit [Streptococcus agalactiae] Length = 213 Score = 214 bits (545), Expect = 2e-53, Method: Composition-based stats. Identities = 88/213 (41%), Positives = 141/213 (66%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K Sbjct: 1 LGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP +TAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ Sbjct: 61 IIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R Sbjct: 121 KDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSAR 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +L + L +F + E K + + + Sbjct: 181 VLIEHLNLFTDLTEVAKATEVMKETEKVNDEKV 213 >gi|150036792|emb|CAN89787.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 198 Score = 214 bits (545), Expect = 2e-53, Method: Composition-based stats. Identities = 86/194 (44%), Positives = 126/194 (64%), Gaps = 2/194 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + Sbjct: 1 LGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDER 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 SLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENK 120 Query: 163 T--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L Sbjct: 121 QLREEMPIGVLAVDSIYTPIERVNYHVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLG 180 Query: 221 SRILQDQLGMFINF 234 ++IL + L + Sbjct: 181 AKILAEHLNFVYGY 194 >gi|154424859|emb|CAL18532.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 203 Score = 214 bits (544), Expect = 2e-53, Method: Composition-based stats. Identities = 89/203 (43%), Positives = 138/203 (67%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + K Sbjct: 1 GNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ Sbjct: 61 IELDVTGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKN 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+ Sbjct: 121 DSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNAGFDKLTIEIMTNGTIIPEDALGLSARV 180 Query: 224 LQDQLGMFINFEEPKKEVKEDIN 246 L + L +F + E K + Sbjct: 181 LIEHLNLFTDLTEIAKTTEVMKE 203 >gi|47459096|ref|YP_015958.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma mobile 163K] gi|61215933|sp|Q6KI29|RPOA_MYCMO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|47458425|gb|AAT27747.1| DNA-directed RNA polymerase alpha chain [Mycoplasma mobile 163K] Length = 333 Score = 214 bits (544), Expect = 2e-53, Method: Composition-based stats. Identities = 92/334 (27%), Positives = 154/334 (46%), Gaps = 26/334 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 I+ NW E + + T I +PL +G A TLG A+RRVL+SS+ A Sbjct: 4 FIKINWTE---------NKTKRINDFSTSFIVQPLEKGLATTLGTAIRRVLLSSISSVAP 54 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK------RGPGVV 114 AV+I GV HE +I V ED+ I+L ++ I + + + + I+K + G + Sbjct: 55 FAVKIKGVEHEFMAINKVTEDVPQILLRLRDIKIAYNPEIFEDGKIYKLSLKSNKEAGDI 114 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI------ 168 A D E++NP +I V+ +++ V G GYV + ++ D I Sbjct: 115 YAKDFILPIGAEIVNPGLLIATTAAANVLEIDVFVRAGRGYVDFEENKKYIDEIKTNLTS 174 Query: 169 -----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 I +D+ +SPI+KVS++ V+ +KL M I T G+I ++++A A++I Sbjct: 175 SISNGQYIAVDSNFSPIEKVSFSSSELNTSSVIVQEKLEMEIVTKGTIDAKNAIAQAAKI 234 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 L L + + + + + ++ L+LS+RS N L+ N + Sbjct: 235 LVAHLNIIGDVNSLNIKDIFEEGNTEKEHSKTQNILIQSLDLSIRSFNALKRANYTTVQQ 294 Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L + D+ + N G KS+ EI L +FL Sbjct: 295 LEALSLDDLKNIKNLGEKSINEIVEKLEKYNVFL 328 >gi|315451275|gb|ADU24722.1| RNA polymerase alpha subunit [Lactobacillus sp. YM 0181] gi|315451277|gb|ADU24723.1| RNA polymerase alpha subunit [Lactobacillus sp. YM 0188] Length = 213 Score = 213 bits (543), Expect = 3e-53, Method: Composition-based stats. Identities = 83/202 (41%), Positives = 136/202 (67%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++SL G A++ +QIDGVLHE S+I GV ED+T I+LN+K + LK + + Sbjct: 1 GNSLRRVLLASLPGTAVSDIQIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYAEDSLK 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + GP VTA DI+ +D+E+L+P+ IC + M++T+ G GY PA+ ++T Sbjct: 61 AEVDIVGPATVTAKDIKADDDLEILDPEQFICTVAEGGHFHMQMTIKNGRGYTPAEQNKT 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 + PIG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++I Sbjct: 121 DETPIGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKI 180 Query: 224 LQDQLGMFINFEEPKKEVKEDI 245 L + L F+N E K I Sbjct: 181 LTEHLNSFVNLTEEAKSADMMI 202 >gi|108796735|ref|YP_636498.1| alpha subunit of RNA polymerase [Zygnema circumcarinatum] gi|122226721|sp|Q32RM8|RPOA_ZYGCR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|61393719|gb|AAX45861.1| alpha subunit of RNA polymerase [Zygnema circumcarinatum] Length = 356 Score = 213 bits (542), Expect = 3e-53, Method: Composition-based stats. Identities = 76/343 (22%), Positives = 146/343 (42%), Gaps = 47/343 (13%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + PL G A T+G A+RR L+ + IT+ + G HE S++KG+ Sbjct: 18 EIQNARLHYGRFAVYPLFPGQAITIGTAIRRALLGEVHSTCITSAYVVGASHEYSTLKGI 77 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI+LN+K I K + + GPG+VTA I+ ++V++ I L+ Sbjct: 78 RESIHDILLNLKDIVFKSDTLERQEGILLFNGPGIVTAQHIKLPPVVQVVDNTQYIARLE 137 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + + + +T+ T G +DA P++ ++Y++ S EG + Sbjct: 138 MPTSIEIHITLE---NTKTCTSLNTMPTTKGRFILDAALKPVRNMNYSIHSLGEGD-MRQ 193 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL- 257 + L + + T+GS+T ++ ++ AS+ L D L + E + + + + Sbjct: 194 EMLVLEVWTNGSLTPQEVISQASQNLNDLLKPLLKVERYFQAKQNIHKKRMFTPTQSENL 253 Query: 258 -----------------------------------------KKVEELELSVRSTNCLRGE 276 +++L++SVR++NCL+ Sbjct: 254 NMDQIEMIGGNKLIDQPLLPADSHLNSSLSLNIDNLVHLEGISIDDLQISVRASNCLKKV 313 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEI-KGVLGTMGLFLG 318 I + L+ T+ D+ ++ N G+KS+ +I + + G LG Sbjct: 314 GIYTIRQLLSYTQQDLFQIKNLGKKSVEQIVIAIRKSYGHILG 356 >gi|150187022|emb|CAK30153.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 184 Score = 212 bits (541), Expect = 4e-53, Method: Composition-based stats. Identities = 82/184 (44%), Positives = 129/184 (70%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + +GP VTAGDI T +DIE++N DH + + A + +TV+ GYV A Sbjct: 61 EDEKIIELDVQGPAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 + ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 121 EGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALG 180 Query: 219 LASR 222 L++R Sbjct: 181 LSAR 184 >gi|150036722|emb|CAM98252.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 212 bits (541), Expect = 5e-53, Method: Composition-based stats. Identities = 85/188 (45%), Positives = 125/188 (66%), Gaps = 2/188 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASRIL 224 ++L ++IL Sbjct: 181 LSLGAKIL 188 >gi|119662831|emb|CAJ33208.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 180 Score = 212 bits (540), Expect = 5e-53, Method: Composition-based stats. Identities = 86/176 (48%), Positives = 124/176 (70%), Gaps = 2/176 (1%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRRV+M+SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + Sbjct: 1 GTTLGNSLRRVMMASLPGAAITSIQIDGVLHEFSTVQGVTEDVTQIILNLKKVSLKIESE 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + + +GP VTAGDIQ D+ +LNPD I + A + + +T KG GYVPA Sbjct: 61 DAKDLELDVKGPAEVTAGDIQGDGDVTILNPDLHIATVADGAELHIMMTADKGRGYVPAD 120 Query: 160 HHR--TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 ++ IG + ID++Y+PI++V+YTVE+ R GQ D+DKL++ + TDGS+T Sbjct: 121 QNKLRLSGLEIGTLPIDSIYTPIERVNYTVENTRVGQSNDFDKLTLDVWTDGSLTP 176 >gi|119662851|emb|CAJ33218.1| RNA polymerase alpha subunit [Lactobacillus fuchuensis] Length = 202 Score = 212 bits (540), Expect = 5e-53, Method: Composition-based stats. Identities = 82/202 (40%), Positives = 134/202 (66%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L++SL G A+T +QIDGVLHE S+I GV ED+T IILN+K + LK+ + K + I + Sbjct: 1 ILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNVKKLALKLHVEEDKTIEIDVK 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTA DI +D+EVLN D IC + + +TV KG GYV A +++++ PIG Sbjct: 61 GPATVTAADIVADDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAADQNKSDDMPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I+ + L Sbjct: 121 VLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLA 180 Query: 230 MFINFEEPKKEVKEDINVKSLP 251 +F++ + K + + + Sbjct: 181 IFVDLTDEAKNAEIMVEKEETH 202 >gi|151416836|emb|CAO78489.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 193 Score = 212 bits (540), Expect = 7e-53, Method: Composition-based stats. Identities = 87/193 (45%), Positives = 128/193 (66%), Gaps = 2/193 (1%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDS 100 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 TTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLXIDSDE 60 Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + + + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 ERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADE 120 Query: 161 HRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++ Sbjct: 121 NKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALS 180 Query: 219 LASRILQDQLGMF 231 L S+IL + L +F Sbjct: 181 LGSKILAEHLNLF 193 >gi|119662823|emb|CAJ33204.1| RNA polymerase alpha subunit [Lactobacillus coleohominis DSM 14060] Length = 173 Score = 212 bits (539), Expect = 9e-53, Method: Composition-based stats. Identities = 81/173 (46%), Positives = 123/173 (71%), Gaps = 1/173 (0%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRV+++SL GAAIT++ IDGVLHE S+++GV ED+T IILN+K ++ Sbjct: 1 PLERGYGTTLGNSLRRVMLASLPGAAITSINIDGVLHEFSTVEGVTEDVTQIILNLKKVS 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 L++ + K + + +GP VTAGDIQ D+ VLNPD I + A + +++T KG Sbjct: 61 LRIDSEDQKNLELNVKGPAEVTAGDIQGDGDVTVLNPDLHIATVADGAELHIQMTADKGR 120 Query: 154 GYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 GY A ++ + IG++ ID++Y+PI++V+YTVE+ R GQ DY+KL++ + Sbjct: 121 GYSSADDNKARMDLAIGVLPIDSIYTPIERVNYTVENTRVGQNNDYNKLTLDV 173 >gi|150186952|emb|CAK30135.1| RNA polymerase alpha subunit [Streptococcus equi subsp. zooepidemicus] Length = 205 Score = 211 bits (538), Expect = 1e-52, Method: Composition-based stats. Identities = 87/203 (42%), Positives = 138/203 (67%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K Sbjct: 1 GNSLRRVLLSSLPGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKI 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ Sbjct: 61 IELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIADGYTLKASMTVAKKRGYVPAEGNKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+ Sbjct: 121 DDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARV 180 Query: 224 LQDQLGMFINFEEPKKEVKEDIN 246 L + L +F + + K + Sbjct: 181 LIEHLNLFTDLTDVAKATEVMKE 203 >gi|119668371|emb|CAK95515.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. carnosus] Length = 196 Score = 211 bits (538), Expect = 1e-52, Method: Composition-based stats. Identities = 83/196 (42%), Positives = 134/196 (68%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L++SL G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + K + I + Sbjct: 1 ILLASLPGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDKTIEIDVK 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTA DI + +D+EVLN D IC + + +TV KG GYV A +++++ PIG Sbjct: 61 GPATVTAADIISDDDVEVLNTDQYICTVAEGGNFHVRMTVKKGRGYVAAVQNKSDDMPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I+ + L Sbjct: 121 VLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLA 180 Query: 230 MFINFEEPKKEVKEDI 245 +F++ + K + + Sbjct: 181 IFVDLTDEAKNAEIMV 196 >gi|150036788|emb|CAM98271.1| DNA-directed RNA polymerase alpha chain [Leuconostoc pseudomesenteroides] Length = 205 Score = 211 bits (538), Expect = 1e-52, Method: Composition-based stats. Identities = 85/204 (41%), Positives = 129/204 (63%), Gaps = 2/204 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + Sbjct: 1 NSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT- 163 I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EIDVQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKL 120 Query: 164 -ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYQVENTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDIN 246 IL + L +F++ E + Sbjct: 181 ILAEHLNLFMDISPVAAEASVMVE 204 >gi|154424839|emb|CAL18522.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 203 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 85/203 (41%), Positives = 135/203 (66%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K Sbjct: 1 GNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKI 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + +GP VTAGDI T +DIE++N DH + + A + +TV+ GYV A+ ++ Sbjct: 61 IELDVQGPAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+ Sbjct: 121 DDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARV 180 Query: 224 LQDQLGMFINFEEPKKEVKEDIN 246 L + L +F + E K Sbjct: 181 LIEHLNLFTDLTEVAKATDVMKE 203 >gi|119662393|emb|CAJ33186.1| RNA polymerase alpha subunit [Lactobacillus plantarum] Length = 204 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 94/204 (46%), Positives = 137/204 (67%), Gaps = 2/204 (0%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D K + I + Sbjct: 1 ILLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVK 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDP 167 GP VTAGDI D+EVLNPD IC + A M +T + G GYV A HR ++ P Sbjct: 61 GPANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D Sbjct: 121 IGVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDH 180 Query: 228 LGMFINFEEPKKEVKEDINVKSLP 251 L +F+N + K + + Sbjct: 181 LSIFVNLTDEAKNTDVMVEKEETH 204 >gi|119662315|emb|CAJ33145.1| RNA polymerase alpha subunit [Lactobacillus iners DSM 13335] Length = 209 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 92/205 (44%), Positives = 140/205 (68%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL++S+ G A++ + IDGVLHE S+I GV ED+T IILN+K + LK+ D K Sbjct: 1 LGNSLRRVLLTSISGTALSYIMIDGVLHEFSTIPGVREDVTKIILNLKKLELKLLVDEEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 V I GP VVTA D++ D+E+LNPD IC + + M + + G GY+PA ++ Sbjct: 61 MVEIDVEGPAVVTAADLKVDADVEILNPDQYICTIAEGGHLHMSIAIKNGRGYIPASENK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 +++ PIG+I +D+L+SPIKKV+Y VE+AR G+ DYDKL++ + TDGSIT D+++ A++ Sbjct: 121 SDDMPIGVIPVDSLFSPIKKVNYQVENARVGKRDDYDKLTLELWTDGSITPNDALSFAAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINV 247 IL++ +F++ + + I Sbjct: 181 ILEEHFKVFMSADMSDQFANVMIEK 205 >gi|150036732|emb|CAM98257.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 186 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 83/186 (44%), Positives = 123/186 (66%), Gaps = 2/186 (1%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + Sbjct: 1 YGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDS 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 D + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 DDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSA 120 Query: 159 KHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+ Sbjct: 121 DENKKLRDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDA 180 Query: 217 VALASR 222 ++L ++ Sbjct: 181 LSLGAK 186 >gi|168805063|gb|ACA28610.1| DNA-directed RNA polymerase subunit alpha [Thiomonas sp. WJ68] Length = 228 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 96/227 (42%), Positives = 146/227 (64%), Gaps = 3/227 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 G + + ++LN+KG+ LK+ +++ K G GVVTA DIQT +D+E++NP+HVI + Sbjct: 1 GKRQRVIGVLLNLKGVVLKLHNRDEVTLSLRKEGEGVVTAADIQTPHDVEIINPEHVIAH 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTEN---DPIGLITIDALYSPIKKVSYTVESAREG 193 L + M++ V KG GYVP + IG I +DA +SP+++VSY VESAR Sbjct: 61 LSHGGKLDMQIKVEKGRGYVPGTLRNYGDEGGKSIGHIVLDASFSPVRRVSYAVESARVE 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 Q D DKL M I+T+G I+ E+++ ++RIL +QL +F + E + + + ++ Sbjct: 121 QRTDLDKLVMEIETNGVISAEEAIRSSARILVEQLSVFASLEGAETTEAAETAAGAQTYD 180 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 P LL+ V+ELEL+VRS NCL+ ENI Y+GDLIQR+E ++L+ N GR Sbjct: 181 PILLRPVDELELTVRSANCLKAENIYYIGDLIQRSETELLKTPNLGR 227 >gi|304373166|ref|YP_003856375.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyorhinis HUB-1] gi|304309357|gb|ADM21837.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyorhinis HUB-1] gi|330723976|gb|AEC46346.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hyorhinis MCLD] Length = 333 Score = 211 bits (537), Expect = 1e-52, Method: Composition-based stats. Identities = 83/317 (26%), Positives = 148/317 (46%), Gaps = 18/317 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + T +PL RGFA+TLGN+LRR ++SS+ A+ V+I+GV HE S I V Sbjct: 13 KAEHLSDFETTFELQPLERGFANTLGNSLRRTILSSVPSVAVFGVKIEGVEHEFSVIDKV 72 Query: 79 HEDLTDIILNIKGINLKMSGD-----SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ED+ I+ N+K + + + + R G +T DI + +E++N D V Sbjct: 73 REDVVTILNNLKKLRFSFKKEVFLQNEIQVASFDGRKVGKITGADILVNSALEIVNKDQV 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP-----------IGLITIDALYSPIKK 182 + N ++ E+ ++ G G+V + ++ + +I +D+ +S ++ Sbjct: 133 VANTSEVGALKFEMFLTYGRGFVDFETNKRKIQELGPALESKLGYGQIIAVDSDFSAVEN 192 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V ++ + +KL+ ++ TDG+I +D++A A++IL L + + EV Sbjct: 193 VKFSSTELNSSNPIVEEKLTFSVKTDGTILAKDALAEAAKILIAHLKLVSDTANLDAEVD 252 Query: 243 EDINVKSLPFNPALLKKVE--ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 + L+L+VRS N LR + DL++ T ++ + N G+ Sbjct: 253 SFFEEVKQKEEAPKKNSADLTTLDLTVRSLNALRRAQYYKISDLLELTLEELENIKNLGK 312 Query: 301 KSLVEIKGVLGTMGLFL 317 KS+ EI L L L Sbjct: 313 KSVEEIVEKLKEHNLEL 329 >gi|150187019|emb|CAK30152.1| RNA polymerase alpha subunit [Streptococcus sobrinus] Length = 202 Score = 210 bits (536), Expect = 2e-52, Method: Composition-based stats. Identities = 88/202 (43%), Positives = 137/202 (67%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + K + Sbjct: 1 NSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKTI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ + Sbjct: 61 ELDVTGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKND 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 SAPVGTLAVDSIYTPVKKVNYQVEPARVGSNAGFDKLTIEIMTNGTIIPEDALGLSARVL 180 Query: 225 QDQLGMFINFEEPKKEVKEDIN 246 + L +F + E K + Sbjct: 181 IEHLNLFTDLTEIAKTTEVMKE 202 >gi|187763133|ref|YP_001876608.1| RNA polymerase alpha subunit [Welwitschia mirabilis] gi|163311663|gb|ABY26821.1| RNA polymerase alpha subunit [Welwitschia mirabilis] gi|220983428|dbj|BAH11197.1| RNA polymerase alpha chain [Welwitschia mirabilis] Length = 340 Score = 210 bits (536), Expect = 2e-52, Method: Composition-based stats. Identities = 71/318 (22%), Positives = 133/318 (41%), Gaps = 18/318 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEIS--S 74 + + + PL RG T+G+ALRR L+ + G +T V+ V H S + Sbjct: 21 RVESKRSHYGRFSLSPLLRGQGGTIGSALRRTLLRDVEGTNVTHVKFFNKRVKHLFSSST 80 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I G+ E + DII+N++ I + + I+ GP VTA DI I++++ I Sbjct: 81 ILGIEESVHDIIMNLREIVFRCELHGIHKAYIYTVGPKNVTAQDIILPPFIQIVDGTQHI 140 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG- 193 ++ + + L + K G H I + Y P++ V+Y V ++ Sbjct: 141 ASITKPIHLHVTLKIEKNWGETTESIHPITKYFTRYIPTEIFYMPVRSVTYNVYFYKDEY 200 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + YD L + T+G +T ++++ A L D + ++ E LP Sbjct: 201 DIHIYDILIFELWTNGELTPKEALYEACWRLIDLIIPLLDVPLLHVEGSGVKESIPLPIV 260 Query: 254 PALLKKVEE----------LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + E+ L L + + LR +I + D + ++ D+ + ++S Sbjct: 261 SNMNRTQEDLFVQHLFIDQLGLPSKISKSLRESHIYRVSDFMNYSQQDLKNLEYSKKES- 319 Query: 304 VEIKGVLGTMGLFLGMNL 321 I+ L + + G+NL Sbjct: 320 --IEQTLEILHKYFGINL 335 >gi|315451273|gb|ADU24721.1| RNA polymerase alpha subunit [Lactobacillus sp. YM 0097] Length = 212 Score = 210 bits (535), Expect = 2e-52, Method: Composition-based stats. Identities = 82/201 (40%), Positives = 135/201 (67%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL G A++ +QIDGVLHE S+I GV ED+T I+LN+K + LK + + Sbjct: 1 NSLRRVLLASLPGTAVSDIQIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYAEDSLKA 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTA DI+ +D+E+L+P+ IC + M++T+ G GY PA+ ++T+ Sbjct: 61 EVDIVGPATVTAKDIKADDDLEILDPEQFICTVAEGGHFHMQMTIKNGRGYTPAEQNKTD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 PIG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL Sbjct: 121 ETPIGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDI 245 + L F+N E K I Sbjct: 181 TEHLNSFVNLTEEAKSADMMI 201 >gi|150186989|emb|CAK30143.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 202 Score = 209 bits (533), Expect = 4e-52, Method: Composition-based stats. Identities = 87/202 (43%), Positives = 132/202 (65%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE +I GV ED+ IILNIKGI +K K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTIPGVREDVMQIILNIKGIAVKSYVQDEKMI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP +TAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIGEGARFKAVMTVNSGRGYVPADQNKRD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL Sbjct: 121 DAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDIN 246 + L +F + E K Sbjct: 181 TEHLDLFTDLTEVAKATDVMKE 202 >gi|119668357|emb|CAK95473.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 179 Score = 209 bits (533), Expect = 4e-52, Method: Composition-based stats. Identities = 85/178 (47%), Positives = 127/178 (71%), Gaps = 2/178 (1%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLG++LR VL++SL GAAIT++QIDGVLHE S+ +GV ED+T IILN+K ++LK++ Sbjct: 1 GYGTTLGDSLRGVLLASLPGAAITSMQIDGVLHEFSTDEGVTEDVTQIILNLKKVSLKIN 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 + K + + +GP VTA DIQ ++ +LNPD I + A + +++T KG GY+ Sbjct: 61 SEDQKDLELDVKGPAEVTAADIQGDGEVTILNPDLHIATVADGAELHIKMTADKGRGYLS 120 Query: 158 A--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 A R E+ IG++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T Sbjct: 121 ANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTP 178 >gi|218176272|ref|YP_002364529.1| RNA polymerase alpha subunit [Festuca arundinacea] gi|215882356|gb|ACJ70786.1| RNA polymerase alpha subunit [Festuca arundinacea] Length = 346 Score = 209 bits (532), Expect = 6e-52, Method: Composition-based stats. Identities = 85/331 (25%), Positives = 152/331 (45%), Gaps = 40/331 (12%) Query: 19 VLGQEEENRTLMI-AEPLPRGFAHTLGNALRRVL-------MSSLRGAAI--TAVQIDGV 68 + + I L +G A RRVL + + G + T + V Sbjct: 21 RVDSKRLYYGRFISVLRLGKGQAE-----HRRVLALGRGFNLEKIEGNNVLATRAKFGSV 75 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I G+ E + +I+LN+K I L+ + + +I +GP +TA DI +E++ Sbjct: 76 PHEYSTIAGIEESVQEILLNLKEIVLRSNLYGVRDASISVKGPRYITAQDIILPPSVEIV 135 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + I NL +EL + + GY +N G IDA+ P++ V+Y++ Sbjct: 136 DTSQPIANLTEPIDFCIELQIKRDRGYQTELR---KNYQDGSYPIDAVSMPVRNVNYSIF 192 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 S G ++ L + I T+GS+T ++++ ASR L D F++ EE +E+ N Sbjct: 193 SCGNGNE-KHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLHAEEEGTSFEENKNRF 251 Query: 249 SLPFNPALLK------------------KVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + P + +++LEL R+ NCL+ NI + DL+ +TE Sbjct: 252 TPPLFTFQKRLTNLNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRANIHTLLDLLSKTEE 311 Query: 291 DMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 D++R+ +F + + K + T+ +L ++L Sbjct: 312 DLMRIDSF---HMEDGKQIWDTLEKYLPIDL 339 >gi|150036768|emb|CAM98265.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 212 Score = 209 bits (531), Expect = 6e-52, Method: Composition-based stats. Identities = 86/207 (41%), Positives = 131/207 (63%), Gaps = 2/207 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + Sbjct: 1 NSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIESDDERSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT- 163 I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKL 120 Query: 164 -ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKS 249 IL + LG+F++ E + + Sbjct: 181 ILAEHLGLFMDISPVAAEASVMVEAEP 207 >gi|150187125|emb|CAK30176.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 202 Score = 209 bits (531), Expect = 7e-52, Method: Composition-based stats. Identities = 89/202 (44%), Positives = 135/202 (66%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE ++ GV ED+ IILNIKGI +K + K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEGEKTI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +DIE++NP+H + + A ++ +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEVTAGDILTDSDIEIVNPNHYLFTIGEGASLKAVMTVNTGRGYVPADENKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL Sbjct: 121 DAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDIN 246 + L +F N E K Sbjct: 181 TEHLDLFTNLTEMAKSTDVMKE 202 >gi|150187122|emb|CAK30175.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 201 Score = 208 bits (530), Expect = 8e-52, Method: Composition-based stats. Identities = 88/201 (43%), Positives = 135/201 (67%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + Sbjct: 1 SLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 + GP VTAGDI T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ Sbjct: 61 LDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKED 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 APVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLI 180 Query: 226 DQLGMFINFEEPKKEVKEDIN 246 + L +F + E K Sbjct: 181 EHLNLFTDLTEVAKNTDVMKE 201 >gi|150186960|emb|CAK30137.1| RNA polymerase alpha subunit [Streptococcus infantis ATCC 700779] Length = 173 Score = 208 bits (530), Expect = 8e-52, Method: Composition-based stats. Identities = 84/172 (48%), Positives = 118/172 (68%) Query: 34 PLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGIN 93 PL RG+ TLGN+LRRVL++SL GAA+T++ IDGVLHE +I GV ED+ IILNIKGI Sbjct: 1 PLERGYGTTLGNSLRRVLLASLPGAAVTSIDIDGVLHEFDTIPGVREDVMQIILNIKGIA 60 Query: 94 LKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 +K K + + GP VTAGDI T +DIE++NPDH + + A + +TV+ G Sbjct: 61 VKSYVKDEKTIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGASFKATMTVNTGR 120 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 GYVPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I Sbjct: 121 GYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEI 172 >gi|150187094|emb|CAK30169.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. constellatus] gi|154424831|emb|CAL18518.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. constellatus] Length = 202 Score = 208 bits (530), Expect = 9e-52, Method: Composition-based stats. Identities = 88/202 (43%), Positives = 134/202 (66%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE ++ GV ED+ IILN+KGI +K + K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP +TAGDI T +DIE++NPDH + + A ++ +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIGEGASLKAIMTVNAGRGYVPADENKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL Sbjct: 121 DAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDIN 246 L +F N E K Sbjct: 181 TQHLDLFTNLTEVAKSTDVMKE 202 >gi|154424797|emb|CAL18501.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 194 Score = 208 bits (530), Expect = 9e-52, Method: Composition-based stats. Identities = 86/194 (44%), Positives = 131/194 (67%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE +I GV ED+ IILNIKGI +K K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTIPGVREDVMQIILNIKGIAVKSYVQDEKMI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP +TAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIGEGARFKAVMTVNSGRGYVPADQNKRD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL Sbjct: 121 DAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARIL 180 Query: 225 QDQLGMFINFEEPK 238 + L +F + E Sbjct: 181 TEHLDLFTDLTEVA 194 >gi|308190154|ref|YP_003923085.1| DNA-directed RNA polymerase alpha chain [Mycoplasma fermentans JER] gi|319777458|ref|YP_004137109.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma fermentans M64] gi|307624896|gb|ADN69201.1| DNA-directed RNA polymerase alpha chain [Mycoplasma fermentans JER] gi|318038533|gb|ADV34732.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma fermentans M64] Length = 337 Score = 208 bits (530), Expect = 9e-52, Method: Composition-based stats. Identities = 87/323 (26%), Positives = 151/323 (46%), Gaps = 22/323 (6%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + L N T +PL RG TLG ALRR+L+S++ A+ A++I+ V HE + Sbjct: 11 KVTKLNNSTSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLALFAIKIEDVNHEFQVV 70 Query: 76 KGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLN 129 G ED+ II+N++ + + + D +VT+ PG VT+ ++ + IE+LN Sbjct: 71 DGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVTSRLLEVNNSSIEILN 130 Query: 130 PDHVICNLDVDA--VVRMELTVSKGHGYVP-------------AKHHRTENDPIGLITID 174 I +L + + +EL + G G++ ++ I D Sbjct: 131 KSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITTRMESKIKNGIFIATD 190 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 + +SPI+KV+YTVE ++L+ + TDG++ + ++ A IL + N Sbjct: 191 SNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQACEILVGHFKLIGNV 250 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 +E K V + + ++ N + L LSVRS N L+ + + + + ++ + Sbjct: 251 DEMKVNVFAEESEQTQETND-NDVDINSLNLSVRSLNALKRIGKTKISQVAEMSLEELEQ 309 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 + N GRKSL EI+ L G L Sbjct: 310 VKNLGRKSLDEIQQRLKEYGYEL 332 >gi|119668333|emb|CAK95466.1| RNA polymerase alpha subunit [Lactobacillus intestinalis] Length = 191 Score = 208 bits (530), Expect = 1e-51, Method: Composition-based stats. Identities = 83/186 (44%), Positives = 125/186 (67%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL++S+ G + VQIDGVLHE +++ GV ED+T IILN+K + LK D K + + Sbjct: 1 VLLTSIPGTGLVYVQIDGVLHEFATVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVE 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTA D++ D++VLNPD IC + + M++ V G GYVPA +++E+ PIG Sbjct: 61 GPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMQIAVKNGRGYVPASDNKSEDMPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 +I +D+L+SPIKKV+Y VES R G+ D+DKL++ I TDGSI D+++ A++IL + Sbjct: 121 VIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTLEIWTDGSIKPNDALSFAAKILVEHFK 180 Query: 230 MFINFE 235 +F + + Sbjct: 181 VFESAD 186 >gi|150036776|emb|CAM98267.1| DNA-directed RNA polymerase alpha chain [Weissella viridescens] Length = 175 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 85/172 (49%), Positives = 119/172 (69%), Gaps = 2/172 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL GAAI +VQIDGVLHE S+++GV ED+T IILN+K +++++ D K Sbjct: 4 LGNSLRRVLLSSLPGAAINSVQIDGVLHEFSTVEGVVEDVTQIILNLKKVSMRIDSDDEK 63 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + GP VTAGD D+EVLN D I + A + M +T +G GYV ++ Sbjct: 64 TLEVNVNGPATVTAGDFVGDADVEVLNKDQYIATVAAGATLHMTVTAVRGRGYVSGDQNK 123 Query: 163 T--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 E+ PIG++ ID++++PI++V+Y VE R GQ DYDKL+M I TDGS+T Sbjct: 124 ELHEDTPIGVLAIDSIFTPIERVNYQVEETRVGQRNDYDKLTMDIWTDGSLT 175 >gi|119668337|emb|CAK95467.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 187 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 89/185 (48%), Positives = 130/185 (70%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK D K I G Sbjct: 1 LLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVTG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA ++T++ PIG+ Sbjct: 61 PAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPASENKTDDMPIGV 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D+++ A++IL + + Sbjct: 121 IPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPNDALSFAAKILVEHFKV 180 Query: 231 FINFE 235 F++ + Sbjct: 181 FMSTD 185 >gi|238810271|dbj|BAH70061.1| hypothetical protein [Mycoplasma fermentans PG18] Length = 339 Score = 208 bits (529), Expect = 1e-51, Method: Composition-based stats. Identities = 87/323 (26%), Positives = 151/323 (46%), Gaps = 22/323 (6%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + L N T +PL RG TLG ALRR+L+S++ A+ A++I+ V HE + Sbjct: 13 KVTKLNNSTSNVTAFTLQPLERGMGQTLGVALRRILLSNITSLALFAIKIEDVNHEFQVV 72 Query: 76 KGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLN 129 G ED+ II+N++ + + + D +VT+ PG VT+ ++ + IE+LN Sbjct: 73 DGCVEDVATIIMNLRKVKFQYNPEFVKDDEIIKVTLKADQPGEVTSRLLEVNNSSIEILN 132 Query: 130 PDHVICNLDVDA--VVRMELTVSKGHGYVP-------------AKHHRTENDPIGLITID 174 I +L + + +EL + G G++ ++ I D Sbjct: 133 KSLEIAHLSANGKHKLNIELYLRPGRGFISNEENKKLLNNSSITTRMESKIKNGIFIATD 192 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 + +SPI+KV+YTVE ++L+ + TDG++ + ++ A IL + N Sbjct: 193 SNFSPIEKVNYTVEELNSSSNKIEERLTFSFQTDGTVDPKSALQQACEILVGHFKLIGNV 252 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 +E K V + + ++ N + L LSVRS N L+ + + + + ++ + Sbjct: 253 DEMKVNVFAEESEQTQETND-NDVDINSLNLSVRSLNALKRIGKTKISQVAEMSLEELEQ 311 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 + N GRKSL EI+ L G L Sbjct: 312 VKNLGRKSLDEIQQRLKEYGYEL 334 >gi|150036770|emb|CAM98266.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 210 Score = 207 bits (528), Expect = 1e-51, Method: Composition-based stats. Identities = 86/207 (41%), Positives = 131/207 (63%), Gaps = 2/207 (0%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + Sbjct: 1 NSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT- 163 + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQL 120 Query: 164 -ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+ Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSK 180 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKS 249 IL + L +F++ E + V+ Sbjct: 181 ILAEHLNLFMDISPVAAEANVMVEVEP 207 >gi|119662391|emb|CAJ33185.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 174 Score = 207 bits (528), Expect = 2e-51, Method: Composition-based stats. Identities = 82/174 (47%), Positives = 123/174 (70%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRRVL++SL G+A++ +QIDGVLHE S+I GV ED+T IILN+K + LK K Sbjct: 1 SLRRVLLASLPGSAVSYLQIDGVLHEFSTIPGVLEDVTQIILNLKKLTLKSIAADEKLAE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I GP VTAGD++ +++++LNPD I + A +RM + + +G GYVPA +++++ Sbjct: 61 IDVEGPATVTAGDLKVDDEVQILNPDQYIATVAEGAHLRMTVAIKQGRGYVPADQNKSDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 PIG++ +D+L+SPI+KV+Y VE R G+ DYDKL+M + TDGSIT D+++ Sbjct: 121 MPIGVVPVDSLFSPIEKVNYQVEGTRVGRNNDYDKLTMEVWTDGSITPNDALSF 174 >gi|150187039|emb|CAK30157.1| RNA polymerase alpha subunit [Streptococcus agalactiae ATCC 13813] Length = 188 Score = 207 bits (528), Expect = 2e-51, Method: Composition-based stats. Identities = 84/188 (44%), Positives = 133/188 (70%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + Sbjct: 1 NSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKII 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP +TAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ + Sbjct: 61 ELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 DAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVL 180 Query: 225 QDQLGMFI 232 + L +F Sbjct: 181 IEHLNLFT 188 >gi|150036836|emb|CAM98283.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 215 Score = 207 bits (528), Expect = 2e-51, Method: Composition-based stats. Identities = 85/206 (41%), Positives = 131/206 (63%), Gaps = 2/206 (0%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D K + I Sbjct: 1 LRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEEKSLEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--E 164 +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A ++ + Sbjct: 61 DVQGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+++L ++IL Sbjct: 121 EMPIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSLGAKIL 180 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSL 250 + L +F + E + ++V+ Sbjct: 181 SEHLNLFTDISSVAAETEVMVDVEQT 206 >gi|150187098|emb|CAK30170.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 181 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 83/181 (45%), Positives = 132/181 (72%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K Sbjct: 1 LGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + +GP VTAGD+ T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ Sbjct: 61 TIELDVQGPAEVTAGDVLTDSDIEIINPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNK 120 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 +++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R Sbjct: 121 SDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSAR 180 Query: 223 I 223 + Sbjct: 181 V 181 >gi|269115047|ref|YP_003302810.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma hominis] gi|268322672|emb|CAX37407.1| DNA-directed RNA polymerase alpha chain [Mycoplasma hominis ATCC 23114] Length = 344 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 71/309 (22%), Positives = 150/309 (48%), Gaps = 16/309 (5%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +V + + T + EPL RG+ +T+G +RR L+SS+ A A++I V HE ++I Sbjct: 10 KELVAEKVSDFNTTFVIEPLMRGYGNTIGTVIRRTLLSSITSVAPFAIKISHVEHEFTAI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 +G+ ED ++ NI+ I + ++ ++ G V A DI+T+ ++++N Sbjct: 70 EGLREDAITLVANIRKIRFAYDPELFEKDNLAKISFKSTKEGEVHASDIETIPGLDIVNK 129 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSP 179 D I + + + EL + G GYV + ++ + +D+ +SP Sbjct: 130 DQYIATISKNGSLEFELYLRTGRGYVSFEDNKKTILEYGPKLESKIKNGQFLAMDSDFSP 189 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 IKKV+ E + ++L + ++TDG++ ++ + A++I+ + N + Sbjct: 190 IKKVAILFEELNSTSNIIEERLKIKVETDGTVEAKNVMEEAAKIIVAHFQIIGNIDALGT 249 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 D + P + +++L L++RS N LR + ++++ ++ ++ + N G Sbjct: 250 IDLFDDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGFNNVDEIMKLSDEELSNIKNLG 309 Query: 300 RKSLVEIKG 308 +KS+ +I Sbjct: 310 KKSVQDIID 318 >gi|255023418|ref|ZP_05295404.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J1-208] Length = 195 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 75/191 (39%), Positives = 121/191 (63%) Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 +LNPD I L +A + L ++G GY PA ++ EN PIG++ +D+++SP+ +V+Y Sbjct: 1 MLNPDLHIATLSDNAKFHVRLNATRGRGYTPADQNKRENMPIGVLPVDSIFSPVIRVNYQ 60 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 VE+ R GQ +YDKL+ + TDGSI+ E++V+L ++IL + L +F+N + ++ + I Sbjct: 61 VENTRVGQSTNYDKLTFDVLTDGSISPEEAVSLGAKILSEHLSIFVNLTDEAQKAEIMIE 120 Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+ Sbjct: 121 KEESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEV 180 Query: 307 KGVLGTMGLFL 317 K L +GL L Sbjct: 181 KVKLADLGLSL 191 >gi|150186968|emb|CAK30138.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 192 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 87/192 (45%), Positives = 134/192 (69%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + K V + Sbjct: 1 LRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEEEKIVEL 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP +TAGDI T +DIE++NPDH + + A ++ +TV+ GYVPA+ ++ ++ Sbjct: 61 DVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGANLKATMTVATNRGYVPAEKNKRDDA 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 P+G + ID++Y+P+KKV+Y VE AR G ++DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 PVGTLAIDSIYTPVKKVNYQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIE 180 Query: 227 QLGMFINFEEPK 238 L +F + E Sbjct: 181 HLNLFTDLTEVA 192 >gi|150187089|emb|CAK30168.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 202 Score = 207 bits (527), Expect = 2e-51, Method: Composition-based stats. Identities = 87/202 (43%), Positives = 135/202 (66%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + Sbjct: 1 NSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKII 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +D+E++N DH + + ++ +TV+K GYVPA+ ++ + Sbjct: 61 ELDVEGPAEVTAGDILTDSDVEIVNSDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 DAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVL 180 Query: 225 QDQLGMFINFEEPKKEVKEDIN 246 + L +F + E K Sbjct: 181 IEHLNLFTDLTEVAKNTDVMKE 202 >gi|294155443|ref|YP_003559827.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma crocodyli MP145] gi|291600072|gb|ADE19568.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma crocodyli MP145] Length = 333 Score = 207 bits (526), Expect = 2e-51, Method: Composition-based stats. Identities = 89/329 (27%), Positives = 158/329 (48%), Gaps = 21/329 (6%) Query: 9 LIKPNNIEYIVLGQ--EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + K ++Y+ + + +PL RGFA TLG ALRRVL+S++ A V+I+ Sbjct: 1 MEKFQKLDYLEVPSSTTSDFEGTFNLQPLERGFATTLGVALRRVLLSNITSLAPFCVRIE 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLK-----MSGDSHKRVTIFKRGPGVVTAGDIQT 121 GV HE I GV ED+ +I+N++ + + D +V + G + + ++ Sbjct: 61 GVTHEFQGITGVIEDVPSLIMNLRKVRFSYDPELVKDDEIIKVELKADQIGEINSRYLEV 120 Query: 122 VN--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK-----------HHRTENDPI 168 V+ ++EV++ + I ++ ++ +R+EL + G G+V ++ T+ Sbjct: 121 VDNLNVEVIDHNIHIADVALENSLRLELYLRPGRGFVSSEENKALVSKLETQLETKIKKG 180 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 I +D+ +SP++KV+Y V V +KL + TDG++ +D++ A+ IL Sbjct: 181 KFIAVDSNFSPVEKVNYVVSELNSSSVKIEEKLEFNVITDGTVKPKDAIKQAAEILISHF 240 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + N +E K + E K L + +L LSVRS N LR ++ + T Sbjct: 241 KVIGNVDEIKDSIFETSEDKVLDV-QEQDIDINQLGLSVRSLNALRRIGKTKASEVAKMT 299 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ + N G+KSL EI + G L Sbjct: 300 YDELEQTKNLGKKSLDEIITKIKEHGFEL 328 >gi|90567615|emb|CAJ31075.1| RNA polymerase alpha subunit [Lactobacillus helveticus] gi|119662311|emb|CAJ33143.1| RNA polymerase alpha subunit [Lactobacillus helveticus] Length = 197 Score = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 83/197 (42%), Positives = 125/197 (63%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L++S+ G + VQIDGVLHE S++ GV ED+T IILN+K + LK D K + + G Sbjct: 1 LLTSIPGTGLVYVQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDERKVIELDVEG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P VTA D++ D++VLNPD IC + + ME+ V G GYV A +++++ PIG+ Sbjct: 61 PATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMEIAVQNGRGYVAASDNKSDDMPIGV 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ A++IL + + Sbjct: 121 IPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALSFATKILVEHFKV 180 Query: 231 FINFEEPKKEVKEDINV 247 F + + K + + Sbjct: 181 FESADADTKFSEVMVEK 197 >gi|154424761|emb|CAL18483.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 183 Score = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 85/183 (46%), Positives = 130/183 (71%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + Sbjct: 1 NSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKII 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E Sbjct: 61 ELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKE 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 DAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVL 180 Query: 225 QDQ 227 + Sbjct: 181 IEH 183 >gi|150186942|emb|CAK30133.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 204 Score = 206 bits (524), Expect = 4e-51, Method: Composition-based stats. Identities = 86/202 (42%), Positives = 136/202 (67%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + Sbjct: 1 SLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA+ ++ ++ Sbjct: 61 LEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L Sbjct: 121 APVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLI 180 Query: 226 DQLGMFINFEEPKKEVKEDINV 247 + L +F + + K + Sbjct: 181 EHLNLFTDLTDVAKATEVMKET 202 >gi|108796837|ref|YP_636429.1| alpha subunit of RNA polymerase [Staurastrum punctulatum] gi|122245550|sp|Q32RU7|RPOA_STAPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|61393605|gb|AAX45746.1| alpha subunit of RNA polymerase [Staurastrum punctulatum] Length = 383 Score = 205 bits (523), Expect = 6e-51, Method: Composition-based stats. Identities = 86/375 (22%), Positives = 151/375 (40%), Gaps = 77/375 (20%) Query: 16 EYIVLGQEEEN-----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 E+ + + ++ + PL A T+G A+RR L+S + G +I + I G +H Sbjct: 13 EWKCVDDQPDHNRRLHYSRFALSPLLVDQAMTIGVAIRRALLSEVEGISIISANIVGAVH 72 Query: 71 EISSIKGVHEDLTDIILNIKGINLK--------MSGDSHKRVTIFKRGPGVVTAGDIQTV 122 E S++ GV E + +I+LN+K I +K R +IF +GPGVVTA I+ Sbjct: 73 EYSTLDGVRESVDEILLNLKQIVIKGAKGASITPLDHKEYRASIFAQGPGVVTAEHIKFP 132 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 + I ++PD I L + + +EL + +G AK IDA ++P++K Sbjct: 133 SSILAVDPDQSIATLLNETQLCIELFIRQG----IAKQLTRTKKNHQGFFIDANFTPVQK 188 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL-------------- 228 ++++ S + + L L + I T+ ++T +++ A L + Sbjct: 189 ANFSIHSVGDPKGL-QQLLLLEIWTNKTLTPAEALYQAHASLLNLFHQISPPLLHKELSP 247 Query: 229 --------------------GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL--- 265 + + ++ LK + L Sbjct: 248 SKNILNQNSDSNSLGGSSFGRVVSLETRRDSTQTNNSSIPKEIQPSVRLKSYTDTNLSID 307 Query: 266 -------------------SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 S R +NCL+ NI + DL+ T+ D+L++ NFGRKS+ ++ Sbjct: 308 KQMNDSVNKENLSIDELELSPRISNCLKKANINTIADLLNYTQEDLLKIKNFGRKSVEQV 367 Query: 307 KGVLGTMGLFLGMNL 321 VL M L Sbjct: 368 SLVLR---KRFNMEL 379 >gi|290489674|gb|ADD31221.1| RNA polymerase alpha subunit protein [Rhododendron simsii] Length = 262 Score = 205 bits (523), Expect = 6e-51, Method: Composition-based stats. Identities = 75/263 (28%), Positives = 122/263 (46%), Gaps = 11/263 (4%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEE----NRTLMIAEPLPRGFAHTLGNALRRVLMSSLR 56 M QKN + P +++ + + PL RG A TLG A+RR L+ + Sbjct: 1 MSQKNRRGF--PRRLQWKCVESRVDSKRLYYGRFSLFPLRRGEAETLGIAMRRALLGEIE 58 Query: 57 GAAITAVQIDGVL--HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 G IT + V HE SSI+G+ E + +I++N+K I LK + I+ +GP V Sbjct: 59 GTCITRAKFGRVRVTHEYSSIEGIQESVNEILMNLKEIILKSNLYGPCSGLIWVQGPRDV 118 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 TA DI +E+++ I +L + M+L + K GY G D Sbjct: 119 TARDIMVAPYVEIIDNTQHIASLTKRIDLYMKLEIQKNRGYQI--KSPKNTLQDGSYPTD 176 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 A++ P++ +Y + S +V + L I T+GS+T ++++ ASR L D F+N Sbjct: 177 AVFMPVRNANYNIYSY-LDRVAREEILFFEIWTNGSLTPKEALHEASRKLVDLFSPFLNT 235 Query: 235 EEPKKEVKEDINVKSLPFNPALL 257 EE + E+ + +LP Sbjct: 236 EEENVHLDENQHKINLPLFTFHE 258 >gi|58699558|ref|ZP_00374269.1| dna-directed rna polymerase alpha chain [Wolbachia endosymbiont of Drosophila ananassae] gi|58533923|gb|EAL58211.1| dna-directed rna polymerase alpha chain [Wolbachia endosymbiont of Drosophila ananassae] Length = 220 Score = 205 bits (522), Expect = 7e-51, Method: Composition-based stats. Identities = 108/219 (49%), Positives = 150/219 (68%), Gaps = 10/219 (4%) Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--------ENDPIGLITIDALYSPIKK 182 D +IC L + + M + V+ G GY+P ++ E D IG I ++ALYSP+ + Sbjct: 1 DLLICTLGQNVELNMTIYVASGKGYLPVTKYKENELLKLMSEQDLIGFIPVNALYSPVNR 60 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE--EPKKE 240 VSY VE++R GQV D DKL ++I+TDG+I+ +V A+RILQ+QL FI+ + K + Sbjct: 61 VSYRVENSRVGQVTDKDKLILSIETDGTISPSQAVDSAARILQEQLQPFISSDVSYKKSQ 120 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 V K L ++P LL+KV+E+ELSVRS NCL+ ENI Y+GDL+Q+TE +MLR ANFGR Sbjct: 121 VSSSSGAKDLGYDPVLLRKVDEMELSVRSHNCLKNENITYIGDLVQKTEGEMLRTANFGR 180 Query: 301 KSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 KSL EIK VL GL LGMN+ +WPP+ I+ELAK++ D+ Sbjct: 181 KSLNEIKAVLTNFGLSLGMNVLNWPPKDIDELAKQHTDE 219 >gi|639724|gb|AAA61684.1| RNA polymerase alpha subunit [Chlamydia muridarum] Length = 322 Score = 205 bits (522), Expect = 7e-51, Method: Composition-based stats. Identities = 72/310 (23%), Positives = 149/310 (48%), Gaps = 16/310 (5%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I Sbjct: 10 KELVAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 G+ ED ++ NI+ I + + ++ ++ G + A DI V+ +E++N Sbjct: 70 SGLKEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNK 129 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSP 179 D I N+ + +L + KG G++ + ++ + +D+ +SP Sbjct: 130 DQYIANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSP 189 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +KK + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 190 VKKCAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALET 249 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + N + + +L LSVRS N LR + +++ ++ ++ + N G Sbjct: 250 IELFEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLG 309 Query: 300 RKSLVEIKGV 309 +KS+ +I Sbjct: 310 KKSIQDIIEK 319 >gi|12644248|sp|P38018|RPOA_MYCSP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|7330636|gb|AAA61685.2| RNA polymerase alpha subunit [Chlamydia muridarum] Length = 353 Score = 205 bits (522), Expect = 8e-51, Method: Composition-based stats. Identities = 77/343 (22%), Positives = 162/343 (47%), Gaps = 19/343 (5%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I Sbjct: 10 KELVAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFQTI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 G+ ED ++ NI+ I + + ++ ++ G + A DI V+ +E++N Sbjct: 70 SGLKEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNK 129 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSP 179 D I N+ + +L + KG G++ + ++ + +D+ +SP Sbjct: 130 DQYIANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSP 189 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +KK + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 190 VKKCAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALET 249 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + N + + +L LSVRS N LR + +++ ++ ++ + N G Sbjct: 250 IELFEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLG 309 Query: 300 RKSLVEIKGVLGTMGLFLGMNL---PDWPPESIEELAKKYEDK 339 +KS+ +I +G + ++ ES+++L E + Sbjct: 310 KKSIQDIIEKRNEWKERIGYDDGQSDNFIIESLDQLNNSEEGE 352 >gi|150036708|emb|CAM98019.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 199 Score = 205 bits (521), Expect = 1e-50, Method: Composition-based stats. Identities = 86/197 (43%), Positives = 126/197 (63%), Gaps = 2/197 (1%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I Sbjct: 1 LRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERVLEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--E 164 +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ E Sbjct: 61 DVQGPSEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRE 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+IL Sbjct: 121 EMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKIL 180 Query: 225 QDQLGMFINFEEPKKEV 241 + L +F++ E Sbjct: 181 AEHLNLFMDISPVAAEA 197 >gi|77409855|ref|ZP_00786488.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae COH1] gi|77171535|gb|EAO74771.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae COH1] Length = 212 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 83/211 (39%), Positives = 136/211 (64%) Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +TAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G Sbjct: 1 GPAEITAGDILTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDAPVG 60 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L Sbjct: 61 TLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLN 120 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 +F + E K + + + L + +EEL+LSVRS NCL+ I + DL ++TE Sbjct: 121 LFTDLTEVAKATEVMKETEKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVXDLTEKTE 180 Query: 290 ADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +M+++ N GRKSL E+K L +GL L + Sbjct: 181 PEMMKVRNLGRKSLEEVKIKLADLGLGLKND 211 >gi|224178085|ref|YP_002600906.1| alpha subunit of RNA polymerase [Pyramimonas parkeae] gi|215882752|gb|ACJ71125.1| alpha subunit of RNA polymerase [Pyramimonas parkeae] Length = 351 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 85/322 (26%), Positives = 148/322 (45%), Gaps = 29/322 (9%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VL 69 QE L P G T+ N LRR L++++ G IT+V+ + + Sbjct: 39 ETDQELLLYALFQLGPFSHGQGLTIANGLRRTLLNNIIGFGITSVKFEPKWVDISKEVFI 98 Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQTVND 124 HE S+I G+ E + +II N+K I ++ + + I + PGV+ A I+ Sbjct: 99 HEYSTIPGIWESIFEIIENLKKIKIRRENSPFEPFEKQVIRITQDKPGVLRADSIKLPPF 158 Query: 125 IEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 +++LN + I ++ + ++ + +T+ G I + + PIK V Sbjct: 159 LKILNQNQPIVSMMSSNLILDIIITIEAQTGNHLCN--------NQFIHVSEVCLPIKWV 210 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ---LGMFINFEEPKKE 240 +Y +++ + L I TDG+IT +++++ A+ I D E K Sbjct: 211 NYVIKTDPLLGSKSPESLFFEISTDGTITPQEALSKAADICIDLYSCFSTAQKELEVKSI 270 Query: 241 VKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGR 300 VKE + + +E L LSVR+ NCL+ NI + DL+ ++++D+L M NFG+ Sbjct: 271 VKEKVTEEVKEEIITNKVTIENLGLSVRAYNCLKRANIYTVTDLLTKSKSDLLAMKNFGK 330 Query: 301 KSLVEIKGVLGTMGLFLGMNLP 322 KS E+ L LG++LP Sbjct: 331 KSADEVYEALQNR---LGIDLP 349 >gi|240047283|ref|YP_002960671.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma conjunctivae HRC/581] gi|239984855|emb|CAT04845.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma conjunctivae] Length = 332 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 82/316 (25%), Positives = 149/316 (47%), Gaps = 17/316 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + Q + T +PL RG +T+GNALRR ++SS+ A++ A++I + HE S + V Sbjct: 13 SIQQVSDFETTFELKPLERGLGNTIGNALRRTILSSVSSASVFAIKIANIDHEFSVLDNV 72 Query: 79 HEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV 133 ED+ I+ N+K I + D ++V+ G + A DI +E++N D Sbjct: 73 VEDVVSILNNLKKIRFRYHEELFDNDQIQKVSFSGDKAGNIYAKDIDNTGGLEIVNQDQY 132 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRT----------ENDPIGLITIDALYSPIKKV 183 I ++ ++ E+ + G G+ + ++ + +I +D+ +SP+ KV Sbjct: 133 IASVGKVGALKFEMFIIGGKGFTDFETNKKRVSDLAGKLQSDLLGTIIAVDSDFSPVVKV 192 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 Y + ++L + + TDG+I +D++A A++IL L + N E + Sbjct: 193 HYEANELNSSNPIVEERLVLNLKTDGTIFAKDALAEAAKILIAHLQLVSNTENLDQIADN 252 Query: 244 --DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + + L + L+LSVRS N LR + D+ T+ ++ + N G+K Sbjct: 253 FFEESRYHEEQPKKNLIDLSALDLSVRSLNALRRAQYYKVSDIQDLTQEELENIKNLGKK 312 Query: 302 SLVEIKGVLGTMGLFL 317 S+ EI L G+ L Sbjct: 313 SVQEILDKLKEQGIEL 328 >gi|150036716|emb|CAM98021.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 197 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 87/195 (44%), Positives = 124/195 (63%), Gaps = 2/195 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRVL+SSL G AI VQIDGV+HE S++ GV ED+T +ILN+K + Sbjct: 1 LGNSLRRVLLSSLPGVAINTVQIDGVVHEFSTVDGVAEDVTQLILNLKKVVFATDSAEEH 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + I +GP VTA D DIEVLNPD I L + M +TV KG GY A+ ++ Sbjct: 61 TLEIDVQGPKDVTAADFVGSADIEVLNPDLHIATLAAGKSLHMTVTVVKGRGYASAEENK 120 Query: 163 T--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + PIG++T+D++Y+PI++V+Y VE R G D+DKL+M + T+GSI D+++L Sbjct: 121 QLRDEMPIGVLTVDSIYTPIERVNYHVEQKRVGSRDDFDKLTMEVWTNGSIKPSDALSLG 180 Query: 221 SRILQDQLGMFINFE 235 S+IL + L +F + Sbjct: 181 SKILTEHLNLFTDIS 195 >gi|313678392|ref|YP_004056132.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma bovis PG45] gi|312950669|gb|ADR25264.1| DNA-directed RNA polymerase, alpha subunit [Mycoplasma bovis PG45] Length = 336 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 93/330 (28%), Positives = 155/330 (46%), Gaps = 26/330 (7%) Query: 13 NNIEYIVLGQ----EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + ++Y+ + N +PL RGF +T+ ALRRVL+S++ A+ A++I GV Sbjct: 5 SKLDYLQVSNSAINNNLNEVTFSLKPLERGFGNTVAVALRRVLLSNVTSLALFAIKISGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQ-TV 122 HE +I G+ ED+T II+N++ + K + + K TI PG+VT+ I+ T Sbjct: 65 SHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGIVTSKSIEITN 124 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV--------------PAKHHRTENDPI 168 +E++N I N+ + +EL + G G++ A + Sbjct: 125 PSVEIINKSQEIANIQKG-SLVIELFLRPGRGFISNESNKKFIQNDSLFASKIESNIKKG 183 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 I +D+ +SP++K SYTV ++L TI TDG+I + ++ A +IL Sbjct: 184 LFIAVDSNFSPVEKCSYTVRELNTSSNKIEEELLFTIKTDGTIDAKSAINQACKILVAHF 243 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + + K +V E+ VK+ + +L LSVRS N L+ ++ T Sbjct: 244 MAVGDVDSMKLDVFEEEKVKNDEP-IENDVDINQLGLSVRSLNALKRIGKTKASEVAAMT 302 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++ + N GRKSL EI+ L G L Sbjct: 303 WEELEQTKNLGRKSLDEIQECLKVNGFTLN 332 >gi|154424857|emb|CAL18531.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 194 Score = 204 bits (520), Expect = 1e-50, Method: Composition-based stats. Identities = 87/194 (44%), Positives = 131/194 (67%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE +I GV ED+ IILN+KGI +K K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKII 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEVTAGDILTDSDIEIINPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL Sbjct: 121 DAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARIL 180 Query: 225 QDQLGMFINFEEPK 238 + L +F N E Sbjct: 181 TEHLNLFTNLTEVA 194 >gi|119672795|emb|CAK95481.1| RNA polymerase alpha subunit [Lactobacillus saerimneri] Length = 170 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 84/170 (49%), Positives = 117/170 (68%), Gaps = 2/170 (1%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMS 97 G+ TLGN+LRRVL+SSL GAAIT +QIDGVLHE S+++GV ED+T IILN+K + L + Sbjct: 1 GYGTTLGNSLRRVLLSSLPGAAITDIQIDGVLHEFSTVEGVLEDVTQIILNLKKVALGIK 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 D + I GP VTAGDIQ D+E+ NPD IC + A + +T + G GYV Sbjct: 61 SDDRVSLEIDVVGPMEVTAGDIQGSADVEIFNPDQYICTVADGASFHVRMTANTGRGYVS 120 Query: 158 AKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 AK ++ ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ + Sbjct: 121 AKENKEMADDMPIGVLPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDV 170 >gi|291320469|ref|YP_003515733.1| DNA directed RNA polymerase subunit alpha (RNAPsubunit alpha) (Transcriptase subunit alpha) (RNApolymerase subunit alpha) [Mycoplasma agalactiae] gi|290752804|emb|CBH40779.1| DNA directed RNA polymerase alpha chain (RNAPalpha subunit) (Transcriptase alpha chain) (RNApolymerase alpha subunit) [Mycoplasma agalactiae] Length = 336 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 157/330 (47%), Gaps = 26/330 (7%) Query: 13 NNIEYIVLGQ----EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + ++Y+ + N +PL RGFA+T+ ALRRVL+S++ A+ A++I GV Sbjct: 5 SKLDYLQVSNSAINNNLNEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIKISGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQ-TV 122 HE +I G+ ED+T II+N++ + K + + K TI PGVVT+ I+ + Sbjct: 65 SHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSIEISN 124 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV--------------PAKHHRTENDPI 168 +E++N I N+ A + +EL + G G++ A + Sbjct: 125 PSVEIINKSQEIANIQKGA-LVIELFLRPGRGFISNESNKRFIQNDSLFASKIESNIKKG 183 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 I +D+ +SP++K SYTV+ ++L TI TDG++ + ++ A +IL Sbjct: 184 LFIAVDSNFSPVEKCSYTVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKILVAHF 243 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + + K +V E+ + + + +L LSVRS N L+ ++ T Sbjct: 244 MTVGDVDTMKIDVFEEERINNDEP-IENDVDINQLGLSVRSLNALKRIGKTKASEVAAMT 302 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++ + N GRKSL EI+ L G L Sbjct: 303 WEELEQTKNLGRKSLDEIQECLKLNGFTLN 332 >gi|148377782|ref|YP_001256658.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma agalactiae PG2] gi|148291828|emb|CAL59218.1| DNA directed RNA polymerase alpha chain (RNAPalpha subunit) (Transcriptase alpha chain) (RNApolymerase alpha subunit) [Mycoplasma agalactiae PG2] Length = 336 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 92/330 (27%), Positives = 157/330 (47%), Gaps = 26/330 (7%) Query: 13 NNIEYIVLGQ----EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 + ++Y+ + N +PL RGFA+T+ ALRRVL+S++ A+ A++I GV Sbjct: 5 SKLDYLQVSNSAINNNLNEVTFSLKPLERGFANTVAVALRRVLLSNITSLALFAIKISGV 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQ-TV 122 HE +I G+ ED+T II+N++ + K + + K TI PGVVT+ I+ + Sbjct: 65 SHEFQTIPGIVEDVTAIIMNLRKVKFKYNPEFVKDGEIIKATIKAEQPGVVTSKSIEISN 124 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV--------------PAKHHRTENDPI 168 +E++N I N+ A + +EL + G G++ A + Sbjct: 125 PSVEIINKSQEIANIQKGA-LVIELFLRPGRGFISNESNKKFIQNDSLFASKIESNIKKG 183 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 I +D+ +SP++K SYTV+ ++L TI TDG++ + ++ A +IL Sbjct: 184 LFIAVDSNFSPVEKCSYTVKELNTSSNKIEEELLFTIKTDGTVDAKSAINQACKILVAHF 243 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRT 288 + + K +V E+ + + + +L LSVRS N L+ ++ T Sbjct: 244 MTVGDVDAMKIDVFEEEKINNDEP-IENDVDINQLGLSVRSLNALKRIGKTKASEVAAMT 302 Query: 289 EADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++ + N GRKSL EI+ L G L Sbjct: 303 WEELEQTKNLGRKSLDEIQECLKLNGFTLN 332 >gi|625804|pir||E49923 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - Chlamydia trachomatis Length = 353 Score = 204 bits (519), Expect = 2e-50, Method: Composition-based stats. Identities = 77/343 (22%), Positives = 162/343 (47%), Gaps = 19/343 (5%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + +V + + T + EPL RG+A+T+G LRR L+SS+ A A++I+ V HE +I Sbjct: 10 KELVAEKVNDFNTTFVIEPLARGYANTMGTVLRRTLLSSITSVAPFAIKINNVEHEFETI 69 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDIQTVNDIEVLNP 130 G+ ED ++ NI+ I + + ++ ++ G + A DI V+ +E++N Sbjct: 70 SGLKEDAITLVRNIRNIRFVYNEEIFEKENLAKISFKTNKEGEIFASDIPEVSGLEIVNK 129 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDALYSP 179 D I N+ + +L + KG G++ + ++ + +D+ +SP Sbjct: 130 DQYIANIAKGGSLEFDLFLRKGRGFIDFEENKNVISQYGSRLESSIKNGQFLAMDSDFSP 189 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +KK + + E L ++L + I+TD +++ ++++ A++I+ + N + Sbjct: 190 VKKCAISFEELNSSSKLIEERLKIKIETDCTVSAKEAIEQAAKIIVAHFQIIGNINALET 249 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + N + + +L LSVRS N LR + +++ ++ ++ + N G Sbjct: 250 IELFEENKEKKEREIKSTTPITKLGLSVRSENALRRAKYNTVEEVLGLSDEELSNIKNLG 309 Query: 300 RKSLVEIKGVLGTMGLFLGMNL---PDWPPESIEELAKKYEDK 339 +KS+ +I +G + ++ ES+++L E + Sbjct: 310 KKSIQDIIEKRNEWKERIGYDDGQSDNFIIESLDQLNNSEEGE 352 >gi|154424837|emb|CAL18521.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 204 Score = 204 bits (518), Expect = 2e-50, Method: Composition-based stats. Identities = 83/201 (41%), Positives = 132/201 (65%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K + + Sbjct: 1 LRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKIIEL 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +GP VTAGDI T +DIE++N DH + + A + +TV+ GYV A+ ++ ++ Sbjct: 61 DVQGPAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKKDDA 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 PVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARVLIE 180 Query: 227 QLGMFINFEEPKKEVKEDINV 247 L +F + E K Sbjct: 181 HLNLFTDLTEVAKATDVMKET 201 >gi|161511725|emb|CAP16873.1| DNA-directed RNA polymerase subunit alpha [Pediococcus acidilactici] Length = 199 Score = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 90/191 (47%), Positives = 124/191 (64%), Gaps = 2/191 (1%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L+SSL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K + I Sbjct: 9 ILLSSLPGAAITSVQIDNVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDDEKTLDINVV 68 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDP 167 GP VTAGDI D+ VLNPD IC + LT G GY A R + P Sbjct: 69 GPANVTAGDIMGDGDVTVLNPDSPICTVAEGTTFHAVLTADTGRGYTSADENKARKADMP 128 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ ID++Y+PI++V+Y VE R GQ DYDKL++ I TDGSIT ++ +L+++IL + Sbjct: 129 IGVLPIDSIYTPIERVNYQVEKTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEH 188 Query: 228 LGMFINFEEPK 238 L +F+N + Sbjct: 189 LAIFVNLNDQA 199 >gi|119668331|emb|CAK95465.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 201 Score = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 89/201 (44%), Positives = 136/201 (67%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL++S+ G A++ + IDGVLHE S+I GV ED+T IILN+K + LK+ D K V I Sbjct: 1 LRRVLLTSISGTALSYIMIDGVLHEFSTIPGVREDVTKIILNLKKLELKLLVDEEKMVEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VVTA D++ D+E+LNPD IC + + M + + G GY+PA +++++ Sbjct: 61 DVEGPAVVTAADLKVDADVEILNPDQYICTIAEGGHLHMSIAIKNGRGYIPASENKSDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG+I +D+L+SPIKKV+Y VE+AR G+ DYDKL++ + TDGSIT D+++ A++IL++ Sbjct: 121 PIGVIPVDSLFSPIKKVNYQVENARVGKRDDYDKLTLELWTDGSITPNDALSFAAKILEE 180 Query: 227 QLGMFINFEEPKKEVKEDINV 247 +F++ + + I Sbjct: 181 HFKVFMSADMSDQFANVMIEK 201 >gi|161511753|emb|CAP16887.1| DNA-directed RNA polymerase subunit alpha [Pediococcus damnosus] Length = 211 Score = 203 bits (517), Expect = 3e-50, Method: Composition-based stats. Identities = 89/199 (44%), Positives = 132/199 (66%), Gaps = 2/199 (1%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + GAA+T++QIDGVLHE SSI+GV ED+T IILNIK ++LK+ D K + I +GP V Sbjct: 13 ITGAAVTSIQIDGVLHEFSSIEGVVEDVTQIILNIKKVSLKIESDDEKSLEIDVKGPATV 72 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLIT 172 TAGDIQ +D+E+LNPD IC + LT G GYV A R ++ PIG++ Sbjct: 73 TAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKARKDDMPIGVLP 132 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGSIT ++ +L+++IL + L +F+ Sbjct: 133 IDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEATSLSAKILTEHLALFV 192 Query: 233 NFEEPKKEVKEDINVKSLP 251 N + K+ + + + Sbjct: 193 NLTDEAKDAEIMVEKEETH 211 >gi|154424829|emb|CAL18517.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 200 Score = 203 bits (516), Expect = 3e-50, Method: Composition-based stats. Identities = 86/200 (43%), Positives = 133/200 (66%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + Sbjct: 1 LRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIEL 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP VTAGDI T +D+E++N DH + + ++ +TV+K GYVPA+ ++ ++ Sbjct: 61 DVEGPAEVTAGDILTDSDVEIVNSDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDA 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 PVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIE 180 Query: 227 QLGMFINFEEPKKEVKEDIN 246 L +F + E K Sbjct: 181 HLNLFTDLTEVAKNTDVMKE 200 >gi|150187139|emb|CAK30179.1| RNA polymerase alpha subunit [Streptococcus peroris ATCC 700780] Length = 181 Score = 203 bits (516), Expect = 4e-50, Method: Composition-based stats. Identities = 87/181 (48%), Positives = 126/181 (69%) Query: 44 GNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR 103 GN+LRRVL++SL GAA+T++ IDGVLHE +I GV ED+ IILNIKGI +K K Sbjct: 1 GNSLRRVLLASLPGAAVTSIDIDGVLHEFDTIPGVREDVMQIILNIKGIAVKSYVKDEKT 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + + GP VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ Sbjct: 61 IELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGASFKATMTVNTGRGYVPADENKK 120 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 +N P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RI Sbjct: 121 DNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARI 180 Query: 224 L 224 L Sbjct: 181 L 181 >gi|119668327|emb|CAK95463.1| RNA polymerase alpha subunit [Lactobacillus hilgardii] Length = 198 Score = 202 bits (514), Expect = 7e-50, Method: Composition-based stats. Identities = 94/198 (47%), Positives = 133/198 (67%), Gaps = 4/198 (2%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFK 108 L+SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I Sbjct: 1 LLSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEDENLEIDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTEND 166 GP VTAGDIQ +D+ VLNPD I + A M LT ++G GYV A R Sbjct: 61 IGPADVTAGDIQDDSDVTVLNPDLHIATVAEGATFHMRLTANRGRGYVSAVENKKRATEM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I T+GSIT ++V+LA++IL + Sbjct: 121 PIGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTNGSITPSEAVSLAAKILTE 180 Query: 227 QLGMFINFEEPKKEVKED 244 L MF++ + K + Sbjct: 181 HLEMFVDLTDEAKNTEIM 198 >gi|154424833|emb|CAL18519.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 194 Score = 202 bits (513), Expect = 7e-50, Method: Composition-based stats. Identities = 84/194 (43%), Positives = 133/194 (68%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + Sbjct: 1 RRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELD 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP VTAGDI T +DIE++NPDH + + ++ +TV+K GY+PA+ ++ ++ P Sbjct: 61 VEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYIPAEGNKQDDAP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 +G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 VGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEH 180 Query: 228 LGMFINFEEPKKEV 241 L +F + E K Sbjct: 181 LNLFTDLTEVAKTT 194 >gi|150187166|emb|CAK30185.1| RNA polymerase alpha subunit [Streptococcus marimammalium] Length = 210 Score = 202 bits (513), Expect = 8e-50, Method: Composition-based stats. Identities = 89/210 (42%), Positives = 135/210 (64%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 RVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + K + + Sbjct: 1 RVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSHVEDEKTIELDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 +GP VTAGDI T +DIE++NPDH + + A R LTV+ GYVPA+ ++ EN P+ Sbjct: 61 QGPMEVTAGDILTDSDIEIVNPDHYLFTILEGASFRATLTVATKRGYVPAEENKKENAPV 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L Sbjct: 121 GTLAVDSIYTPVKKVNYQVEPARVGSNDAFDKLTIEIMTNGTIIPEDALGLSARVLIEHL 180 Query: 229 GMFINFEEPKKEVKEDINVKSLPFNPALLK 258 +F + E K + + + Sbjct: 181 NLFTDLTEIAKTTEVMKETEKASNEKVFDR 210 >gi|150187043|emb|CAK30158.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 203 Score = 202 bits (513), Expect = 8e-50, Method: Composition-based stats. Identities = 86/200 (43%), Positives = 132/200 (66%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRVL++SL GAA+T++ I+GVLHE ++ GV ED+ IILN+KGI +K + K + + Sbjct: 1 RRVLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTIELD 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP +TAGDI T +DIE++NPDH + + A ++ +TV+ G GYVPA ++ ++ P Sbjct: 61 VEGPAEITAGDILTDSDIEIVNPDHYLFTIGEGASLKAIMTVNTGRGYVPADENKKDDAP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 +G + +D++Y+P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + Sbjct: 121 VGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEH 180 Query: 228 LGMFINFEEPKKEVKEDINV 247 L +F N E K Sbjct: 181 LDLFTNLTEVAKSTDVMKET 200 >gi|119672793|emb|CAK95480.1| RNA polymerase alpha subunit [Lactobacillus salivarius] Length = 199 Score = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 84/198 (42%), Positives = 131/198 (66%), Gaps = 2/198 (1%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAAIT VQIDGVLHE S+I GV ED+T IILN+K + L M + + + I GP VT Sbjct: 1 PGAAITDVQIDGVLHEFSTIPGVLEDVTLIILNLKKVALSMESEDSQALEINVTGPMEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITI 173 AGDIQ+ +D+EVLNP+ IC + A + + + +KG GYV A ++ ++ PIG++ I Sbjct: 61 AGDIQSNSDVEVLNPEQYICTVADGAELHVRMNANKGRGYVSANDNKALADDMPIGVLPI 120 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ Sbjct: 121 DSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLALFVD 180 Query: 234 FEEPKKEVKEDINVKSLP 251 + K + + + Sbjct: 181 LTDEAKNAEIMVEKEETH 198 >gi|119662285|emb|CAJ33129.1| RNA polymerase alpha subunit [Lactobacillus brevis] Length = 190 Score = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 87/190 (45%), Positives = 131/190 (68%), Gaps = 4/190 (2%) Query: 52 MSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKR 109 +SSL GAA+T++QIDGVLHE S+++GV ED+T IILN+K I LK++G D + + I + Sbjct: 1 LSSLPGAAVTSIQIDGVLHEFSTVEGVVEDVTQIILNVKKIALKLNGSDDQEETMEINVK 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDP 167 GP +TAGDI D+++LNPD I + A M +T KG GYV A R + P Sbjct: 61 GPAQITAGDIVAGADVDILNPDLYIATVADGATFHMRMTADKGRGYVSADENKTRNTDMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D++Y+PI++V+Y VE+AR GQ DYDKL++ + T+GSI +++ALA++IL + Sbjct: 121 IGVLAVDSIYTPIERVNYQVENARVGQRADYDKLTLDVWTNGSINPSEAIALAAKILTEH 180 Query: 228 LGMFINFEEP 237 L MF++ + Sbjct: 181 LAMFVDLTDE 190 >gi|72534426|emb|CAH59048.1| DNA-directed RNA polymerase alpha chain [Enterococcus sp. LMG 22681] Length = 213 Score = 201 bits (512), Expect = 1e-49, Method: Composition-based stats. Identities = 89/204 (43%), Positives = 130/204 (63%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 L GAAIT +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ G+ K + I GP V Sbjct: 9 LPGAAITNIQIDGVLHEFSTIKGVREDVAQIILNIKGLALKLYGEDEKTLEIDITGPATV 68 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 TAGDI +D+E+LN D IC + A LTV G GYV A ++ ++ PIG++ +D Sbjct: 69 TAGDIIVDSDVEILNKDMYICTVSEGATFHARLTVKPGRGYVQADENKKDDMPIGVLPVD 128 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 ++Y+P+++V+Y VE+ R G D+DKL+M I TDGSI D+++LA++I+ + L +F+N Sbjct: 129 SIYTPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIEPLDAMSLAAKIMTEHLDIFVNL 188 Query: 235 EEPKKEVKEDINVKSLPFNPALLK 258 + K + + + L Sbjct: 189 TDEAKNAEIMVEKEETQKEKMLEM 212 >gi|119662283|emb|CAJ33128.1| RNA polymerase alpha subunit [Lactobacillus antri] Length = 203 Score = 201 bits (511), Expect = 1e-49, Method: Composition-based stats. Identities = 90/200 (45%), Positives = 136/200 (68%), Gaps = 2/200 (1%) Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV 113 SL GAAIT +QIDGVLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP Sbjct: 3 SLPGAAITTMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAE 62 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLI 171 VTAGDIQ +++ VLNPD I + A + +++T KG GY+ A R E+ IG++ Sbjct: 63 VTAGDIQGDSEVSVLNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVL 122 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGSIT ++V+L ++IL + L MF Sbjct: 123 PIDSIYTPIERVNYTVENARVGQRSDYDKLTLDVWTDGSITPTEAVSLGAKILTEHLAMF 182 Query: 232 INFEEPKKEVKEDINVKSLP 251 +N E + + + + Sbjct: 183 VNLTETAQNAQVMVEKEETH 202 >gi|161511717|emb|CAP16869.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 205 Score = 201 bits (511), Expect = 2e-49, Method: Composition-based stats. Identities = 88/205 (42%), Positives = 135/205 (65%) Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV 113 SL G+A++++QIDGVLHE S+I GV ED+T IILNIK I +K + K + I GP Sbjct: 1 SLPGSAVSSIQIDGVLHEFSTIDGVMEDVTQIILNIKKIAIKNHSEEQKVIEIDVDGPAT 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 VTA DI+ +DIEVLNP+ IC++ V M++TVS G GYVPA ++ + PIG+I + Sbjct: 61 VTAADIKADDDIEVLNPEQYICSIAEGGHVHMQMTVSNGRGYVPADQNKNGDMPIGVIAV 120 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL D L +FI+ Sbjct: 121 DSIFTPINRVNYQVESTRVGKRNDFDKLTLDVWTNGSISPREAISLAAKILSDHLNIFID 180 Query: 234 FEEPKKEVKEDINVKSLPFNPALLK 258 + K + + + L Sbjct: 181 LSDEAKNTEIMVEKEETQKEKKLEM 205 >gi|119662377|emb|CAJ33177.1| RNA polymerase alpha subunit [Lactobacillus paraplantarum] Length = 176 Score = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 89/176 (50%), Positives = 126/176 (71%), Gaps = 2/176 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILN+K I LK+ D K + I +G Sbjct: 1 LLSSLPGAAVTSIQIDGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPI 168 P VTAGDI D+EVLNPD IC + A M +T + G GYV A HR ++ PI Sbjct: 61 PANVTAGDIIGDADVEVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPI 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 G++ +D+LYSPI++V+Y VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL Sbjct: 121 GVLAVDSLYSPIERVNYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKIL 176 >gi|119662827|emb|CAJ33206.1| RNA polymerase alpha subunit [Lactobacillus gastricus] Length = 172 Score = 200 bits (509), Expect = 2e-49, Method: Composition-based stats. Identities = 81/172 (47%), Positives = 122/172 (70%), Gaps = 2/172 (1%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 LGN+LRRV+++SL GAAIT++QIDGVLHE S++ GV ED+T IILN+K + L++ GD K Sbjct: 1 LGNSLRRVMLASLPGAAITSIQIDGVLHEFSTVDGVTEDVTQIILNLKKVALRIDGDDAK 60 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 + + +GP VTA DIQ D+ +LNPD + + A + +++T KG GY A ++ Sbjct: 61 DLEVDVKGPTEVTAADIQGYGDVSILNPDLHLATVADGAELHIKMTADKGRGYSSADDNK 120 Query: 163 T--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 + + IG++ ID++Y+PI +V+YTVE+ R GQ DYDKL++ + T+GS+T Sbjct: 121 SNMDMSAIGVLPIDSIYTPIDRVNYTVENTRVGQSNDYDKLTLDVWTNGSLT 172 >gi|150187174|emb|CAK30187.1| RNA polymerase alpha subunit [Streptococcus devriesei] Length = 161 Score = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 76/161 (47%), Positives = 113/161 (70%) Query: 35 LPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL 94 L RG+ TLGN+LRRVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ + Sbjct: 1 LERGYGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNLKGLAV 60 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 K + K + + GP +TAGDI T +DIE++NPDH + + A ++ LTV G Sbjct: 61 KSYVEEEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEGASLKATLTVDTNRG 120 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 Y+PA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR G Sbjct: 121 YIPAEENKKDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSN 161 >gi|119672815|emb|CAK95519.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 165 Score = 199 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 87/165 (52%), Positives = 118/165 (71%) Query: 47 LRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTI 106 LRRVL++S+ G A++ +QIDGVLHE S+I GV ED+T IILN+K + LK D K I Sbjct: 1 LRRVLLTSIPGTALSYIQIDGVLHEFSTIPGVREDVTKIILNLKKLELKSLSDEEKIAEI 60 Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA ++T++ Sbjct: 61 DVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKNGRGYVPASENKTDDM 120 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSI Sbjct: 121 PIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSI 165 >gi|119668367|emb|CAK95476.1| RNA polymerase alpha subunit [Lactobacillus rhamnosus] Length = 198 Score = 199 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 82/198 (41%), Positives = 129/198 (65%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA++++QIDGVLHE S+I GV ED+T IILNIK + LKM+ D K + I GP VTA Sbjct: 1 AAVSSIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKMNTDEDKNIEIDVNGPAKVTAA 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI D+EVLNP+ IC + + +TV KG GYV A +++++ PIG++ ID+++ Sbjct: 61 DIVADPDVEVLNPEQYICTVADGGHFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIF 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L +F+N + Sbjct: 121 TPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLDIFVNLTDE 180 Query: 238 KKEVKEDINVKSLPFNPA 255 K + + + Sbjct: 181 AKNAEIMVEKEETHKEKM 198 >gi|154424861|emb|CAL18533.1| RNA polymerase alpha subunit [Streptococcus suis] Length = 203 Score = 199 bits (507), Expect = 4e-49, Method: Composition-based stats. Identities = 86/203 (42%), Positives = 136/203 (66%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L++SL GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K++ + G Sbjct: 1 LLASLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P VTAGDI T +DIE++NPDH + + A + LTV+ G GYVPA+ ++ ++ P+G Sbjct: 61 PAEVTAGDILTDSDIEIVNPDHYLFTIADGATFKAVLTVNSGRGYVPAEGNKKDDAPVGT 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D++Y+P+KKV+Y VE AR G +DKL++ I+T+G+I ED++ L++RIL + LG+ Sbjct: 121 LAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTLEINTNGTIIPEDALGLSARILMEHLGL 180 Query: 231 FINFEEPKKEVKEDINVKSLPFN 253 F + E K + + + Sbjct: 181 FTDLTEVAKSAEVMKEAEVASDD 203 >gi|119662821|emb|CAJ33203.1| RNA polymerase alpha subunit [Lactobacillus parakefiri] Length = 203 Score = 199 bits (506), Expect = 5e-49, Method: Composition-based stats. Identities = 95/203 (46%), Positives = 135/203 (66%), Gaps = 4/203 (1%) Query: 52 MSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKR 109 +SSL GAA+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I Sbjct: 1 LSSLPGAAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVI 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDP 167 GP VTAGDIQ +D+ VLNPD I + A M LT +KG GYV A R+ P Sbjct: 61 GPADVTAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D++Y+PI++V+Y VES R GQ D+DKL++ I TDGSIT ++V+LA++IL + Sbjct: 121 IGVLPVDSIYTPIERVNYQVESTRVGQRDDFDKLTLDIWTDGSITPSEAVSLAAKILTEH 180 Query: 228 LGMFINFEEPKKEVKEDINVKSL 250 L MF++ + K + + + Sbjct: 181 LEMFVDLTDEAKNTEIMVEKEET 203 >gi|119662381|emb|CAJ33179.1| RNA polymerase alpha subunit [Lactobacillus sakei subsp. sakei] Length = 184 Score = 199 bits (505), Expect = 7e-49, Method: Composition-based stats. Identities = 80/184 (43%), Positives = 127/184 (69%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 G A+T +QIDGVLHE S+I GV ED+T IILNIK + LK+ + K + I +GP VT Sbjct: 1 PGTAVTDIQIDGVLHEFSTIDGVLEDVTQIILNIKKLALKLHVEEDKTIEIDVKGPATVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 A DI + +D+EVLN D IC + +++TV KG GYV A +++++ PIG++ ID+ Sbjct: 61 AADIISDDDVEVLNTDQYICTVAEGGNFHVQMTVKKGRGYVAAVQNKSDDMPIGVLPIDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ Sbjct: 121 IYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVDLT 180 Query: 236 EPKK 239 + K Sbjct: 181 DEAK 184 >gi|296044726|gb|ADG85772.1| RpoA [Vibrio sp. WH134] Length = 200 Score = 199 bits (505), Expect = 8e-49, Method: Composition-based stats. Identities = 87/194 (44%), Positives = 132/194 (68%), Gaps = 5/194 (2%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKR 103 NALRR+L+SS+ G A+T V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G Sbjct: 1 NALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVF 60 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK--- 159 +T+ K G G V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA Sbjct: 61 ITLNKSGSGPVVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASARI 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 H + PIG + +DA YSP+ K++Y+VE+AR Q D DKL + ++T+G++ E+++ Sbjct: 121 HTEEDERPIGRLLVDATYSPVDKIAYSVEAARVEQRTDLDKLVIDMETNGTLEPEEAIRR 180 Query: 220 ASRILQDQLGMFIN 233 A+ IL +QL F++ Sbjct: 181 AATILAEQLDAFVD 194 >gi|119663530|emb|CAK22336.1| RNA polymerase alpha subunit [Lactobacillus kitasatonis] Length = 171 Score = 198 bits (504), Expect = 1e-48, Method: Composition-based stats. Identities = 81/171 (47%), Positives = 114/171 (66%) Query: 48 RRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIF 107 RRVL++S+ G + VQIDGVL E S++ GV ED+T IILN+K + LK D K + + Sbjct: 1 RRVLLTSIPGTGLVYVQIDGVLPEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELD 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP VTA D++ D++VLNPD IC + + MEL V G GYV A +++++ P Sbjct: 61 VEGPATVTADDLKVDADVQVLNPDQYICTIAEGGHLHMELAVKNGRGYVTASDNKSDDMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 IG+I +D+L+SPIKKV+Y VES R G+ D+DKL+ I TDGSI D+++ Sbjct: 121 IGVIPVDSLFSPIKKVNYQVESTRVGKRDDFDKLTFEIWTDGSIKPNDALS 171 >gi|150036800|emb|CAM98036.1| DNA-directed RNA polymerase alpha chain [Leuconostoc fallax] Length = 196 Score = 198 bits (503), Expect = 1e-48, Method: Composition-based stats. Identities = 82/195 (42%), Positives = 124/195 (63%), Gaps = 2/195 (1%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 R+L+SSL GAA+ VQIDGV+HE S++ GV ED+T +ILN+K + L + D K + I Sbjct: 2 RILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQLILNLKKVVLAIDSDEEKSLEIDV 61 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--END 166 +GP VTA D+Q DIEVLNP+ + + + M +T KG GY A ++ + Sbjct: 62 QGPAEVTAADLQGSADIEVLNPELHLATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEM 121 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 PIG++ +D++Y+PI++V+Y VE+ R GQ DYDKL+ I T+GSI D+++L ++IL + Sbjct: 122 PIGVLAVDSIYTPIERVNYQVENTRVGQRDDYDKLTFDIWTNGSIKPSDALSLGAKILSE 181 Query: 227 QLGMFINFEEPKKEV 241 L +F + E Sbjct: 182 HLNLFTDISSVAAET 196 >gi|119662373|emb|CAJ33175.1| RNA polymerase alpha subunit [Lactobacillus panis] Length = 190 Score = 197 bits (502), Expect = 2e-48, Method: Composition-based stats. Identities = 87/190 (45%), Positives = 133/190 (70%), Gaps = 2/190 (1%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 L GAAIT +QIDGVLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP V Sbjct: 1 LPGAAITTMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKLNSEDQKNLELDVKGPAEV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLIT 172 TA DIQ +++ +LNPD I + A + +++T KG GY+ A R E+ PIG++ Sbjct: 61 TASDIQGDSEVTILNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLPIGVLP 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 ID++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L ++IL + L MF+ Sbjct: 121 IDSIYTPIERVNYTVENARVGQRSDYDKLTLDVWTDGSLTPIEAVSLGAKILTEHLDMFV 180 Query: 233 NFEEPKKEVK 242 N E + + Sbjct: 181 NLTETAQNAQ 190 >gi|119662397|emb|CAJ33188.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 174 Score = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 85/174 (48%), Positives = 128/174 (73%), Gaps = 2/174 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L++SL GAAIT++QIDGVLHE S+++GV ED+T IILN+K I+LK+ + K + I +G Sbjct: 1 LLASLPGAAITSIQIDGVLHEFSTVEGVTEDVTQIILNMKQISLKIDSEEDKTLEIDVKG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPI 168 P VTAGDI+ D+EVLNP+ I + A + +++T + G GYV A R ++ PI Sbjct: 61 PAAVTAGDIEADGDVEVLNPELHIATVADGAELHIQMTANTGRGYVSADDNKARMDDLPI 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 G++ ID++Y+PI++V+YTVE+AR GQ DYDKL++ + +DGSIT +S++LA++ Sbjct: 121 GVLPIDSIYTPIERVNYTVENARVGQRNDYDKLTLDVWSDGSITPSESISLAAK 174 >gi|154424827|emb|CAL18516.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 194 Score = 197 bits (501), Expect = 2e-48, Method: Composition-based stats. Identities = 83/193 (43%), Positives = 127/193 (65%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL++SL GAA+T++ I+GVLHE ++ GV ED+ IILN+KGI +K K + + Sbjct: 1 VLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVQDEKIIELDVE 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTAGDI T +DIE++NPDH + + A ++ LTV+ G GYVPA ++ ++ P+G Sbjct: 61 GPAEVTAGDILTDSDIEIVNPDHYLFTIGEGASLKATLTVNSGRGYVPADQNKKDDAPVG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 121 TLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLN 180 Query: 230 MFINFEEPKKEVK 242 +F N E Sbjct: 181 LFTNLTEIAIATD 193 >gi|150036832|emb|CAO03476.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 174 Score = 197 bits (500), Expect = 2e-48, Method: Composition-based stats. Identities = 79/170 (46%), Positives = 111/170 (65%), Gaps = 2/170 (1%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D Sbjct: 1 GTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSD 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + + I +GP VTA D+Q D+EVLNPD I + + M +T KG GY A Sbjct: 61 EERVLEIDVQGPSEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSAD 120 Query: 160 HHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 ++ E PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T Sbjct: 121 ENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWT 170 >gi|150036824|emb|CAM98043.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 179 Score = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 80/179 (44%), Positives = 118/179 (65%), Gaps = 2/179 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + Sbjct: 1 NSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERSL 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT- 163 + +GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ Sbjct: 61 EVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKGRGYSSADENKQL 120 Query: 164 -ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S Sbjct: 121 RDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGS 179 >gi|154424855|emb|CAL18530.1| RNA polymerase alpha subunit [Streptococcus sanguinis] Length = 198 Score = 196 bits (498), Expect = 4e-48, Method: Composition-based stats. Identities = 84/198 (42%), Positives = 127/198 (64%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 RVL++SL GAA+T++ I+GVLHE +I GV ED+ IILN+KGI +K K + + Sbjct: 1 RVLLASLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKIIELDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 GP VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ ++ P+ Sbjct: 61 EGPAEVTAGDILTDSDIEIINPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKDDAPV 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 121 GTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHL 180 Query: 229 GMFINFEEPKKEVKEDIN 246 +F N E Sbjct: 181 NLFTNLTEVAIAADVMKE 198 >gi|291533601|emb|CBL06714.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 179 Score = 195 bits (497), Expect = 5e-48, Method: Composition-based stats. Identities = 71/158 (44%), Positives = 101/158 (63%), Gaps = 2/158 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + E+ + EPL RG+ TLGN+LRR+L+SSL GAAIT+++IDG Sbjct: 3 EIEKP-KIEIVEI-SEDNRYGKFVCEPLERGYGTTLGNSLRRILLSSLEGAAITSIKIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I GV +D+T+IILN+K + LKM + + I G VTA DI +DIE+ Sbjct: 61 VLHEFSTIPGVRDDVTNIILNLKELCLKMHDEEPHTIRIDVTGEKEVTAADIIVDSDIEI 120 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 LN D I +D ++ME+ V +G GY PA ++ + Sbjct: 121 LNKDLHIATVDETGSLKMEMVVERGRGYTPADKNKNQI 158 >gi|150187144|emb|CAK30180.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 204 Score = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 83/204 (40%), Positives = 134/204 (65%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + Sbjct: 1 VLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKTIELEVE 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA+ ++ ++ P+G Sbjct: 61 GPATVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L Sbjct: 121 TLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARVLIEHLN 180 Query: 230 MFINFEEPKKEVKEDINVKSLPFN 253 +F + + K + + + Sbjct: 181 LFTDLTDVAKATEVMKETEKVNDE 204 >gi|119662333|emb|CAJ33155.1| RNA polymerase alpha subunit [Lactobacillus oris] Length = 200 Score = 195 bits (496), Expect = 7e-48, Method: Composition-based stats. Identities = 87/199 (43%), Positives = 135/199 (67%), Gaps = 2/199 (1%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 L G+AIT +QIDGVLHE S++KGV ED+T IILN+K ++LK++ + K + + +GP V Sbjct: 1 LPGSAITTMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAKV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLIT 172 TAGDIQ +++ VLNPD I + A + +++T KG GY+ A R E+ IG++ Sbjct: 61 TAGDIQGDSEVSVLNPDLHIATVADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLP 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 ID++Y+PI++V+YTVE+AR GQ D+DKL++ + TDGSIT ++V+L ++IL + L MF+ Sbjct: 121 IDSIYTPIERVNYTVENARVGQRSDFDKLTLDVWTDGSITPTEAVSLGAKILTEHLAMFV 180 Query: 233 NFEEPKKEVKEDINVKSLP 251 N E + + + + Sbjct: 181 NLTETAQNAQVMVEKEETH 199 >gi|154424863|emb|CAL18534.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 200 Score = 195 bits (496), Expect = 8e-48, Method: Composition-based stats. Identities = 80/198 (40%), Positives = 129/198 (65%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K + + + Sbjct: 1 VLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVQ 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTAGDI T +DIE++N DH + + A + +TV+ GYV A+ ++ ++ P+G Sbjct: 61 GPAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKKDDAPVG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L Sbjct: 121 TLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLN 180 Query: 230 MFINFEEPKKEVKEDINV 247 +F + E K Sbjct: 181 LFTDLTEVAKATDVMKET 198 >gi|213612397|ref|ZP_03370223.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 195 Score = 195 bits (496), Expect = 8e-48, Method: Composition-based stats. Identities = 83/196 (42%), Positives = 128/196 (65%), Gaps = 6/196 (3%) Query: 139 VDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + M + V +G GYVPA H + PIG + +DA YSP+++++Y VE+AR Q Sbjct: 2 KTTSISMRIKVQRGRGYVPASTRIHSEEDERPIGRLLVDACYSPVERIAYNVEAARVEQR 61 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + F+P Sbjct: 62 TDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPEFDPI 118 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL Sbjct: 119 LLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGL 178 Query: 316 FLGMNLPDWPPESIEE 331 LGM L +WPP SI + Sbjct: 179 SLGMRLENWPPASIAD 194 >gi|154424865|emb|CAL18535.1| RNA polymerase alpha subunit [Streptococcus thoraltensis] Length = 203 Score = 195 bits (496), Expect = 9e-48, Method: Composition-based stats. Identities = 80/198 (40%), Positives = 129/198 (65%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K + + + Sbjct: 1 VLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVQ 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP VTAGDI T +DIE++N DH + + A + +TV+ GYV A+ ++ ++ P+G Sbjct: 61 GPAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKKDDAPVG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L Sbjct: 121 TLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLN 180 Query: 230 MFINFEEPKKEVKEDINV 247 +F + E K Sbjct: 181 LFTDLTEVAKATDVMKET 198 >gi|23012374|ref|ZP_00052476.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 146 Score = 195 bits (495), Expect = 9e-48, Method: Composition-based stats. Identities = 84/147 (57%), Positives = 111/147 (75%), Gaps = 1/147 (0%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN + ++ G + + ++AEPL RGF TLGN+LRRVL+SSL+GAA+ Sbjct: 1 MIQKNWQELIKPNKL-HVEPGADAQRSATVVAEPLERGFGMTLGNSLRRVLLSSLQGAAV 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 TA+QIDGVLHE SSI GV ED+TDIILNIK + L+M G+ KR+ + GPG VTAG I+ Sbjct: 60 TAIQIDGVLHEFSSIPGVREDVTDIILNIKTLGLRMHGEGPKRMHLRAVGPGEVTAGLIE 119 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMEL 147 +DIE+++P+ V+C LD A + +E Sbjct: 120 VGHDIEIMDPELVLCTLDEGAKLNIEF 146 >gi|161511713|emb|CAP16867.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 207 Score = 195 bits (495), Expect = 1e-47, Method: Composition-based stats. Identities = 85/207 (41%), Positives = 131/207 (63%), Gaps = 2/207 (0%) Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV 113 SL GAA+T+VQIDGVLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP Sbjct: 1 SLPGAALTSVQIDGVLHEFSTIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPAN 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLI 171 VTAGDI D+ +LNP+ IC + LT KG GY A ++ + PIG++ Sbjct: 61 VTAGDIVGDGDVTILNPELPICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVL 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 ID++Y+PI++V+Y VE+ R GQ DYDKL++ + TDGS+ ++++L+++IL + L +F Sbjct: 121 PIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIF 180 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLK 258 +N ++ K+ + + + L Sbjct: 181 VNLDDQAKDTEIMVEKEETHKEKMLEM 207 >gi|206896507|ref|YP_002247307.1| RNA-polymerase DNA-directed [Coprothermobacter proteolyticus DSM 5265] gi|206739124|gb|ACI18202.1| RNA-polymerase DNA-directed [Coprothermobacter proteolyticus DSM 5265] Length = 319 Score = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 78/298 (26%), Positives = 127/298 (42%), Gaps = 4/298 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 E + + LP G TLGNALRRVL+ + G + +++G+ HE + Sbjct: 14 VDRESGELQRAAKLSVLNLPEGEGITLGNALRRVLLGQIGGTGVLGFRLEGLDHEFMVPE 73 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED I LN+K + K GD K + I +GP + A DI D+EV N D I Sbjct: 74 GVVEDGLTIGLNLKKVLFKYYGDGVKVLYIKAKGPAEIKAADIVPDADVEVFNLDQTILT 133 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRT-ENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + D + ME+ ++ G GY + ++ P I +D +SP+++ Y V A + Sbjct: 134 VSTDREIYMEIYLTNGVGYRTVEDNKKLYQFPFRTIYLDTSFSPVRRAEYHVTPAIVDEP 193 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++ L + + T+ ++ + + A+ L ++ +E + Sbjct: 194 GTFESLELIVYTNLAVDPVEVIRQAANFLSEEFRKVAEAKEAAAGEVVVEEQAIS--DEK 251 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 L VE L LS L NI + DL+ E + + G L EI+ L Sbjct: 252 LDASVEMLNLSRAVLTHLEKANINTIRDLVDVLEHN-ESIPGIGAVRLEEIRNKLAAY 308 >gi|150036710|emb|CAM98249.1| DNA-directed RNA polymerase alpha chain [Leuconostoc carnosum] Length = 189 Score = 194 bits (493), Expect = 2e-47, Method: Composition-based stats. Identities = 82/188 (43%), Positives = 122/188 (64%), Gaps = 2/188 (1%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I + Sbjct: 1 ILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDEERVLEIDVQ 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDP 167 GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ E P Sbjct: 61 GPSEVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLREEMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + Sbjct: 121 IGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEH 180 Query: 228 LGMFINFE 235 L +F++ Sbjct: 181 LNLFMDIS 188 >gi|150187007|emb|CAK30149.1| RNA polymerase alpha subunit [Streptococcus pluranimalium] Length = 200 Score = 194 bits (492), Expect = 2e-47, Method: Composition-based stats. Identities = 79/197 (40%), Positives = 128/197 (64%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L+SSL GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K + + +G Sbjct: 1 LLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKTIELDVQG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P VTAGDI T +DIE++N DH + + A + +TV+ GYV A+ ++ ++ P+G Sbjct: 61 PAEVTAGDILTDSDIEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKKDDAPVGT 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L + Sbjct: 121 LAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARVLIEHLNL 180 Query: 231 FINFEEPKKEVKEDINV 247 F + E K Sbjct: 181 FTDLTEVAKATDVMKET 197 >gi|161511731|emb|CAP16876.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 199 Score = 193 bits (491), Expect = 3e-47, Method: Composition-based stats. Identities = 87/199 (43%), Positives = 127/199 (63%), Gaps = 2/199 (1%) Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV 113 SL GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP Sbjct: 1 SLPGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPAN 60 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLI 171 VTAGDI D+ +LNP+ IC + LT G GY A ++ + PIG++ Sbjct: 61 VTAGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVL 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 ID++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F Sbjct: 121 PIDSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIF 180 Query: 232 INFEEPKKEVKEDINVKSL 250 +N + KE + + + Sbjct: 181 VNLNDQAKETEIMVEKEET 199 >gi|151416842|emb|CAO78492.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum] Length = 164 Score = 192 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 75/164 (45%), Positives = 109/164 (66%), Gaps = 2/164 (1%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + Sbjct: 1 EPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKV 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 L + D + + + +GP VTA D+Q D+EVLNPD I + + M +T KG Sbjct: 61 VLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTITAFKG 120 Query: 153 HGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G Sbjct: 121 RGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGS 164 >gi|154424755|emb|CAL18480.1| RNA polymerase alpha subunit [Streptococcus alactolyticus] Length = 196 Score = 192 bits (489), Expect = 5e-47, Method: Composition-based stats. Identities = 82/196 (41%), Positives = 129/196 (65%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L+SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + G Sbjct: 1 LLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL 170 P VTAGDI T +D+E++N DH + + ++ +TV+K GYVPA+ ++ ++ P+G Sbjct: 61 PAEVTAGDILTDSDVEIVNSDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGT 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L + Sbjct: 121 LAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNL 180 Query: 231 FINFEEPKKEVKEDIN 246 F + E K Sbjct: 181 FTDLTEVAKNTDVMKE 196 >gi|150036726|emb|CAM98254.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 189 Score = 192 bits (487), Expect = 7e-47, Method: Composition-based stats. Identities = 81/188 (43%), Positives = 123/188 (65%), Gaps = 2/188 (1%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 +L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I + Sbjct: 1 ILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQ 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDP 167 GP VTA D+Q D+EVLNPD I + + M +T KG GY A ++ + P Sbjct: 61 GPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMP 120 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + Sbjct: 121 IGVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEH 180 Query: 228 LGMFINFE 235 LG+F++ Sbjct: 181 LGLFMDIS 188 >gi|150187056|emb|CAK30161.1| RNA polymerase alpha subunit [Streptococcus cristatus ATCC 51100] Length = 172 Score = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 79/172 (45%), Positives = 118/172 (68%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE +I GV ED+ IILNIKGI +K K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNIKGIAVKSYVQDEKMI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP VTAGDI T +DIE++NPDH + + A + ++ V+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTISEGARFKAKMAVNSGRGYVPADENKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 + P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED+ Sbjct: 121 DAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDA 172 >gi|119662281|emb|CAJ33127.1| RNA polymerase alpha subunit [Lactobacillus animalis KCTC 3501] Length = 167 Score = 192 bits (487), Expect = 8e-47, Method: Composition-based stats. Identities = 83/167 (49%), Positives = 115/167 (68%), Gaps = 2/167 (1%) Query: 53 SSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 SSL GAAIT VQIDGVLHE S++KGV ED+T IILN+K + LK+ + + + GP Sbjct: 1 SSLPGAAITDVQIDGVLHEFSTVKGVLEDVTAIILNLKKVALKLDSEDSQTLEFDVVGPK 60 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGL 170 VTAGDIQ +D+E+LNPD IC + AV +T +KG GYV A + E+ PIG+ Sbjct: 61 EVTAGDIQGSSDVEILNPDQYICTVADGAVFHARMTANKGRGYVSATENKAKAEDMPIGV 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 + ID++Y+PI++V+Y VE R GQ DYDKL++ + T+GSIT +++ Sbjct: 121 LPIDSIYTPIERVNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAI 167 >gi|42906|emb|CAA23646.1| unnamed protein product [Escherichia coli] Length = 159 Score = 192 bits (487), Expect = 9e-47, Method: Composition-based stats. Identities = 71/158 (44%), Positives = 103/158 (65%), Gaps = 4/158 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITH 117 Query: 122 VNDIEVLNPDHVICNL-DVDAVVRMELTVSKGHGYVPA 158 D+E++ P HVIC+L D +A + M + V +G GYVPA Sbjct: 118 DGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPA 155 >gi|119668323|emb|CAK95461.1| RNA polymerase alpha subunit [Lactobacillus gasseri] Length = 166 Score = 191 bits (486), Expect = 1e-46, Method: Composition-based stats. Identities = 84/166 (50%), Positives = 116/166 (69%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 VL++S+ G A++ +QIDGVLHE S++ GV ED+T IILN+K + LK D K I Sbjct: 1 VLLTSIPGTALSYIQIDGVLHEFSTVPGVREDVTKIILNLKKLELKSLSDEEKIAEIDVT 60 Query: 110 GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 GP +VTA D++ +DIEVLN D IC++ + M + + G GYVPA ++T++ PIG Sbjct: 61 GPAIVTAADLKVDSDIEVLNTDQYICSIADGGHLHMNVAIKNGRGYVPASENKTDDMPIG 120 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 +I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT D Sbjct: 121 VIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITPND 166 >gi|121489391|emb|CAJ44676.1| RNA polymerase alpha subunit [Carnobacterium maltaromaticum] gi|145586275|emb|CAM91232.1| RNA polymerase alpha-subunit [Carnobacterium maltaromaticum] Length = 199 Score = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 82/199 (41%), Positives = 130/199 (65%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T +QIDGVLHE S+I GV ED+T IILNIK + LK+ K + I +GP VVTA DI Sbjct: 1 VTTIQIDGVLHEFSTIDGVVEDVTSIILNIKKLALKLYSGEDKTIEIDVKGPAVVTAADI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +D+E+LNPD IC + A + LT +G GY A+H++ ++ PIG++ +D++Y+P Sbjct: 61 TYDSDVEILNPDLYICTVAEGARFHVRLTAKQGRGYARAEHNKHDDMPIGVLPVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + +V+Y VE+ R GQ ++DKL++ + DGSI+ ED+V+LA++IL + L +F+N + + Sbjct: 121 VSRVNYQVENTRVGQKDNFDKLTLDVWADGSISPEDAVSLAAKILTEHLDIFVNLSDEAR 180 Query: 240 EVKEDINVKSLPFNPALLK 258 +V+ + + L Sbjct: 181 KVEIMVEKEETHKEKMLEM 199 >gi|15829032|ref|NP_326392.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma pulmonis UAB CTIP] gi|20139643|sp|Q98Q08|RPOA_MYCPU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|14089976|emb|CAC13734.1| DNA-DIRECTED RNA POLYMERASE ALPHA CHAIN (TRANSCRIPTASE ALPHA CHAIN) (RNA POLYMERASE ALPHA SUBUNIT)rpo [Mycoplasma pulmonis] Length = 333 Score = 191 bits (485), Expect = 1e-46, Method: Composition-based stats. Identities = 78/322 (24%), Positives = 146/322 (45%), Gaps = 17/322 (5%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 + + + + T EPL RGF T+G ALRR L+SS+ A++I V E Sbjct: 8 KYKEVKTKRVNDYETTFKIEPLERGFGSTIGTALRRTLLSSITSVVPFAIKIKDVDQEFD 67 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK----RGPGVVTAGDIQTV--NDIEV 127 +I + ED+ I+LN+K I+L + + I++ +T+ D++ +IE+ Sbjct: 68 TISDIVEDVQMIMLNVKNIHLVYDENIFEDNKIYRGVIETKNEKITSSDLKFPENPEIEI 127 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI-----------GLITIDAL 176 +N D I + ME+ G GY+ + ++ + + ID+ Sbjct: 128 VNKDLEIATNNGQKPFVMEVYFHVGRGYISFEDNKKLIEEKVALLNSTIKRGKFLAIDSD 187 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +SP++KV V+ + ++L + I T G+I ++ ++ A++IL L + + + Sbjct: 188 FSPVEKVKVKVQEINSSSLNIEEELEIEIKTKGTIDTKNILSQAAQILIAHLQVIGDVKN 247 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + + + L+LSVRS N L+ + + D++ TE D++ + Sbjct: 248 LDAVDVFEQKKQEKVEPSIHSVDITSLDLSVRSINALKRQGYTKLADILTLTEDDLVAVK 307 Query: 297 NFGRKSLVEIKGVLGTMGLFLG 318 N G+KS+ EI L + L Sbjct: 308 NLGKKSVEEIIQKLKEYNVTLN 329 >gi|154424721|emb|CAL18463.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 169 Score = 190 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 78/169 (46%), Positives = 119/169 (70%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 RVL+SSL GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ +K + K + + Sbjct: 1 RVLLSSLPGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 +GP VTAGDI T +DIE++NPDH + + A + +TVS GYVPA+ ++ ++ P+ Sbjct: 61 QGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGASFQATMTVSTNRGYVPAEENKKDDAPV 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ Sbjct: 121 GTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIVTNGTIIPEDAL 169 >gi|161511775|emb|CAP16898.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 193 Score = 190 bits (484), Expect = 2e-46, Method: Composition-based stats. Identities = 85/193 (44%), Positives = 124/193 (64%), Gaps = 2/193 (1%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAAIT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VT Sbjct: 1 PGAAITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITI 173 AGDI D+ +LNP+ IC + LT G GY A ++ + PIG++ I Sbjct: 61 AGDIMGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPI 120 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++Y+PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N Sbjct: 121 DSIYTPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVN 180 Query: 234 FEEPKKEVKEDIN 246 + KE + + Sbjct: 181 LNDQAKETEIMVE 193 >gi|255961329|ref|YP_003097511.1| RNA polymerase alpha chain [Selaginella moellendorffii] gi|302824557|ref|XP_002993921.1| hypothetical protein SELMODRAFT_137778 [Selaginella moellendorffii] gi|254941501|gb|ACT89016.1| RNA polymerase alpha chain [Selaginella moellendorffii] gi|296399215|gb|ADH10390.1| RNA polymerase alpha subunit [Selaginella moellendorffii] gi|300138288|gb|EFJ05062.1| hypothetical protein SELMODRAFT_137778 [Selaginella moellendorffii] Length = 247 Score = 190 bits (483), Expect = 2e-46, Method: Composition-based stats. Identities = 62/224 (27%), Positives = 100/224 (44%), Gaps = 7/224 (3%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI--DGVLHEISSIK 76 + E I P G A+TLG A+RR L+ L GA IT + + HE ++I Sbjct: 19 KVDNERSYYGRFIISPPKIGQANTLGIAMRRALLGELEGACITPAGSPPERINHEYTAIA 78 Query: 77 GVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV E + DI++N+K I LK + + + I GP VTA DI + ++P I Sbjct: 79 GVRESVHDILMNLKEIVLKTNPFSAAQEAHIPIVGPRKVTAQDIVLPPSVGTMDPTQHIA 138 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQ 194 + + L V +G G+ G + DA++ PI+ +Y++ G Sbjct: 139 TITRKIHSSIGLRVERGCGFRKRNMI---EYQKGSLPPDAVFMPIRHANYSIHRLGSHGG 195 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 + + L + TDGS T +++ ASR L + F + + Sbjct: 196 GIMKEMLLLEARTDGSPTPREAIYEASRNLANLFSPFPHNNIHE 239 >gi|72534423|emb|CAH59047.1| DNA-directed RNA polymerase alpha chain [Enterococcus faecium] Length = 190 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 87/190 (45%), Positives = 127/190 (66%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AAIT +QIDGVLHE S+IKGV ED+T IILNIKG+ LKM G K + I GP VTAG Sbjct: 1 AAITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKMYGQEEKTLEIDITGPATVTAG 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI +D+E+LN D IC++ A LTV G GYV A ++ E+ PIG++ +D++Y Sbjct: 61 DIIVDSDVEILNKDMYICSVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +P+++V+Y VE+ R G D+DKL+M I TDGSI ++++L+++I+ + L +F+N + Sbjct: 121 TPVRRVNYQVENTRVGHREDFDKLTMEIWTDGSIEPLEAMSLSAKIMTEHLDIFVNLTDE 180 Query: 238 KKEVKEDINV 247 K + + Sbjct: 181 AKNAEIMVEK 190 >gi|269991336|emb|CAX12520.1| DNA-directed RNA polymerase alpha chain [Fucus vesiculosus] Length = 368 Score = 190 bits (482), Expect = 3e-46, Method: Composition-based stats. Identities = 78/347 (22%), Positives = 145/347 (41%), Gaps = 56/347 (16%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 E + L + +T+GN LRR L+S+L G I V+ G+ +E + ++GV ED Sbjct: 16 NTNEFYGHFVFTALEKSQGNTIGNVLRRTLLSNLYGFRIVGVRFAGINNEFALLEGVRED 75 Query: 82 LTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 L +IILN+K I + D + GP V+TAG ++ N++++LNP++ + + Sbjct: 76 LFEIILNLKEIIILNSNRIDQTCYGRLKVYGPAVITAGSLELPNNVKILNPNNHLLTISD 135 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 ++++ +E+ + G Y+ AK + E + I ID+ ++P+ KV++ + S + + Sbjct: 136 ESLIEIEVKIEAGKSYILAKDQKLEG-ALDFIPIDSNFAPVLKVNWYIISLPQDGESINE 194 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE------------------------ 235 +L + I T+G++ ++ A ++ L E Sbjct: 195 ELHLEIYTNGTLLPHQALLQARTMIGYMLSPISTIEFSCLDTYEKEEIHDTNHIKSLTYI 254 Query: 236 -----------------------------EPKKEVKEDINVKSLPFNPALLKKVEELELS 266 + +V D + ++ L LS Sbjct: 255 TDPISRDQNKTVLRSNLIKNKSKFEKINLDKINQVSIDEQKLIKNIVDLEYESLKNLGLS 314 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 R N L NI ++ DLI + ++ + G KS+ EIK L Sbjct: 315 NRIINALNKVNINFISDLIHYPSSSLINIVGLGPKSVEEIKNKLNQF 361 >gi|150186935|emb|CAK30131.1| RNA polymerase alpha subunit [Streptococcus macedonicus] Length = 203 Score = 189 bits (481), Expect = 4e-46, Method: Composition-based stats. Identities = 82/203 (40%), Positives = 129/203 (63%) Query: 53 SSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 SSL GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP Sbjct: 1 SSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPA 60 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 VTAGDI T +D+E++NPDH + + ++ +TV+K GYV A+ ++ E+ P+G + Sbjct: 61 EVTAGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKERGYVSAEGNKKEDAPVGTLA 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 VDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFT 180 Query: 233 NFEEPKKEVKEDINVKSLPFNPA 255 + E K + + Sbjct: 181 DLTEVAKSTDVMKETEKVNDEKV 203 >gi|150187001|emb|CAK30147.1| RNA polymerase alpha subunit [Streptococcus ovis] Length = 202 Score = 189 bits (481), Expect = 5e-46, Method: Composition-based stats. Identities = 82/202 (40%), Positives = 129/202 (63%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP VT Sbjct: 1 PGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKTIELDVVGPAEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +DIE++NPDH + + A + LTV+ G GYVPA+ ++ + P+G + +D+ Sbjct: 61 AGDILTDSDIEIVNPDHYLFTISEGATFKATLTVNTGRGYVPAEGNKKDEAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + LG+F + Sbjct: 121 IYTPVVKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILMEHLGLFTDLT 180 Query: 236 EPKKEVKEDINVKSLPFNPALL 257 + K + ++ + L Sbjct: 181 DVAKAAEVMKETETASDDRMLD 202 >gi|153831468|ref|ZP_01984135.1| DNA-directed RNA polymerase alpha chain [Vibrio cholerae 623-39] gi|148873049|gb|EDL71184.1| DNA-directed RNA polymerase alpha chain [Vibrio cholerae 623-39] Length = 174 Score = 189 bits (481), Expect = 5e-46, Method: Composition-based stats. Identities = 71/172 (41%), Positives = 106/172 (61%), Gaps = 5/172 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLAVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLD-VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 D+E++NP+HVIC+L +A + M + V +G GYVPA + I Sbjct: 118 HDGDVEIVNPEHVICHLTSDNAAIAMRIKVERGRGYVPASARIHTEEDERPI 169 >gi|119662389|emb|CAJ33184.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 165 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 75/165 (45%), Positives = 113/165 (68%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG + LGN+LRRVL++SL G A++ +QIDGVLHE S+I GV ED+T I+LN+K + Sbjct: 1 EPLERGLWYNLGNSLRRVLLASLPGTAVSDIQIDGVLHEFSAIDGVIEDVTQIVLNVKKL 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 LK D + I GP VTA DI+ +D+E+L+P+ IC + M++TV G Sbjct: 61 KLKSYADDSLKAEIDVVGPATVTAKDIKADDDLEILDPEQFICTVAEGGHFHMQMTVING 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 GY PA+ ++T+ PIG++ +D++++P++KV+Y VE+ R G+ D Sbjct: 121 RGYTPAEQNKTDETPIGVLPVDSIFTPVEKVNYQVENTRVGKRND 165 >gi|150036724|emb|CAM98253.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. mesenteroides] Length = 181 Score = 189 bits (480), Expect = 5e-46, Method: Composition-based stats. Identities = 79/180 (43%), Positives = 117/180 (65%), Gaps = 2/180 (1%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +G Sbjct: 1 LLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQG 60 Query: 111 PGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPI 168 P VTA D+Q D+EVLNPD I + + M +T KG GY A ++ + PI Sbjct: 61 PADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPI 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 G++ +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + L Sbjct: 121 GVLAVDSIYTPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHL 180 >gi|150186996|emb|CAK30145.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 160 Score = 187 bits (476), Expect = 1e-45, Method: Composition-based stats. Identities = 75/160 (46%), Positives = 110/160 (68%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 TLGN+LRRVL++SL GAA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K + Sbjct: 1 GTTLGNSLRRVLLASLPGAAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVE 60 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 K + + GP VTAGDI T +DIE++NPDH + + + ++ +TV+ G GYVPA Sbjct: 61 DEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYVPAD 120 Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 ++ +N P+G + +D++Y+P+ KV+Y VE AR G +D Sbjct: 121 ENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFD 160 >gi|150036714|emb|CAM98250.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 186 Score = 187 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 80/185 (43%), Positives = 119/185 (64%), Gaps = 2/185 (1%) Query: 53 SSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG 112 SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +GP Sbjct: 1 SSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPA 60 Query: 113 VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGL 170 VTA D+Q D+EVLNPD I + + M +T KG GY A ++ + PIG+ Sbjct: 61 DVTAADLQAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGV 120 Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D++Y+PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L + Sbjct: 121 LAVDSIYTPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNL 180 Query: 231 FINFE 235 F++ Sbjct: 181 FMDIS 185 >gi|119662341|emb|CAJ33159.1| RNA polymerase alpha subunit [Lactobacillus parabuchneri] Length = 200 Score = 187 bits (476), Expect = 2e-45, Method: Composition-based stats. Identities = 90/199 (45%), Positives = 131/199 (65%), Gaps = 4/199 (2%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVV 114 G+A+T++QID VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP V Sbjct: 1 GSAVTSIQIDDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADV 60 Query: 115 TAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLIT 172 TAGDIQ +D+ VLNPD I + A M LT +KG GYV A R+ PIG++ Sbjct: 61 TAGDIQADSDVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMPIGVLP 120 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +D++Y+PI++V+Y VES R GQ D+DKL++ + TDGSIT ++V+LA++IL + L MF+ Sbjct: 121 VDSIYTPIERVNYQVESTRVGQRDDFDKLTLDVWTDGSITPSEAVSLAAKILTEHLEMFV 180 Query: 233 NFEEPKKEVKEDINVKSLP 251 + + K + + + Sbjct: 181 DLTDEAKNTEIMVEKEETH 199 >gi|119662835|emb|CAJ33210.1| RNA polymerase alpha subunit [Lactobacillus rossiae] Length = 173 Score = 187 bits (475), Expect = 2e-45, Method: Composition-based stats. Identities = 87/172 (50%), Positives = 124/172 (72%), Gaps = 2/172 (1%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE S+++GV ED+T IILN+K ++LKM+ D K + I +GP VTAGDIQT Sbjct: 1 QIDGVLHEFSTVEGVVEDVTQIILNMKKVSLKMATDEEKGMDIDVKGPATVTAGDIQTDA 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIK 181 D+EV+NPD IC + A M LT +KG GYV A R ++ PIG++ ID++Y+PI+ Sbjct: 61 DVEVMNPDLYICTVADGATFHMHLTANKGRGYVSADENKARQDDMPIGVLPIDSIYTPIE 120 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +V+Y VE+ R GQ DYDKL++ + TDGSIT ++++LA++IL + L MF++ Sbjct: 121 RVNYQVENTRVGQRDDYDKLTLDVWTDGSITPSEAISLAAKILTEHLAMFVD 172 >gi|270265493|emb|CBI68383.1| RNA polymerase alpha-subunit [Vibrio tapetis] Length = 200 Score = 187 bits (474), Expect = 3e-45, Method: Composition-based stats. Identities = 86/203 (42%), Positives = 131/203 (64%), Gaps = 7/203 (3%) Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAK---HHRTENDPIG 169 V AGDI D+E+ NP+HVIC+L D A + M + V +G GYVPA H + PIG Sbjct: 1 VVAGDITHDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPASSRIHTEEDERPIG 60 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +DA YSP+ K++Y VE+AR Q D DKL + ++T+G++ E+++ ++ IL +QL Sbjct: 61 RLLVDATYSPVDKIAYAVEAARVEQRTDLDKLVIDMETNGTLDPEEAIRRSATILAEQLD 120 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE 289 F++ + + +++ + P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE Sbjct: 121 AFVDLRDIRVPEEKEEKPEFDP---ILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTE 177 Query: 290 ADMLRMANFGRKSLVEIKGVLGT 312 ++L+ N G KSL EIK VL + Sbjct: 178 VELLKTPNLGNKSLTEIKDVLAS 200 >gi|150186978|emb|CAK30140.1| RNA polymerase alpha subunit [Streptococcus sanguinis SK1] Length = 194 Score = 186 bits (473), Expect = 4e-45, Method: Composition-based stats. Identities = 81/193 (41%), Positives = 122/193 (63%) Query: 54 SLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV 113 SL GAA+T++ I+GVLHE +I GV ED+ IILN+KGI +K K + + GP Sbjct: 2 SLPGAAVTSINIEGVLHEFDTISGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPAE 61 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 VTAGDI T +DIE++NPDH + + A + +TV+ G GYVPA ++ ++ P+G + + Sbjct: 62 VTAGDILTDSDIEIINPDHYLFTIGEGASFKATMTVNSGRGYVPADENKKDDAPVGTLAV 121 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F N Sbjct: 122 DSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTN 181 Query: 234 FEEPKKEVKEDIN 246 E Sbjct: 182 LTEVAIAADVMKE 194 >gi|161511711|emb|CAP16866.1| DNA-directed RNA polymerase subunit alpha [Pediococcus pentosaceus] Length = 209 Score = 186 bits (472), Expect = 4e-45, Method: Composition-based stats. Identities = 88/209 (42%), Positives = 130/209 (62%), Gaps = 2/209 (0%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT+VQID VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI Sbjct: 1 ITSVQIDSVLHEFSTIEGVVEDVTQIILNLKKVSLKIESDEDKTLEINVAGPANVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALY 177 D+ +LNP+ IC + LT G GY A ++ + PIG++ ID++Y Sbjct: 61 MGDGDVVILNPELPICTVAEGTTFHAVLTADTGRGYTSADENKARKVDMPIGVLPIDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +PI++V+Y VE+ R GQ DYDKL++ I TDGSIT ++ +L+++IL + L +F+N + Sbjct: 121 TPIERVNYQVENTRVGQRDDYDKLTLDIWTDGSITPSEATSLSAKILTEHLAIFVNLNDQ 180 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELS 266 KE + + + L +EEL+LS Sbjct: 181 AKETEIMVEKEETHKEKMLEMTIEELDLS 209 >gi|23013214|ref|ZP_00053138.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Magnetospirillum magnetotacticum MS-1] Length = 159 Score = 186 bits (472), Expect = 5e-45, Method: Composition-based stats. Identities = 99/153 (64%), Positives = 124/153 (81%), Gaps = 1/153 (0%) Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE+ R GQV DYDKL+MT++T+G++T +D+VALA+RILQDQL +FINFEEP V+E Sbjct: 6 KVENTRVGQVTDYDKLNMTVETNGAVTPDDAVALAARILQDQLQLFINFEEPTAVVEE-E 64 Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 LPFN LL+KV+ELELSVRS NCL+ +NI+Y+GDL+Q+TEA+MLR NFGRKSL E Sbjct: 65 KKDELPFNKNLLRKVDELELSVRSANCLKNDNIIYIGDLVQKTEAEMLRTPNFGRKSLNE 124 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 IK VL MGL LGM + +WPPE+IEELAKK E+ Sbjct: 125 IKEVLAQMGLHLGMEIANWPPENIEELAKKLEE 157 >gi|229915533|gb|ACQ90877.1| alpha subunit of RNA polymerase [Pedinomonas minor] Length = 365 Score = 185 bits (471), Expect = 7e-45, Method: Composition-based stats. Identities = 72/355 (20%), Positives = 139/355 (39%), Gaps = 58/355 (16%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + QE + P G A T+ N+LRR L+S +G + AV+IDG +HE S ++G+ Sbjct: 13 RMEQETSWYSRFEIGPFQAGQALTVANSLRRTLLSDQQGVFLAAVEIDGAIHEYSRLEGL 72 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFK-----------RGPGVVTAGDIQTVNDIEV 127 E + DI+LN++ +++ ++ D+ K + F +GP V A D++ IE Sbjct: 73 KESILDILLNLRQVSVLLTDDTSKTASEFANQETFVGYFDLQGPMEVKAKDLKFPKQIEC 132 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE----------------NDPIGLI 171 NP+ I L + + + G + + Sbjct: 133 GNPNQHIATLTRNCTFQGRFLILTNPGLTFKNQSIGDPLLFTKQVAKLEIGNRLLEKNWL 192 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDY-DKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 ++ + + I++V+Y VE G V + + + + + T+G+I + ++ A L Sbjct: 193 YVNPITNAIRRVNYVVEQF--GDVWEQKEVVVLEVWTNGTIHPKQAIHSACTKLSTLFSS 250 Query: 231 FINFE----------------------------EPKKEVKEDINVKSLPFNPALLKKVEE 262 + +P E + + Sbjct: 251 LSSVNTTAFKFPASVARFKKVKTDSGADGNLTVKPMTEFSGQESPAGDKLTILFDLDIAN 310 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L+LS+++ L+ I +G+L+Q ++D+ R+ N + EI+ L GL Sbjct: 311 LQLSLKTYLVLKNAKIQNIGNLLQYNKSDLTRLLNLANSQIEEIETALNVFGLAF 365 >gi|163804149|ref|ZP_02197920.1| DNA-directed RNA polymerase subunit alpha [Vibrio sp. AND4] gi|159172035|gb|EDP57006.1| DNA-directed RNA polymerase subunit alpha [Vibrio sp. AND4] Length = 174 Score = 185 bits (471), Expect = 7e-45, Method: Composition-based stats. Identities = 71/159 (44%), Positives = 104/159 (65%), Gaps = 5/159 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-SGDSHKRVTIFKRGPGVVTAGDIQ 120 V+I+GVLHE S+ +GV ED+ +I+LN+KG+++++ G +T+ K G G V AGDI Sbjct: 58 EVEIEGVLHEYSTKEGVQEDILEILLNLKGLSVRVAEGKDEVFITLNKSGSGPVVAGDIT 117 Query: 121 TVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPA 158 D+E+ NP+HVIC+L D A + M + V +G GYVPA Sbjct: 118 HDGDVEIANPEHVICHLTDDNAEIAMRIKVERGRGYVPA 156 >gi|150186985|emb|CAK30142.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 204 Score = 185 bits (471), Expect = 7e-45, Method: Composition-based stats. Identities = 81/203 (39%), Positives = 129/203 (63%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VT Sbjct: 1 PGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D+ Sbjct: 61 AGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLT 180 Query: 236 EPKKEVKEDINVKSLPFNPALLK 258 E K + + L + Sbjct: 181 EVAKNTDVMKETEKVNDEKVLDR 203 >gi|154424835|emb|CAL18520.1| RNA polymerase alpha subunit [Streptococcus phocae] Length = 153 Score = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 74/153 (48%), Positives = 110/153 (71%) Query: 39 FAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG 98 + TLGN+LRRVL+SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K Sbjct: 1 YGTTLGNSLRRVLLSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYV 60 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 + K + + GP VTAGDI T +DIE++NPDH + + +R +TV+K GYVPA Sbjct: 61 EDEKTIELEVEGPATVTAGDILTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPA 120 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 + ++ ++ P+G + +D++Y+P+KKV+Y VE AR Sbjct: 121 EGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPAR 153 >gi|150187178|emb|CAK30188.1| RNA polymerase alpha subunit [Streptococcus acidominimus] Length = 174 Score = 185 bits (470), Expect = 7e-45, Method: Composition-based stats. Identities = 77/173 (44%), Positives = 120/173 (69%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP +T Sbjct: 1 PGAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKTIELDVTGPAEIT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +DIE++NPDH + + A + +TV+ G GYVPA+ ++ ++ P+G + +D+ Sbjct: 61 AGDILTDSDIEIVNPDHYLFTISEGATFKAMMTVNTGRGYVPAEGNKKDDAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILMEHL 173 >gi|119668311|emb|CAK95456.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. lactis] Length = 191 Score = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 72/190 (37%), Positives = 114/190 (60%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 + V+IDG+LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA Sbjct: 1 TGLVKVKIDGILHEFTTVPGVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAE 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 D++ D+EVLNPD IC + + M + V G GYVPA +++ IG I +D+L+ Sbjct: 61 DLKADADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLF 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 SPI+KV+Y VES R G+ D+DKL++ I T+GSI D++ A+R+L + F + + Sbjct: 121 SPIEKVNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAA 180 Query: 238 KKEVKEDINV 247 + + + Sbjct: 181 AEIGEVMVEQ 190 >gi|71056848|emb|CAH58979.1| DNA-directed RNA polymerase alpha chain [Enterococcus haemoperoxidus] Length = 199 Score = 185 bits (469), Expect = 1e-44, Method: Composition-based stats. Identities = 85/199 (42%), Positives = 130/199 (65%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 IT +QIDGVLHE S+IKGV ED+T IILNIKG+ LK+ + K + I GP VTAGDI Sbjct: 1 ITNIQIDGVLHEFSTIKGVREDVTQIILNIKGLALKLYAEEEKTLEIDITGPATVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 +D+E+LN D +IC++ A LTV G GYV A ++ E+ PIG++ +D++Y+P Sbjct: 61 IVDSDVEILNKDLIICSVSEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +++V+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++I+ + L +F+N + K Sbjct: 121 VRRVNYQVENTRVGRRDDFDKLTMEIWTDGSIIPQEALSLAAKIMTEHLDIFVNLTDEAK 180 Query: 240 EVKEDINVKSLPFNPALLK 258 + + + L Sbjct: 181 NAEIMVEKEETQKEKMLEM 199 >gi|119672797|emb|CAK95482.1| RNA polymerase alpha subunit [Lactobacillus animalis] Length = 190 Score = 184 bits (468), Expect = 1e-44, Method: Composition-based stats. Identities = 79/189 (41%), Positives = 123/189 (65%), Gaps = 2/189 (1%) Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE S++KGV ED+T IILN+K + LK+ + + + GP VTAGDIQ +D Sbjct: 1 IDGVLHEFSTVKGVLEDVTAIILNLKKVALKLDSEDSQTLEFDVVGPKEVTAGDIQGSSD 60 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKK 182 +E+LNPD IC + AV +T +KG GYV A + E+ PIG++ ID++Y+PI++ Sbjct: 61 VEILNPDQYICTVADGAVFHARMTANKGRGYVSATENKAKAEDMPIGVLPIDSIYTPIER 120 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 V+Y VE R GQ DYDKL++ + T+GSIT ++++L+++IL + L +F++ + K + Sbjct: 121 VNYQVEKTRVGQKNDYDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAKNAE 180 Query: 243 EDINVKSLP 251 + + Sbjct: 181 IMVEKEETH 189 >gi|119662359|emb|CAJ33168.1| RNA polymerase alpha subunit [Lactobacillus sanfranciscensis] Length = 186 Score = 184 bits (467), Expect = 2e-44, Method: Composition-based stats. Identities = 84/186 (45%), Positives = 128/186 (68%), Gaps = 4/186 (2%) Query: 50 VLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIF 107 +L++SL GAA+T+VQIDGVLHE S++KGV ED+T IILN+K + LK+ + + ++I Sbjct: 1 ILLASLPGAAVTSVQIDGVLHEFSTVKGVTEDVTKIILNLKKLKLKIDSEDNDIHTLSIN 60 Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTEN 165 GP VTA DI T ++ +LNPD I + A + M +T +KG G+V A R ++ Sbjct: 61 VTGPADVTAADITTDSETTILNPDLHIATVAEGATLHMTMTANKGRGFVSAEENKARNDD 120 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 PIG++ ID++Y+PI++V+Y VE R GQ D+DKL++ + T+GSI+ D+++LA++IL Sbjct: 121 MPIGVLPIDSIYTPIERVNYQVEDTRVGQRDDFDKLTLDVWTNGSISPSDAISLAAKILS 180 Query: 226 DQLGMF 231 L MF Sbjct: 181 QHLDMF 186 >gi|154424853|emb|CAL18529.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 199 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 77/199 (38%), Positives = 127/199 (63%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTA Sbjct: 1 GAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++ Sbjct: 61 GDILTDSDIEIVNPDHYLFTIADGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSI 120 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + Sbjct: 121 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTD 180 Query: 237 PKKEVKEDINVKSLPFNPA 255 K + + Sbjct: 181 VAKATDVMKETEKVNEEKV 199 >gi|150036780|emb|CAM98033.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 153 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 70/153 (45%), Positives = 100/153 (65%), Gaps = 2/153 (1%) Query: 30 MIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNI 89 + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDGV+HE S++ GV ED+T IILN+ Sbjct: 1 FVVEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDGVVHEFSTVDGVVEDVTQIILNL 60 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M +T Sbjct: 61 KKVVLAIESDDERSLEIDIQGPADVTAADLQGGADVEVLNPDLHIATVAAGKSLHMTVTA 120 Query: 150 SKGHGYVPAKHHRT--ENDPIGLITIDALYSPI 180 KG GY A ++ + PIG++ +D++Y+PI Sbjct: 121 VKGRGYTSADENKKLRDEMPIGVLAVDSIYTPI 153 >gi|154424731|emb|CAL18468.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 179 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 78/177 (44%), Positives = 123/177 (69%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTA Sbjct: 1 GAAVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + A + +TVS GYVPA+ ++ ++ P+G + +D++ Sbjct: 61 GDILTDSDIEIVNPDHYLFTIAEGASFQATMTVSTNRGYVPAEENKKDDAPVGTLAVDSI 120 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + Sbjct: 121 YTPVKKVNYQVEPARVGSNDGFDKLTIEIVTNGTIIPEDALGLSARILIEHLNLFTD 177 >gi|154424727|emb|CAL18466.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 184 Score = 184 bits (466), Expect = 2e-44, Method: Composition-based stats. Identities = 79/184 (42%), Positives = 124/184 (67%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VT Sbjct: 1 PGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +D+E++NPDH + + ++ +TV+K GYV A+ ++ E+ P+G + +D+ Sbjct: 61 AGDILTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKERGYVSAEGNKKEDAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLT 180 Query: 236 EPKK 239 E K Sbjct: 181 EVAK 184 >gi|119662803|emb|CAJ33193.1| RNA polymerase alpha subunit [Lactobacillus mali] Length = 196 Score = 183 bits (465), Expect = 3e-44, Method: Composition-based stats. Identities = 80/195 (41%), Positives = 129/195 (66%), Gaps = 2/195 (1%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 AIT +QIDGVLHE S+IKGV ED+T IILN+K + L++ + ++ + I GP VTAGD Sbjct: 1 AITDIQIDGVLHEFSTIKGVLEDVTQIILNLKKVALRIDSEENQTLEINVAGPVEVTAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDAL 176 IQ +D+EVLN D IC + A + +T + G GYV A R ++ PIG++ ID++ Sbjct: 61 IQGSSDVEVLNSDLYICTVAEGASFHVRMTANTGRGYVSADDNKARADDMPIGVLPIDSI 120 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+PI++V+Y VE AR GQ D+DKL++ + T+G++T ++++L+++IL + L +F++ + Sbjct: 121 YTPIERVNYQVEKARVGQKDDFDKLTLDVWTNGAVTPSEAISLSAKILTEHLTLFVDLTD 180 Query: 237 PKKEVKEDINVKSLP 251 K + + + Sbjct: 181 EAKNAEIMVEKEETH 195 >gi|150187112|emb|CAK30173.1| RNA polymerase alpha subunit [Streptococcus equinus] Length = 191 Score = 182 bits (463), Expect = 5e-44, Method: Composition-based stats. Identities = 79/191 (41%), Positives = 124/191 (64%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VT Sbjct: 1 PGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +D+E++N DH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D+ Sbjct: 61 AGDILTDSDVEIVNTDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLT 180 Query: 236 EPKKEVKEDIN 246 E K Sbjct: 181 EVAKNTDVMKE 191 >gi|307702711|ref|ZP_07639663.1| putative DNA-directed RNA polymerase, alpha subunit [Streptococcus oralis ATCC 35037] gi|307623827|gb|EFO02812.1| putative DNA-directed RNA polymerase, alpha subunit [Streptococcus oralis ATCC 35037] Length = 163 Score = 182 bits (462), Expect = 7e-44, Method: Composition-based stats. Identities = 69/164 (42%), Positives = 102/164 (62%), Gaps = 4/164 (2%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN + E ++ + EPL RG+ TLGN+LRRVL++SL GAA+T++ IDG Sbjct: 3 EFEKPNITKI----DENKDYGKFVIEPLERGYGTTLGNSLRRVLLASLPGAAVTSINIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE+ Sbjct: 59 VLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEI 118 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 +NPDH + + + ++ +TV+ G GYVPA ++ + + Sbjct: 119 VNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKIMHQLEHL 162 >gi|119668305|emb|CAK95454.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii subsp. bulgaricus] Length = 173 Score = 182 bits (461), Expect = 8e-44, Method: Composition-based stats. Identities = 73/169 (43%), Positives = 108/169 (63%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 V+IDG+LHE +++ GV ED+T IILN+K + L+ + K + + GP VTA D++ Sbjct: 2 VKIDGILHEFTTVPGVKEDVTKIILNLKKLELRAYTEEVKTIELDVEGPATVTAEDLKAD 61 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 D+EVLNPD IC + + M + V G GYVPA ++T IG I +D+L+SPI+K Sbjct: 62 ADVEVLNPDQYICTIAQGGHLHMWIDVCNGRGYVPASENKTAEMSIGDIPVDSLFSPIEK 121 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 V+Y VES R G+ D+DKL++ I T+GSI D++ A+R+L + F Sbjct: 122 VNYQVESTRVGKREDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAF 170 >gi|71056955|emb|CAH59038.1| DNA-directed RNA polymerase alpha chain [Enterococcus avium] Length = 177 Score = 181 bits (459), Expect = 2e-43, Method: Composition-based stats. Identities = 83/177 (46%), Positives = 121/177 (68%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T +QIDGVLHE S+IKGV ED+ IILNIKG+ LK+ + K + I GP VTAGDI Sbjct: 1 TNIQIDGVLHEFSTIKGVREDVVQIILNIKGLALKLFAEEEKTLEIDITGPATVTAGDII 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 +D+E+LN D IC + A LTV G GYV A ++ E+ PIG++ +D++Y+P+ Sbjct: 61 VDSDVEILNKDMYICTVAEGATFHARLTVKPGRGYVQADENKKEDMPIGVLPVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +KV+Y VE+ R G+ D+DKL+M I TDGSI +++++LA++IL + L +F+N + Sbjct: 121 RKVNYQVENTRVGRRDDFDKLTMEIWTDGSIIAQEALSLAAKILTEHLDIFVNLTDE 177 >gi|269929683|gb|ACZ53737.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 78/165 (47%), Positives = 119/165 (72%), Gaps = 2/165 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ ++ K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSENQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A R ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSL 165 >gi|269929661|gb|ACZ53726.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929663|gb|ACZ53727.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929665|gb|ACZ53728.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929667|gb|ACZ53729.1| RNA polymerase alpha subunit [Lactobacillus reuteri ATCC 53608] gi|269929669|gb|ACZ53730.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929671|gb|ACZ53731.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929673|gb|ACZ53732.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929675|gb|ACZ53733.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929677|gb|ACZ53734.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929679|gb|ACZ53735.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929681|gb|ACZ53736.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929685|gb|ACZ53738.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929687|gb|ACZ53739.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929689|gb|ACZ53740.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929691|gb|ACZ53741.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929693|gb|ACZ53742.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929695|gb|ACZ53743.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929697|gb|ACZ53744.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929699|gb|ACZ53745.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929701|gb|ACZ53746.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929705|gb|ACZ53748.1| RNA polymerase alpha subunit [Lactobacillus reuteri ATCC 53608] gi|269929707|gb|ACZ53749.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929709|gb|ACZ53750.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929711|gb|ACZ53751.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929713|gb|ACZ53752.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929715|gb|ACZ53753.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929717|gb|ACZ53754.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929719|gb|ACZ53755.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929721|gb|ACZ53756.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929723|gb|ACZ53757.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929725|gb|ACZ53758.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929727|gb|ACZ53759.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929729|gb|ACZ53760.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929731|gb|ACZ53761.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929733|gb|ACZ53762.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929735|gb|ACZ53763.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929737|gb|ACZ53764.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929739|gb|ACZ53765.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929741|gb|ACZ53766.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929743|gb|ACZ53767.1| RNA polymerase alpha subunit [Lactobacillus reuteri DSM 20016] gi|269929745|gb|ACZ53768.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929747|gb|ACZ53769.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929749|gb|ACZ53770.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929751|gb|ACZ53771.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929753|gb|ACZ53772.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929755|gb|ACZ53773.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929757|gb|ACZ53774.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929759|gb|ACZ53775.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929761|gb|ACZ53776.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929763|gb|ACZ53777.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929765|gb|ACZ53778.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929767|gb|ACZ53779.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929769|gb|ACZ53780.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929771|gb|ACZ53781.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929773|gb|ACZ53782.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929775|gb|ACZ53783.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929777|gb|ACZ53784.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929779|gb|ACZ53785.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929781|gb|ACZ53786.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929783|gb|ACZ53787.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929785|gb|ACZ53788.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929787|gb|ACZ53789.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929789|gb|ACZ53790.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929791|gb|ACZ53791.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929793|gb|ACZ53792.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929795|gb|ACZ53793.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929797|gb|ACZ53794.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929799|gb|ACZ53795.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929801|gb|ACZ53796.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929803|gb|ACZ53797.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929805|gb|ACZ53798.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929807|gb|ACZ53799.1| RNA polymerase alpha subunit [Lactobacillus reuteri lpuph] gi|269929809|gb|ACZ53800.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929811|gb|ACZ53801.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929813|gb|ACZ53802.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929815|gb|ACZ53803.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929817|gb|ACZ53804.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929819|gb|ACZ53805.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929821|gb|ACZ53806.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929823|gb|ACZ53807.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929825|gb|ACZ53808.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929827|gb|ACZ53809.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929831|gb|ACZ53811.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929833|gb|ACZ53812.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929835|gb|ACZ53813.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929837|gb|ACZ53814.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929839|gb|ACZ53815.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929841|gb|ACZ53816.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929843|gb|ACZ53817.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929845|gb|ACZ53818.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929847|gb|ACZ53819.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929849|gb|ACZ53820.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929851|gb|ACZ53821.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929853|gb|ACZ53822.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929855|gb|ACZ53823.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929857|gb|ACZ53824.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929859|gb|ACZ53825.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929861|gb|ACZ53826.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929863|gb|ACZ53827.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929865|gb|ACZ53828.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929867|gb|ACZ53829.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929869|gb|ACZ53830.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929871|gb|ACZ53831.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929873|gb|ACZ53832.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929875|gb|ACZ53833.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929877|gb|ACZ53834.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929879|gb|ACZ53835.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929881|gb|ACZ53836.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929883|gb|ACZ53837.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929885|gb|ACZ53838.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929887|gb|ACZ53839.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929889|gb|ACZ53840.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 78/165 (47%), Positives = 118/165 (71%), Gaps = 2/165 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A R ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSL 165 >gi|154424805|emb|CAL18505.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 183 Score = 180 bits (456), Expect = 3e-43, Method: Composition-based stats. Identities = 74/183 (40%), Positives = 123/183 (67%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T+++IDGVLHE ++ GV ED+ IILN+KG+ +K + K + + +GP VTA Sbjct: 1 GAAVTSIKIDGVLHEFDTVPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVQGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +D+E++N DH + + A + +TV+ GYV A+ ++ ++ P+G + +D++ Sbjct: 61 GDILTDSDVEIVNSDHYLFTIAEGASFKASMTVATNRGYVAAEGNKKDDAPVGTLAVDSI 120 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 121 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTE 180 Query: 237 PKK 239 K Sbjct: 181 VAK 183 >gi|269929659|gb|ACZ53725.1| RNA polymerase alpha subunit [Lactobacillus reuteri] gi|269929703|gb|ACZ53747.1| RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 79/165 (47%), Positives = 118/165 (71%), Gaps = 2/165 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A R ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSL 165 >gi|154424795|emb|CAL18500.1| RNA polymerase alpha subunit [Streptococcus gordonii] Length = 183 Score = 179 bits (455), Expect = 4e-43, Method: Composition-based stats. Identities = 78/183 (42%), Positives = 120/183 (65%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA+T++ I+GVLHE +I GV ED+ IILNIKGI +K K + + GP +TAG Sbjct: 1 AAVTSINIEGVLHEFDTIPGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEITAG 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T +DIE++NPDH + + A + +TV+ G GYVPA ++ ++ P+G + +D++Y Sbjct: 61 DILTDSDIEIVNPDHYLFTIGEGARFKAVMTVNSGRGYVPADQNKRDDAPVGTLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 TPVTKVNYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARILTEHLDLFTDLTEV 180 Query: 238 KKE 240 K Sbjct: 181 AKA 183 >gi|150186992|emb|CAK30144.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 189 Score = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 77/188 (40%), Positives = 124/188 (65%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 A+T+++IDGVLHE ++ GV ED+ IILNIKGI +K + K++ + GP +TAGD Sbjct: 1 AVTSIKIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEITAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T +DIE++NPDH + + A + LTV++G GYVPA+ ++ + P+G + +D++Y+ Sbjct: 61 ILTDSDIEIVNPDHYLFTIGEGASFKAILTVNRGRGYVPAEGNKKDEAPVGTLAVDSIYT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+ KV+Y VE AR G +DKL++ I T+G+ ED++ L++RIL + LG+F + + Sbjct: 121 PVVKVNYQVEPARVGSNDGFDKLTLEIMTNGTTNPEDALGLSARILMEHLGLFTDLTDVA 180 Query: 239 KEVKEDIN 246 K + Sbjct: 181 KSAEVMKE 188 >gi|326392491|ref|ZP_08213872.1| RNA polymerase insert [Thermoanaerobacter ethanolicus JW 200] gi|325991466|gb|EGD50077.1| RNA polymerase insert [Thermoanaerobacter ethanolicus JW 200] Length = 136 Score = 179 bits (453), Expect = 7e-43, Method: Composition-based stats. Identities = 67/132 (50%), Positives = 87/132 (65%) Query: 32 AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKG 91 EPL RG+ TLGN+LRRVL+SSL GAA +V+IDGVLHE S++ GV ED+ +IILN+K Sbjct: 1 MEPLERGYGITLGNSLRRVLLSSLPGAAPKSVKIDGVLHEFSTLPGVKEDVVEIILNLKE 60 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + +K+ D I G G VTAG I+ DIE+LNPDH I L D + ME+ K Sbjct: 61 VAVKLHSDEPVVGRIDVEGKGEVTAGHIKGSADIEILNPDHHIATLSDDGKLHMEIVFVK 120 Query: 152 GHGYVPAKHHRT 163 G GYVP+ ++ Sbjct: 121 GKGYVPSDKTKS 132 >gi|119473466|ref|ZP_01614972.1| DNA-directed RNA polymerase subunit alpha [Alteromonadales bacterium TW-7] gi|119444456|gb|EAW25790.1| DNA-directed RNA polymerase subunit alpha [Alteromonadales bacterium TW-7] Length = 173 Score = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 74/170 (43%), Positives = 115/170 (67%), Gaps = 3/170 (1%) Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 + PIG + +DA +SP+++++Y+VESAR Q D DKL + ++T+G++ E+++ AS Sbjct: 7 DDDERPIGRLLLDASFSPVERIAYSVESARVEQRTDLDKLIIDMETNGTLDREEAIRRAS 66 Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 IL +QL F++ + + + + F+P LL+ V++LEL+VRS NCL+ E I Y+ Sbjct: 67 TILAEQLDAFVDLRDV---TEPEEKEEKPEFDPILLRPVDDLELTVRSANCLKAEQIQYI 123 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP S+ E Sbjct: 124 GDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASLAE 173 >gi|300379501|gb|ADK08381.1| DNA-directed RNA polymerase alpha subunit [Lactobacillus reuteri] Length = 166 Score = 179 bits (453), Expect = 8e-43, Method: Composition-based stats. Identities = 78/165 (47%), Positives = 118/165 (71%), Gaps = 2/165 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T++QIDGVLHE S++KGV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAVTSMQIDGVLHEFSTVKGVTEDVTQIILNLKKVSLKIDSEDQKDLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A R ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHIATVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSL 165 >gi|269929829|gb|ACZ53810.1| RNA polymerase alpha subunit [Lactobacillus reuteri mlc3] Length = 166 Score = 178 bits (452), Expect = 9e-43, Method: Composition-based stats. Identities = 78/165 (47%), Positives = 118/165 (71%), Gaps = 2/165 (1%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAAIT++QIDGVLHE S+++GV ED+T IILN+K ++LK+ + K + + +GP VTA Sbjct: 1 GAAITSMQIDGVLHEFSTVEGVTEDVTQIILNLKKVSLKLDSEDQKNLELDVKGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITID 174 DIQ N++ +LNPD I + A + ++LT KG GY+ A R ++ IG++ ID Sbjct: 61 SDIQGDNEVTILNPDLHITTVADGAELHIKLTADKGRGYLSANDNKARMDDLAIGVLPID 120 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++Y+PI++V+YTVE+AR GQ DYDKL++ + TDGS+T ++V+L Sbjct: 121 SIYTPIERVNYTVENARVGQRNDYDKLTLDVWTDGSLTPTEAVSL 165 >gi|154424813|emb|CAL18509.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 177 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 78/176 (44%), Positives = 121/176 (68%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA+T++ I+GVLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAG Sbjct: 1 AAVTSINIEGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEGEKTIELDVEGPAEVTAG 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T +DIE++NP+H + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y Sbjct: 61 DILTDSDIEIVNPNHYLFTIGEGASLKAVMTVNTGRGYVPADENKKDDAPVGTLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +P+KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F N Sbjct: 121 TPVKKVNYQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTN 176 >gi|145586271|emb|CAM91230.1| RNA polymerase alpha-subunit [Lactobacillus plantarum subsp. argentoratensis] Length = 176 Score = 178 bits (452), Expect = 1e-42, Method: Composition-based stats. Identities = 84/176 (47%), Positives = 120/176 (68%), Gaps = 2/176 (1%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+I+GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+ Sbjct: 1 DGVLHEFSTIEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADV 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 EVLNPD IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V Sbjct: 61 EVLNPDLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +Y VE+ R GQ D+DKL++ + T+GSIT ++++L+++IL D L +F+N + K Sbjct: 121 NYQVENTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVNLTDEAK 176 >gi|254751247|ref|ZP_05203285.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 136 Score = 178 bits (451), Expect = 1e-42, Method: Composition-based stats. Identities = 68/136 (50%), Positives = 92/136 (67%), Gaps = 2/136 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+VTA DI +D+E+ Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIVTAADITHDSDVEI 120 Query: 128 LNPDHVICNLDVDAVV 143 LNPD I L DA Sbjct: 121 LNPDLHIATLAKDAHF 136 >gi|284103857|ref|ZP_06386117.1| DNA-directed RNA polymerase subunit alpha [Candidatus Poribacteria sp. WGA-A3] gi|283830235|gb|EFC34482.1| DNA-directed RNA polymerase subunit alpha [Candidatus Poribacteria sp. WGA-A3] Length = 137 Score = 177 bits (450), Expect = 2e-42, Method: Composition-based stats. Identities = 62/138 (44%), Positives = 84/138 (60%), Gaps = 1/138 (0%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K ++ P +E + AEP RGF T+GN+LRRVL+SSL GAA+T Sbjct: 1 MSKGIKDFQLPMRLELEK-ETASSSYGKFTAEPFERGFGTTVGNSLRRVLLSSLTGAAVT 59 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 +V+I+G HE S++ GV ED+T IILNIK + LK+ D K + + K+GPG V A DIQ Sbjct: 60 SVKIEGAFHEFSTLPGVTEDVTIIILNIKNLRLKLHTDKSKAMQLKKKGPGKVRAADIQH 119 Query: 122 VNDIEVLNPDHVICNLDV 139 DI +LNP+ I LD Sbjct: 120 DADITILNPELHIATLDK 137 >gi|154424743|emb|CAL18474.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 201 Score = 177 bits (448), Expect = 3e-42, Method: Composition-based stats. Identities = 76/201 (37%), Positives = 127/201 (63%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++IDGVLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI Sbjct: 1 TSIKIDGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+ Sbjct: 61 TDSDIEIVNPDHYLFTIAEGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKA 180 Query: 241 VKEDINVKSLPFNPALLKKVE 261 + + L + +E Sbjct: 181 TDVMKETEKVNDEKVLDRTIE 201 >gi|293977954|ref|YP_003543384.1| DNA-directed RNA polymerase subunit alpha/40 kD subunit [Candidatus Sulcia muelleri DMIN] gi|292667885|gb|ADE35520.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Candidatus Sulcia muelleri DMIN] Length = 239 Score = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 85/237 (35%), Positives = 133/237 (56%), Gaps = 6/237 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K + + + + L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFKQSKNLRVLKLTPEEGLFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT-----IFKRGPGVVTAGDI-QTV 122 HE S+IKGV ED+T+IILN+K + K + + I +TAGD+ + + Sbjct: 63 NHEFSTIKGVIEDMTEIILNLKKVRFKKNKKKENFESEVFNMIISNDKEEITAGDLGKYI 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 N ++LNPD +I N + + + + KG GYVP++ ++ G I +D++++PIK Sbjct: 123 NKFDILNPDLIILNKQKLISLDISIVIKKGIGYVPSEENKENLIVSGSIPMDSIFTPIKN 182 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 V Y +++ + +Y+ L + I TDGSI D++ AS IL L MFI KK Sbjct: 183 VKYKIDNCSINKNSNYESLLLEIKTDGSINPRDALTNASNILIQHLKMFIYETRKKK 239 >gi|161833842|ref|YP_001598038.1| DNA-directed RNA polymerase subunit alpha [Candidatus Sulcia muelleri GWSS] gi|152206332|gb|ABS30642.1| DNA-directed RNA polymerase, alpha subunit [Candidatus Sulcia muelleri GWSS] Length = 239 Score = 176 bits (447), Expect = 4e-42, Method: Composition-based stats. Identities = 85/237 (35%), Positives = 133/237 (56%), Gaps = 6/237 (2%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K + + + + L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFKQSKNLRVLKLTPEEGLFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT-----IFKRGPGVVTAGDI-QTV 122 HE S+IKGV ED+T+IILN+K + K + + I +TAGD+ + + Sbjct: 63 NHEFSTIKGVIEDMTEIILNLKKVRFKKNKKKENFESEVFNMIISNDKEEITAGDLGKYI 122 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 N ++LNPD +I N + + + + KG GYVP++ ++ G I +D++++PIK Sbjct: 123 NKFDILNPDLIILNKQKLISLDISIVIKKGIGYVPSEENKENLIGSGSIPMDSIFTPIKN 182 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 V Y +++ + +Y+ L + I TDGSI D++ AS IL L MFI KK Sbjct: 183 VKYKIDNCSINKNSNYESLLLEIKTDGSINPRDALTNASNILIQHLKMFIYETRKKK 239 >gi|119668329|emb|CAK95464.1| RNA polymerase alpha subunit [Lactobacillus iners] Length = 188 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 81/183 (44%), Positives = 122/183 (66%) Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE S+I GV ED+T IILN+K + LK+ D K V I GP VVTA D++ D Sbjct: 2 IDGVLHEFSTIPGVREDVTKIILNLKKLELKLLVDEEKMVEIDVEGPAVVTAADLKVDAD 61 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +E+LNPD IC + + M + + G GY+PA +++++ PIG+I +D+L+SPIKKV+ Sbjct: 62 VEILNPDQYICTIAEGGHLHMSIAIKNGRGYIPASENKSDDMPIGVIPVDSLFSPIKKVN 121 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 Y VE+AR G+ DYDKL++ + TDGSIT D+++ A++IL++ +F++ + + Sbjct: 122 YQVENARVGKRDDYDKLTLELWTDGSITPNDALSFAAKILEEHFKVFMSADMSDQFANVM 181 Query: 245 INV 247 I Sbjct: 182 IEK 184 >gi|162751059|gb|ABY19884.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 72/146 (49%), Positives = 105/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R E+TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAEMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|150186909|emb|CAK30125.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 171 Score = 176 bits (446), Expect = 5e-42, Method: Composition-based stats. Identities = 76/171 (44%), Positives = 117/171 (68%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAG Sbjct: 1 AAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAG 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T +DIE++NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y Sbjct: 61 DILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L Sbjct: 121 TPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHL 171 >gi|162751067|gb|ABY19888.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 175 bits (445), Expect = 6e-42, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSIRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|150187170|emb|CAK30186.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 183 Score = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 75/183 (40%), Positives = 123/183 (67%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 A+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGD Sbjct: 1 AVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELDVEGPAEVTAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T +DIE++NPDH + + ++ +TV+K GY+PA+ ++ ++ P+G + +D++Y+ Sbjct: 61 ILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYIPAEGNKKDDAPVGTLAVDSIYT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 121 PVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVA 180 Query: 239 KEV 241 K Sbjct: 181 KAT 183 >gi|162751159|gb|ABY19934.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 175 bits (444), Expect = 8e-42, Method: Composition-based stats. Identities = 72/146 (49%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R E+TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAEMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D+ Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSNYT 146 >gi|154424809|emb|CAL18507.1| RNA polymerase alpha subunit [Streptococcus iniae] Length = 174 Score = 175 bits (444), Expect = 9e-42, Method: Composition-based stats. Identities = 74/174 (42%), Positives = 121/174 (69%) Query: 58 AAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 AA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAG Sbjct: 1 AAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELDVEGPAEVTAG 60 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 DI T +DIE++NPDH + + ++ +TV+K GY+PA+ ++ ++ P+G + +D++Y Sbjct: 61 DILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYIPAEGNKKDDAPVGTLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 TPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLF 174 >gi|150187076|emb|CAK30165.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 191 Score = 175 bits (444), Expect = 9e-42, Method: Composition-based stats. Identities = 78/187 (41%), Positives = 123/187 (65%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI Sbjct: 1 TSIKIDGVLHEFDTIPGVREDVMQIILNLKGLAVKSYVEDEKTMELDVEGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + A ++ LTV+ GYVPA+ ++ ++ P+G + ID++Y+P+ Sbjct: 61 TDSDIEIVNPDHYLFTIADGASMKATLTVATNRGYVPAEENKNDSAPVGTLAIDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 KKVNYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDLTEVAKT 180 Query: 241 VKEDINV 247 + Sbjct: 181 TEVMKET 187 >gi|108792431|emb|CAJ44678.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 196 Score = 175 bits (444), Expect = 9e-42, Method: Composition-based stats. Identities = 79/196 (40%), Positives = 124/196 (63%), Gaps = 2/196 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K + + Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMV 180 Query: 246 NVKSLPFNPALLKKVE 261 + L +E Sbjct: 181 EKEETHKEKMLEMTIE 196 >gi|162751024|gb|ABY19867.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751133|gb|ABY19921.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751181|gb|ABY19945.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] Length = 146 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADKNKVDGAPIGTIAVDSIYT 146 >gi|162751111|gb|ABY19910.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGWPIGTIAVDSIYT 146 >gi|150187135|emb|CAK30178.1| RNA polymerase alpha subunit [Streptococcus oralis ATCC 35037] Length = 177 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 76/175 (43%), Positives = 119/175 (68%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 A+T++ IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP +TAGD Sbjct: 1 AVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T +DIE++NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+ Sbjct: 61 ILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F N Sbjct: 121 PVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTN 175 >gi|150187117|emb|CAK30174.1| RNA polymerase alpha subunit [Streptococcus infantarius subsp. infantarius ATCC BAA-102] Length = 187 Score = 175 bits (443), Expect = 1e-41, Method: Composition-based stats. Identities = 77/187 (41%), Positives = 122/187 (65%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI Sbjct: 1 VTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P Sbjct: 61 LTDSDVEIVNPDHYLFTIAEGHSLKAIMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAK 180 Query: 240 EVKEDIN 246 Sbjct: 181 NTDVMKE 187 >gi|71894584|ref|YP_278692.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma synoviae 53] gi|123747931|sp|Q4A5J0|RPOA_MYCS5 RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|71851372|gb|AAZ43981.1| DNA-directed RNA polymerase subunit alpha [Mycoplasma synoviae 53] Length = 333 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 76/331 (22%), Positives = 146/331 (44%), Gaps = 25/331 (7%) Query: 9 LIKPNNIEYIVL---GQEEENRTLMI-AEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + K I++ ++ + + ++ + L RGF +TL ALRR+L+S++ G A V+ Sbjct: 1 MEKLTKIKHRIIPAKDSQNNSYKKVLKIKGLERGFGNTLAVALRRILLSNITGIAPFCVR 60 Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR-----VTIFKRGPGVVTAGDI 119 I+GV HE ++++ V ED+ I+ N+K + L D K +++ +T+ + Sbjct: 61 IEGVEHEFTALEKVSEDIVTILSNLKKVVLNYDEDYVKDNQIIKLSLNANEDNRITSNHL 120 Query: 120 QTV--NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI--------- 168 +EV N D I L V+++E+ + G GYV + ++ + Sbjct: 121 TVTNAPRVEVQNKDVEIATLSKPGVLKLEMFLRAGRGYVDFEDNKKFIEEKEKELKELSS 180 Query: 169 ----GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 I +D+++SP+ V++ V + ++L + ++T +T E ++ LA +IL Sbjct: 181 LSKGAFIAMDSVFSPVVNVAWKVTELNTASLKIEEQLELELETKLGVTPESAIKLACKIL 240 Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + + + + + K ++ L LS+RS N L I + +L Sbjct: 241 VAHFQTIGDLTDLDSD-EIFQSEKQSLEKEEDDMEIRLLNLSMRSQNALAKSGIKTLNEL 299 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 + + N G KS EI L G Sbjct: 300 ASYPIEKLKEIKNLGEKSREEIIRKLNEYGK 330 >gi|162751008|gb|ABY19859.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751010|gb|ABY19860.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751012|gb|ABY19861.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751014|gb|ABY19862.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751016|gb|ABY19863.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751018|gb|ABY19864.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751020|gb|ABY19865.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751028|gb|ABY19869.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751030|gb|ABY19870.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] gi|162751034|gb|ABY19872.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] gi|162751036|gb|ABY19873.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751039|gb|ABY19874.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751041|gb|ABY19875.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751043|gb|ABY19876.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751045|gb|ABY19877.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751047|gb|ABY19878.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751049|gb|ABY19879.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751053|gb|ABY19881.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751055|gb|ABY19882.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751057|gb|ABY19883.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751061|gb|ABY19885.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751063|gb|ABY19886.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751065|gb|ABY19887.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751069|gb|ABY19889.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751071|gb|ABY19890.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751073|gb|ABY19891.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751075|gb|ABY19892.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751077|gb|ABY19893.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751079|gb|ABY19894.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751081|gb|ABY19895.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751083|gb|ABY19896.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751085|gb|ABY19897.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751087|gb|ABY19898.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751089|gb|ABY19899.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751091|gb|ABY19900.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751093|gb|ABY19901.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751095|gb|ABY19902.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751097|gb|ABY19903.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751099|gb|ABY19904.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751101|gb|ABY19905.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751103|gb|ABY19906.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751105|gb|ABY19907.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751107|gb|ABY19908.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751109|gb|ABY19909.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751113|gb|ABY19911.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751115|gb|ABY19912.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751117|gb|ABY19913.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751119|gb|ABY19914.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751123|gb|ABY19916.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751125|gb|ABY19917.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751127|gb|ABY19918.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751129|gb|ABY19919.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751131|gb|ABY19920.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751137|gb|ABY19923.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751139|gb|ABY19924.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751141|gb|ABY19925.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751143|gb|ABY19926.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751145|gb|ABY19927.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751149|gb|ABY19929.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751153|gb|ABY19931.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751157|gb|ABY19933.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751161|gb|ABY19935.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751163|gb|ABY19936.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751165|gb|ABY19937.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751169|gb|ABY19939.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751173|gb|ABY19941.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] gi|162751175|gb|ABY19942.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] gi|162751177|gb|ABY19943.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] gi|164458717|gb|ABY57708.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 174 bits (442), Expect = 1e-41, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|154424783|emb|CAL18494.1| RNA polymerase alpha subunit [Streptococcus equi subsp. equi] Length = 171 Score = 174 bits (442), Expect = 2e-41, Method: Composition-based stats. Identities = 74/171 (43%), Positives = 119/171 (69%) Query: 56 RGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT 115 GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VT Sbjct: 1 PGAAVTSIRIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEVT 60 Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDA 175 AGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D+ Sbjct: 61 AGDILTDSDIELVNPDHYLFTIADGYTLKASMTVAKKRGYVPAEGNKKDDAPVGTLAVDS 120 Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 +Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 IYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIE 171 >gi|162751151|gb|ABY19930.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQILLGVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|108792433|emb|CAJ44679.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 194 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 78/193 (40%), Positives = 122/193 (63%), Gaps = 2/193 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K + + Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMV 180 Query: 246 NVKSLPFNPALLK 258 + L Sbjct: 181 EKEETHKEKMLEM 193 >gi|150186998|emb|CAK30146.1| RNA polymerase alpha subunit [Streptococcus orisratti] Length = 199 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 75/199 (37%), Positives = 126/199 (63%) Query: 59 AITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGD 118 A+T+++IDGVLHE +I GV ED+ IILNIKG+ +K + K + + GP +TAGD Sbjct: 1 AVTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKIIELDVEGPAEITAGD 60 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 I T +DIE++NP+H + + ++ +TV+ GYVPA+ ++ ++ P+G + +D++Y+ Sbjct: 61 ILTDSDIEIVNPNHYLFTIAEGHSLKATMTVNTNRGYVPAEGNKKDDAPVGTLAVDSIYT 120 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + Sbjct: 121 PVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDAIGLSARVLIEHLNLFTDLTDVA 180 Query: 239 KEVKEDINVKSLPFNPALL 257 K V+ + L Sbjct: 181 KATDVMKEVEKVNDEKVLD 199 >gi|162751135|gb|ABY19922.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 174 bits (441), Expect = 2e-41, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +G+VPA ++ + PIG I +D++Y+ Sbjct: 121 YGFVPADENKVDGAPIGTIAVDSIYT 146 >gi|150187052|emb|CAK30160.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. pharyngis] Length = 150 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 69/150 (46%), Positives = 106/150 (70%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 N+LRRVL++SL GAA+T++ I+GVLHE ++ GV ED+ IILN+KGI +K + K + Sbjct: 1 NSLRRVLLASLPGAAVTSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTI 60 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + GP +TAGDI T +DIE++NPDH + + A ++ +TV+ G GYVPA ++ + Sbjct: 61 ELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIGEGASLKAIMTVNAGRGYVPADENKKD 120 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 121 DSPVGTLAVDSIYTPVKKVNYQVEPARVGS 150 >gi|108792429|emb|CAJ44677.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 187 Score = 174 bits (440), Expect = 2e-41, Method: Composition-based stats. Identities = 77/186 (41%), Positives = 121/186 (65%), Gaps = 2/186 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE SSI GV ED+T IILN+K + LK++ + + + I GP VTAGDIQ +++EV Sbjct: 1 VLHEFSSIDGVLEDVTTIILNLKKVALKLNSEDVQTLEIDVTGPMEVTAGDIQGSSEVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSY 185 LNPD IC + A +T +KG GYV A +TE+ PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ + K + + Sbjct: 121 QVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVDLTDEAKNAEIMV 180 Query: 246 NVKSLP 251 + Sbjct: 181 EKEETH 186 >gi|189095413|ref|YP_001936426.1| DNA-directed RNA polymerase alpha subunit [Heterosigma akashiwo] gi|157694756|gb|ABV66032.1| DNA-directed RNA polymerase alpha subunit [Heterosigma akashiwo] gi|157777987|gb|ABV70173.1| DNA-directed RNA polymerase alpha subunit [Heterosigma akashiwo] Length = 402 Score = 174 bits (440), Expect = 3e-41, Method: Composition-based stats. Identities = 69/227 (30%), Positives = 118/227 (51%), Gaps = 13/227 (5%) Query: 14 NIEYIVLGQEEEN--RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 IE + Q E N + L G T+G+ALRRVL++ L G AI ++I + E Sbjct: 3 KIEILESDQNEYNEQYGKFLINSLHPGQGTTVGSALRRVLLTDLPGLAIVGLRIANINTE 62 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV---TIFKRGPGVVTAG--DIQTVNDIE 126 SS+ GV ED+ +IILN+K I ++ +S K + +GPGVVTA + + +I+ Sbjct: 63 FSSLPGVREDILEIILNVKDIVIEGEFNSSKPWVLGRLKLKGPGVVTAALIEFEEDANIQ 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++NP I ++V++ + ME V G Y + + + IDA++ P+ KV++ Sbjct: 123 IINPSQYIATIEVNSSIEMEFLVQTGKNYRLVESENSITYSTDFLQIDAIFMPVTKVAFE 182 Query: 187 VESA------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 V S + D + L++ I T+GSI+ ++ ++ IL++ Sbjct: 183 VTSTKTNALENNSSIQDNENLTLEIWTNGSISPIKALVFSASILENL 229 Score = 77.7 bits (190), Expect = 2e-12, Method: Composition-based stats. Identities = 24/79 (30%), Positives = 40/79 (50%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + + ++E + +EEL LSVR+ N L+ NI + DL+Q + D+ Sbjct: 318 SKSEPSIEEKRENVTSNERNLSQMPIEELILSVRAYNGLKRANIHSVSDLVQYSIKDLKD 377 Query: 295 MANFGRKSLVEIKGVLGTM 313 + NFG+KSL E+ L + Sbjct: 378 IKNFGKKSLDEVVASLKNL 396 >gi|162751167|gb|ABY19938.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 174 bits (440), Expect = 3e-41, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN++RRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSMRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|154424757|emb|CAL18481.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 173 bits (439), Expect = 3e-41, Method: Composition-based stats. Identities = 77/184 (41%), Positives = 120/184 (65%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T++ I+GVLHE ++ GV ED+ IILN+KGI +K + K + + GP +TAGDI Sbjct: 1 TSINIEGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+ Sbjct: 61 TDSDIEIVNPDHYLFTIGEGASLKAIMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAKS 180 Query: 241 VKED 244 Sbjct: 181 TDVM 184 >gi|162751121|gb|ABY19915.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++ I+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIHIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|162751006|gb|ABY19858.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 173 bits (438), Expect = 4e-41, Method: Composition-based stats. Identities = 71/146 (48%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVKTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKVDGAPIGTIAVDSIYT 146 >gi|162751051|gb|ABY19880.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 172 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ + +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMLAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVPA ++ + PIG I +D++Y+ Sbjct: 121 YGYVPADENKFDGAPIGTIAVDSIYT 146 >gi|162751032|gb|ABY19871.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] gi|162751147|gb|ABY19928.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] gi|162751179|gb|ABY19944.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis bv. diacetylactis] Length = 146 Score = 172 bits (437), Expect = 5e-41, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +GYVP ++ + PIG I +D++Y+ Sbjct: 121 YGYVPDDENKVDGAPIGTIAVDSIYT 146 >gi|154424773|emb|CAL18489.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 182 Score = 172 bits (436), Expect = 6e-41, Method: Composition-based stats. Identities = 75/182 (41%), Positives = 117/182 (64%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T++ I+GVLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI Sbjct: 1 VTSINIEGVLHEFDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +DIE++NPDH + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P Sbjct: 61 LTDSDIEIVNPDHYLFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 + KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 VTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVAI 180 Query: 240 EV 241 Sbjct: 181 ST 182 >gi|154424785|emb|CAL18495.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 175 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 76/173 (43%), Positives = 120/173 (69%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI Sbjct: 1 TSIKIDGVLHEFDTIPGVREDVMQIILNLKGLAVKSYVEDEKTMELDVEGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + A ++ LTV+ GYVPA+ ++ ++ P+G + ID++Y+P+ Sbjct: 61 TDSDIEIVNPDHYLFTIADGASMKATLTVATNRGYVPAEENKNDSAPVGTLAIDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 KKV+Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTD 173 >gi|119672811|emb|CAK95486.1| RNA polymerase alpha subunit [Lactobacillus farciminis] Length = 172 Score = 172 bits (436), Expect = 7e-41, Method: Composition-based stats. Identities = 69/170 (40%), Positives = 116/170 (68%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 QIDGVLHE S+I GV ED+T I+LN+K + LK + + + GP VTA DI+ + Sbjct: 1 QIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYAEDSLKAEVDIVGPATVTAKDIKADD 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E+L+P+ IC + M++T+ G GY PA+ ++T+ PIG++ +D++++P++KV Sbjct: 61 DLEILDPEQFICTVAEGGHFHMQMTIKNGRGYTPAEQNKTDETPIGVLPVDSIFTPVEKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL + L F+N Sbjct: 121 NYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILTEHLNSFVN 170 >gi|150036712|emb|CAM98020.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 181 Score = 172 bits (435), Expect = 9e-41, Method: Composition-based stats. Identities = 74/178 (41%), Positives = 113/178 (63%), Gaps = 2/178 (1%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 + VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+ Sbjct: 1 VNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADL 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALY 177 Q D+EVLNPD I + + M +T KG GY A ++ + PIG++ +D++Y Sbjct: 61 QAGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L S+IL + L +F++ Sbjct: 121 TPIERVNYHVENTRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDIS 178 >gi|154424779|emb|CAL18492.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. equisimilis] Length = 179 Score = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 74/179 (41%), Positives = 121/179 (67%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI Sbjct: 1 VTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKILELEVEGPAEVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +DIE++NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P Sbjct: 61 LTDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLKLFTDLTDVA 179 >gi|154424765|emb|CAL18485.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 188 Score = 172 bits (435), Expect = 1e-40, Method: Composition-based stats. Identities = 75/187 (40%), Positives = 122/187 (65%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI Sbjct: 1 TSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+ Sbjct: 61 TDSDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKA 180 Query: 241 VKEDINV 247 + Sbjct: 181 TEVMKET 187 >gi|162751171|gb|ABY19940.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 69/146 (47%), Positives = 104/146 (71%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +G+VPA ++ + PIG I ++++Y+ Sbjct: 121 YGFVPADENKVDGAPIGTIAVNSIYT 146 >gi|162751155|gb|ABY19932.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. cremoris] Length = 146 Score = 171 bits (434), Expect = 1e-40, Method: Composition-based stats. Identities = 69/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++ DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVTKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 +G+VPA ++ + PIG I +D++Y+ Sbjct: 121 YGFVPADENKVDGAPIGTIAVDSIYT 146 >gi|162751022|gb|ABY19866.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 + YVPA ++ + PIG I +D++Y+ Sbjct: 121 YRYVPADENKVDGAPIGTIAVDSIYT 146 >gi|222139917|ref|YP_002519985.1| RNA polymerase alpha chain [Ephedra equisetina] gi|220983586|dbj|BAH11353.1| RNA polymerase alpha chain [Ephedra equisetina] Length = 258 Score = 171 bits (433), Expect = 1e-40, Method: Composition-based stats. Identities = 64/260 (24%), Positives = 113/260 (43%), Gaps = 10/260 (3%) Query: 6 WQELIK----PN-NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 W EL P + + PL +G A+TL A+R+ L+ ++G I Sbjct: 3 WNELKTAESSPRWKCLESRTDSKRSHYGRFSISPLFKGQANTLAIAIRKTLLQEVKGTYI 62 Query: 61 TAVQID-GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 T + +LHE SSI G+ E + DI++N+K I L+ +I GP VTA DI Sbjct: 63 TYARFQKNILHEYSSIIGIKESVHDILMNLKQIVLRSELYGIHEASICTVGPKNVTAQDI 122 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 + I++++ I +L + L + K Y + ++ ID + P Sbjct: 123 ILPSSIQIIDDTQHIASLTKRIPFNVTLKIEKKKRYTIENMKQPKDI---FFPIDGVSLP 179 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 ++ V++++ S + + + L I T+G +T +++ A L D + + E+ K Sbjct: 180 VQNVNFSIHSYKSSDNI-QEMLIFEIWTNGGLTPRETIYEACWSLLDLIIPLLCVEQNIK 238 Query: 240 EVKEDINVKSLPFNPALLKK 259 ++ N SL KK Sbjct: 239 NSQKKPNPLSLVTKDRNKKK 258 >gi|162751026|gb|ABY19868.1| DNA-directed RNA polymerase alpha subunit [Lactococcus lactis subsp. lactis] Length = 146 Score = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 70/146 (47%), Positives = 103/146 (70%) Query: 33 EPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGI 92 EPL RG+ TLGN+LRRVL+SSL GAA+T++QI+GV HE ++I GV ED+ I+L +KGI Sbjct: 1 EPLERGYGTTLGNSLRRVLLSSLPGAAVTSIQIEGVQHEFATIPGVREDVIQIVLAVKGI 60 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 +K +S K++ + GP VTAGDI T +DIE++N DH + ++ +R +TV KG Sbjct: 61 AIKSYVESEKQIELDVTGPMDVTAGDILTDSDIEIVNKDHYLFSIAEGHSMRAVMTVKKG 120 Query: 153 HGYVPAKHHRTENDPIGLITIDALYS 178 + YVPA ++ + PIG I +D++Y+ Sbjct: 121 YAYVPADENKVDGAPIGTIAVDSIYT 146 >gi|154424723|emb|CAL18464.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 175 Score = 171 bits (433), Expect = 2e-40, Method: Composition-based stats. Identities = 74/173 (42%), Positives = 118/173 (68%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI Sbjct: 1 TSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +D+E++NPDH + + ++ +TV+K GYV A+ ++ E+ P+G + +D++Y+P+ Sbjct: 61 TDSDVEIVNPDHYLFTIAEGHSLKATMTVAKERGYVSAEGNKKEDAPVGTLAVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 KKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTD 173 >gi|119662839|emb|CAJ33212.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 151 Score = 170 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 70/151 (46%), Positives = 99/151 (65%) Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLN Sbjct: 1 HEFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLN 60 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES 189 PD IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 61 PDQYICTIAEGGHLHMELAVKNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVES 120 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 R G+ D+DKL+ I TDGSI D+++ A Sbjct: 121 TRVGKRDDFDKLTFEIWTDGSIKPNDALSFA 151 >gi|154424771|emb|CAL18488.1| RNA polymerase alpha subunit [Streptococcus cristatus] Length = 181 Score = 170 bits (432), Expect = 2e-40, Method: Composition-based stats. Identities = 75/181 (41%), Positives = 116/181 (64%) Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ 120 T++ I+GVLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI Sbjct: 1 TSINIEGVLHEFDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDIL 60 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI 180 T +DIE++NPDH + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ Sbjct: 61 TDSDIEIVNPDHYLFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPV 120 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 TKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVAIS 180 Query: 241 V 241 Sbjct: 181 T 181 >gi|150186920|emb|CAK30128.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 177 Score = 170 bits (430), Expect = 3e-40, Method: Composition-based stats. Identities = 75/177 (42%), Positives = 118/177 (66%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E++NPDH + + ++ +T++K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTIAKNRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKN 177 >gi|119662331|emb|CAJ33154.1| RNA polymerase alpha subunit [Lactobacillus nagelii] Length = 175 Score = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 73/175 (41%), Positives = 120/175 (68%), Gaps = 2/175 (1%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE S+IKGV ED+T IILN+K + LK+ + + + I GP VTA DIQ +++ Sbjct: 1 DGVLHEFSTIKGVREDVTQIILNLKKVALKIDSEEDQALEIDVTGPLDVTASDIQGSSEV 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKV 183 EVLN D +C++ A + + + +KG GYV A ++T ++ PIG++ ID++Y+PI++V Sbjct: 61 EVLNKDLYLCSVAEGASLHVRMNANKGRGYVSADENKTKADDMPIGVLPIDSIYTPIERV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 +Y VE R GQ DYDKL++ + T+GSI+ ++++L+++IL + L +F++ + Sbjct: 121 NYQVEKTRVGQKNDYDKLTLDVWTNGSISPSEAISLSAKILTEHLTLFVDLTDEA 175 >gi|150036742|emb|CAM98025.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 178 Score = 169 bits (429), Expect = 5e-40, Method: Composition-based stats. Identities = 74/178 (41%), Positives = 114/178 (64%), Gaps = 2/178 (1%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 + VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+ Sbjct: 1 VNTVQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQGPADVTAADL 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALY 177 Q D+EVLNPD I + + M +T KG GY A ++ + PIG++ +D++Y Sbjct: 61 QGGADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIY 120 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 +PI++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 121 TPIERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDIS 178 >gi|117575081|emb|CAJ84780.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 159 Score = 169 bits (428), Expect = 6e-40, Method: Composition-based stats. Identities = 67/159 (42%), Positives = 106/159 (66%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I GV ED+T IILN+K + LK K I GP VTAGD++ +++++LNPD Sbjct: 1 FSTIPGVLEDVTQIILNLKKLTLKSIAADEKLAEIDVEGPATVTAGDLKVDDEVQILNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 I + A ++M + + +G GYVPA +++++ PIG++ +D+L+SPI+KV+Y VE R Sbjct: 61 QYIATVAEGAHLQMTVAIKQGRGYVPADQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 G+ DYDKL+M + TDGSIT D+++ ++IL + L + Sbjct: 121 VGRNNDYDKLTMEVWTDGSITPNDALSFGAKILTEHLNV 159 >gi|154424787|emb|CAL18496.1| RNA polymerase alpha subunit [Streptococcus ferus] Length = 177 Score = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 77/177 (43%), Positives = 119/177 (67%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNLKGLAVKSYVEDEKTMELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIE++NPDH + + A ++ LTV+ GYVPA+ ++ ++ P+G + ID++Y+P+KKV Sbjct: 61 DIEIVNPDHYLFTIADGASMKATLTVATNRGYVPAEENKNDSAPVGTLAIDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 +Y VE AR G +YDKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSKDNYDKLTIEIMTNGTIIPEDALGLSARVLMEHLNLFTDLTEVAKT 177 >gi|289524820|emb|CBJ94466.1| alpha subunit of RNA polymerase [Vibrio sp. C15.18] Length = 173 Score = 169 bits (427), Expect = 8e-40, Method: Composition-based stats. Identities = 74/176 (42%), Positives = 114/176 (64%), Gaps = 6/176 (3%) Query: 145 MELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M + V +G GYVPA H + PIG + +DA YSP+ K++Y VE+AR Q D DKL Sbjct: 1 MRIKVERGRGYVPASARIHTEEDERPIGRLLVDATYSPVDKIAYAVEAARVEQRTDLDKL 60 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T+G++ E+++ A+ IL +QL F++ + + +++ + P LL+ V+ Sbjct: 61 VIDMETNGTLEPEEAIRRAATILAEQLDAFVDLRDVRVPEEKEEKPEFDP---ILLRPVD 117 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 118 DLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 173 >gi|154424735|emb|CAL18470.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 168 Score = 169 bits (427), Expect = 9e-40, Method: Composition-based stats. Identities = 73/168 (43%), Positives = 115/168 (68%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E++NPDH + + ++ +T++K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTIAKNRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 NYQVEPARVGSNDGFDKLTLEIMTNGTIIPEDALGLSARVLIEHLNLF 168 >gi|150187014|emb|CAK30151.1| RNA polymerase alpha subunit [Streptococcus sinensis] Length = 171 Score = 169 bits (427), Expect = 9e-40, Method: Composition-based stats. Identities = 73/171 (42%), Positives = 114/171 (66%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T++ I+GVLHE +I GV ED+ IILNIKGI +K K + + GP VTAGDI Sbjct: 1 VTSINIEGVLHEFDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAAVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +DIE++NPDH + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P Sbjct: 61 LTDSDIEIINPDHYLFTISEGASFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + KV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + L + Sbjct: 121 VTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNL 171 >gi|289571691|ref|ZP_06451918.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis T17] gi|289545445|gb|EFD49093.1| DNA-directed RNA polymerase subunit alpha rpoA [Mycobacterium tuberculosis T17] Length = 130 Score = 168 bits (426), Expect = 9e-40, Method: Composition-based stats. Identities = 53/116 (45%), Positives = 78/116 (67%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 +IILN+K + + D + + K+GPG VTAGDI + V NP I + + Sbjct: 75 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPAGVTVHNPGMHIAHAER 130 >gi|154424799|emb|CAL18502.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 167 Score = 168 bits (426), Expect = 1e-39, Method: Composition-based stats. Identities = 72/167 (43%), Positives = 116/167 (69%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI Sbjct: 1 VTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELDVEGPAEVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P Sbjct: 61 LTDSDIEIVNPDHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++RIL + Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTVEIMTNGTIIPEDALGLSARILIE 167 >gi|119662327|emb|CAJ33151.1| RNA polymerase alpha subunit [Lactobacillus lindneri] Length = 191 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 79/191 (41%), Positives = 118/191 (61%), Gaps = 4/191 (2%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQTVNDI 125 VLHE S++KGV ED+T IILN+K I LK+ D + ++I GP VTAGDI T +D Sbjct: 1 VLHEFSTVKGVTEDVTKIILNLKKIKLKIESDDNDLHTMSINVTGPADVTAGDIVTDSDT 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKV 183 +LNPD I + A + M +T +KG GYV A R ++ PIG++ +D++Y+PI++V Sbjct: 61 TILNPDLHIATVAEGATLHMTMTANKGRGYVSAEENKARNDDMPIGVLPVDSIYTPIERV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 +Y VE R GQ D+DKL++ + TDGSIT DS++LA++IL L MF+ + ++ Sbjct: 121 NYQVEDTRVGQRDDFDKLTLDVWTDGSITPSDSISLAAKILSQHLDMFVGLTDRAQKANV 180 Query: 244 DINVKSLPFNP 254 + + Sbjct: 181 MVEKEESHKEK 191 >gi|154424811|emb|CAL18508.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 168 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 74/168 (44%), Positives = 114/168 (67%) Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 I+GVLHE ++ GV ED+ IILNIKGI +K + K + + GP VTAGDI T +D Sbjct: 1 IEGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEGEKTIELDVEGPAEVTAGDILTDSD 60 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 IE++NP+H + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+ Sbjct: 61 IEIVNPNHYLFTIGEGASLKAVMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVN 120 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 Y VE AR G +DKL++ I TDG+I ED++ L++RIL + L +F Sbjct: 121 YQVEPARVGSNDSFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFT 168 >gi|150036720|emb|CAM98251.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. cremoris] Length = 176 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 74/173 (42%), Positives = 113/173 (65%), Gaps = 2/173 (1%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 VQIDGV+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q Sbjct: 3 VQIDGVVHEFSTVDGVVEDVTQIILNLKKVVLAIESDDERSLEIDIQGPADVTAADLQGG 62 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPI 180 D+EVLNPD I + + M +T KG GY A ++ + PIG++ +D++Y+PI Sbjct: 63 ADVEVLNPDLHIATVAAGKSLHMTVTAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPI 122 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 ++V+Y VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 123 ERVNYQVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMD 175 >gi|154424807|emb|CAL18506.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] Length = 167 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 73/167 (43%), Positives = 116/167 (69%) Query: 60 ITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDI 119 +T+++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI Sbjct: 1 VTSIKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDI 60 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 T +D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P Sbjct: 61 LTDSDVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTP 120 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 +KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 VKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIE 167 >gi|154424823|emb|CAL18514.1| RNA polymerase alpha subunit [Streptococcus mutans] Length = 176 Score = 168 bits (425), Expect = 1e-39, Method: Composition-based stats. Identities = 76/176 (43%), Positives = 118/176 (67%) Query: 65 IDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 IDGVLHE +I GV ED+ IILNIKG+ +K + K V + GP +TAGDI T +D Sbjct: 1 IDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEEEKIVELDVEGPAEITAGDILTDSD 60 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 IE++NPDH + + A ++ +TV+ GYVPA+ ++ ++ P+G + ID++Y+P+KKV+ Sbjct: 61 IEIVNPDHYLFTIAEGANLKATMTVATNRGYVPAEKNKRDDAPVGTLAIDSIYTPVKKVN 120 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKE 240 Y VE AR G ++DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 YQVEPARVGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKA 176 >gi|119663532|emb|CAK22337.1| RNA polymerase alpha subunit [Lactobacillus sharpeae] Length = 164 Score = 167 bits (424), Expect = 2e-39, Method: Composition-based stats. Identities = 75/164 (45%), Positives = 111/164 (67%) Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T IILNIK + LKM GD K I GP VTA DI+T D++VLNP+ IC + Sbjct: 1 EDVTQIILNIKKLALKMHGDGEKTAEINIEGPATVTAADIKTDADVDVLNPEQYICTVAE 60 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A + M +TV G GYVPA ++T++ PIG+I +D++++PI +V+Y VESAR G+ D+D Sbjct: 61 GAELHMRMTVKSGRGYVPAVQNKTDDMPIGVIAVDSIFTPISRVNYQVESARVGRRSDFD 120 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 KL++ + T+GSI +++ALA++IL D L +F+N + K + Sbjct: 121 KLTLDVWTNGSINPREAIALAAKILTDHLAIFVNLTDDAKNTEI 164 >gi|154424791|emb|CAL18498.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 172 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 74/170 (43%), Positives = 116/170 (68%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTD 170 >gi|154424789|emb|CAL18497.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 169 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 74/169 (43%), Positives = 115/169 (68%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFT 169 >gi|150186912|emb|CAK30126.1| RNA polymerase alpha subunit [Streptococcus lutetiensis] gi|154424793|emb|CAL18499.1| RNA polymerase alpha subunit [Streptococcus gallolyticus subsp. gallolyticus] Length = 171 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 74/170 (43%), Positives = 116/170 (68%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 D+E++NPDH + + ++ +TV+K GYVPA+ ++ E+ P+G + +D++Y+P+KKV Sbjct: 61 DVEIVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + Sbjct: 121 NYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTD 170 >gi|119668277|emb|CAK95449.1| RNA polymerase alpha subunit [Lactobacillus acidophilus] Length = 150 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 69/150 (46%), Positives = 98/150 (65%) Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + LK D K + + GP VTA D++ D++VLNP Sbjct: 1 EFSTVPGVREDVTKIILNLKKLELKSLSDEQKVIELDVEGPATVTADDLKVDADVQVLNP 60 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 D IC + + MEL V G GYV A +++++ PIG+I +D+L+SPIKKV+Y VES Sbjct: 61 DQYICTIAEGGHLHMELAVKNGRGYVAASDNKSDDMPIGVIPVDSLFSPIKKVNYQVEST 120 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALA 220 R G+ D+DKL+ I TDGSI D+++ A Sbjct: 121 RVGKRDDFDKLTFEIWTDGSIKPNDALSFA 150 >gi|13560647|gb|AAK30140.1|AF346704_1 DNA-directed RNA polymerase [Fucus vesiculosus] Length = 226 Score = 167 bits (423), Expect = 2e-39, Method: Composition-based stats. Identities = 58/227 (25%), Positives = 118/227 (51%), Gaps = 5/227 (2%) Query: 9 LIKPNNIEYIVLG--QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 ++ + + + L E + L + +T+GN LRR L+S+L G I V+ Sbjct: 1 MLMSSKCKCVDLDLLNTNEFYGHFVFTALKKSQGNTIGNVLRRTLLSNLYGFRIVGVRFA 60 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINL--KMSGDSHKRVTIFKRGPGVVTAGDIQTVND 124 G+ +E + ++GV EDL +IILN+K I + D + GP V+TAG ++ N+ Sbjct: 61 GINNEFALLEGVREDLFEIILNLKEIIILNSNRIDQTCYGRLKVYGPAVITAGSLELPNN 120 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 +++LNP++ + + ++++ +E+ + G Y+ AK + E + I ID+ ++P+ KV+ Sbjct: 121 VKILNPNNHLLTISDESLIEIEVKIEAGKSYILAKDQKLEG-ALDFIPIDSNFAPVLKVN 179 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 + + S + ++L + I T+G++ ++ A ++ L Sbjct: 180 WYIISLPQDGESINEELHLEIYTNGTLLPHQALLQARTMIGYMLSPI 226 >gi|154424825|emb|CAL18515.1| RNA polymerase alpha subunit [Streptococcus parasanguinis] Length = 167 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 72/167 (43%), Positives = 111/167 (66%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 +GVLHE ++ GV ED+ IILN+KGI +K K + + GP VTAGDI T +DI Sbjct: 1 EGVLHEFDTVPGVREDVMQIILNVKGIAVKSYVQDEKIIELDVEGPAEVTAGDILTDSDI 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NPDH + + A ++ LTV+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y Sbjct: 61 EIVNPDHYLFTIGEGASLKATLTVNSGRGYVPADQNKKDDAPVGTLAVDSIYTPVTKVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 VE AR G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 QVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFT 167 >gi|58758774|gb|AAW81778.1| RNA polymerase alpha subunit [Andreaea rupestris] Length = 195 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 48/178 (26%), Positives = 84/178 (47%), Gaps = 3/178 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + E + + P G A+T+G A+RR L+ + G IT + V HE S+I G+ Sbjct: 21 KVDSERLHYSRFAISPFRCGQANTVGIAMRRALLGEIEGTCITCAKFKKVTHEYSTILGI 80 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 E + DI++N K I LK + ++ I GP +TA DI +++++ I L Sbjct: 81 QESVHDILINSKEIVLKSNSYETQKAFISILGPKKITAQDIILPPSVKIIDTTQYIATLT 140 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + +E + K GY ++ + GL +DA++ PI+ +Y++ S Sbjct: 141 KAIHLDIESEIEKDCGYRIQDSKKSTD---GLFFVDAVFMPIRNANYSIHSFENKNKT 195 >gi|119662853|emb|CAJ33219.1| RNA polymerase alpha subunit [Lactobacillus farciminis KCTC 3681] Length = 164 Score = 167 bits (422), Expect = 3e-39, Method: Composition-based stats. Identities = 66/162 (40%), Positives = 112/162 (69%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 +QIDGVLHE S+I GV ED+T I+LN+K + LK + + + GP VTA DI+ Sbjct: 2 IQIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYAEDSLKAEVDIVGPATVTAKDIKAD 61 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +D+E+L+P+ IC + M++T+ G GY PA+ ++T+ PIG++ +D++++P++K Sbjct: 62 DDLEILDPEQFICTVAEGGHFHMQMTIKNGRGYTPAEQNKTDETPIGVLPVDSIFTPVEK 121 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 V+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL Sbjct: 122 VNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKIL 163 >gi|150187152|emb|CAK30182.1| RNA polymerase alpha subunit [Streptococcus vestibularis ATCC 49124] Length = 190 Score = 166 bits (420), Expect = 5e-39, Method: Composition-based stats. Identities = 72/190 (37%), Positives = 118/190 (62%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 DGVLHE ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DI Sbjct: 1 DGVLHEFDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDI 60 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 E++NPDH + + A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+KKV+Y Sbjct: 61 EIVNPDHYLFTISEGASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 QVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATDVMK 180 Query: 246 NVKSLPFNPA 255 + + Sbjct: 181 ETEKVNDEKV 190 >gi|207092984|ref|ZP_03240771.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 235 Score = 165 bits (419), Expect = 6e-39, Method: Composition-based stats. Identities = 73/233 (31%), Positives = 123/233 (52%), Gaps = 4/233 (1%) Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +GP + A D+ + + IE++NP+ + ++ DA + L + KG GYVP+++ R E Sbjct: 3 SFKGPMELRARDLNSEH-IEIVNPEMPLATINEDAQLNFSLIIYKGMGYVPSENTR-ELM 60 Query: 167 PIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 P G + +D ++PIKKV Y +E+ +Y+K+ I+TDG I + A +++ Sbjct: 61 PEGYMPLDGSFTPIKKVVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLSAVKVMSK 120 Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 QLG+F E P ++ + L K+E + LS R NCL I Y+G+L+ Sbjct: 121 QLGVF--GERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIKYVGELVL 178 Query: 287 RTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +E ++ + N G+KS EI L +G +G L ES+++ +K EDK Sbjct: 179 MSEEELKGVKNMGKKSYDEIAEKLNDLGYPVGTELSLEQRESLKKRLEKLEDK 231 >gi|154424775|emb|CAL18490.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 169 Score = 165 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 73/169 (43%), Positives = 116/169 (68%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 ++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T Sbjct: 1 IKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTD 60 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +DIE++NPDH + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KK Sbjct: 61 SDIELVNPDHYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKK 120 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 V+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F Sbjct: 121 VNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLF 169 >gi|119668351|emb|CAK95512.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 160 Score = 165 bits (419), Expect = 7e-39, Method: Composition-based stats. Identities = 75/160 (46%), Positives = 109/160 (68%), Gaps = 2/160 (1%) Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S+++GV ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNP Sbjct: 1 EFSTVEGVTEDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNP 60 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVE 188 D IC + A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE Sbjct: 61 DLPICTVADGAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVE 120 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + R GQ D+DKL++ + T+GSIT ++++L+++IL D L Sbjct: 121 TTRVGQRDDFDKLTLDVWTNGSITPSEAISLSAKILTDHL 160 >gi|77406098|ref|ZP_00783172.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae H36B] gi|77175279|gb|EAO78074.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae H36B] Length = 179 Score = 165 bits (418), Expect = 1e-38, Method: Composition-based stats. Identities = 68/177 (38%), Positives = 114/177 (64%) Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 + +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ Sbjct: 2 KATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTI 61 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I T+G+I ED++ L++R+L + L +F + E K + + + L + +EEL Sbjct: 62 EIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEKVLDRTIEEL 121 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +LSVRS NCL+ I + DL ++TE +M+++ N GRKSL E+K L +GL L + Sbjct: 122 DLSVRSYNCLKRAGINTIFDLTEKTEPEMMKVRNLGRKSLEEVKIKLADLGLGLKND 178 >gi|311990456|gb|ADQ26358.1| RNA polymerase alpha subunit [Lactobacillus delbrueckii] Length = 185 Score = 164 bits (416), Expect = 2e-38, Method: Composition-based stats. Identities = 66/185 (35%), Positives = 105/185 (56%) Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+T IILN+K + L+ + K + + GP VTA D++ D+EVLNPD IC Sbjct: 1 PGVKEDVTKIILNLKKLVLRAYTEEVKTIELDVEGPATVTAEDLKADADVEVLNPDQYIC 60 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + + M + V G GYVPA +++ IG I +D+L+SPI+KV+Y VES R G+ Sbjct: 61 TIAQGGHLHMWIDVCNGRGYVPASENKSAEMSIGDIPVDSLFSPIEKVNYQVESTRVGKR 120 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 D+DKL++ I T+GSI D++ A+R+L + F + + + + + ++ Sbjct: 121 EDFDKLTLEIWTNGSIAPNDALNFAARVLVEHFKAFESADAAAEIGEVMVEQENDQKEKK 180 Query: 256 LLKKV 260 L + Sbjct: 181 LEMTI 185 >gi|119663524|emb|CAK22333.1| RNA polymerase alpha subunit [Lactobacillus graminis] Length = 160 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 67/159 (42%), Positives = 109/159 (68%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+T IILNIK + LK+ + K + I +GP VTA DI + +D+EVLN D I Sbjct: 1 IDGVLEDVTQIILNIKKLALKLHVEEDKTIEIDVKGPATVTAADIISDDDVEVLNTDQYI 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 C + + +TV KG GYV A +++++ PIG++ ID++Y+PI +V+Y VES R G+ Sbjct: 61 CTVAEGGNFHVRMTVKKGRGYVAADQNKSDDMPIGVLPIDSIYTPISRVNYQVESTRVGR 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D+DKL++ + T+GSI+ ++++LA++I+ + L +F++ Sbjct: 121 RNDFDKLTLDVWTNGSISPREAISLAAKIMTEHLAIFVD 159 >gi|161511745|emb|CAP16883.1| DNA-directed RNA polymerase subunit alpha [Pediococcus inopinatus] Length = 141 Score = 164 bits (415), Expect = 2e-38, Method: Composition-based stats. Identities = 71/141 (50%), Positives = 99/141 (70%), Gaps = 2/141 (1%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 +LRR+L+SSL GAA+T++QIDGVLHE S+I+GV ED+T IILNIK ++LK+ D K + Sbjct: 1 SLRRILLSSLPGAAVTSIQIDGVLHEFSTIEGVVEDVTQIILNIKKVSLKIESDDEKSLE 60 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRT 163 I +GP VTAGDIQ +D+E+LNPD IC + LT G GYV A R Sbjct: 61 IDVKGPATVTAGDIQGDSDVEILNPDQYICTVADGVTFHAILTADTGRGYVSADENKARK 120 Query: 164 ENDPIGLITIDALYSPIKKVS 184 ++ PIG++ ID++Y+PI++V+ Sbjct: 121 DDMPIGVLPIDSIYTPIERVN 141 >gi|269101036|ref|YP_003289184.1| DNA-directed RNA polymerase subunit alpha [Ectocarpus siliculosus] gi|266631544|emb|CAV31215.1| DNA-directed RNA polymerase subunit alpha [Ectocarpus siliculosus] gi|270118674|emb|CAT18735.1| DNA-directed RNA polymerase subunit alpha [Ectocarpus siliculosus] Length = 361 Score = 163 bits (414), Expect = 2e-38, Method: Composition-based stats. Identities = 83/339 (24%), Positives = 138/339 (40%), Gaps = 51/339 (15%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH-EISSIKGVHE 80 E + L + T+GN LRRVL+S+L G IT V++ V H E + + GV E Sbjct: 16 SPSELYGHFVFTSLEQSEGSTIGNMLRRVLLSNLYGLKITGVRLPDVTHNEFNLLDGVRE 75 Query: 81 DLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 D ++ILN+K I LK + +GP VVTAG I+ I+VLNP++ + + Sbjct: 76 DFLEVILNLKEIILKDENKYGQSYHGLLKIQGPAVVTAGSIKFSKGIKVLNPNNYLLTIS 135 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 D+ V + L + G YV AK + E + ID+ ++P+ KV+ V++ + Sbjct: 136 DDSFVEIHLKLEHGKAYVLAKDQKLEGS-TYFLPIDSNFAPVLKVNSYVKTLPQHIENTD 194 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP--------------------- 237 +L + I T+GS+ ++ A ++ L E P Sbjct: 195 VELHLEIFTNGSLLPHQALLQAKNMIGYMLSTVNKMEFPCLSQVVSEETKSIVKIENIQK 254 Query: 238 -----------------------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 E + N ++ L+LS R L+ Sbjct: 255 KIYKKKEKTVQAKIFQSGEKKAKCIEEPTPEELLLKRVNEMDSGSLDCLKLSDRIVKALK 314 Query: 275 GENIVYMGDLIQRTEA---DMLRMANFGRKSLVEIKGVL 310 NI + +L+ + ++ + G KS+ EI+ L Sbjct: 315 KANINFTWELMDYDSSGPPYLIDIKGLGPKSVAEIEKSL 353 >gi|254755535|ref|ZP_05207569.1| DNA-directed RNA polymerase subunit alpha [Bacillus anthracis str. Vollum] Length = 150 Score = 163 bits (414), Expect = 3e-38, Method: Composition-based stats. Identities = 56/146 (38%), Positives = 92/146 (63%) Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 ID++Y+P+ +V+Y VE R GQV +YDKL++ + TDGSI +++++L ++IL + L +F Sbjct: 1 PIDSIYTPVSRVTYQVEKTRVGQVANYDKLTLDVWTDGSIGPKEAISLGAKILTEHLNIF 60 Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + + + + + + L +EEL+LSVRS NCL+ I + +L +TE D Sbjct: 61 VGLTDEAQNAEIMVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEED 120 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL 317 M+++ N GRKSL E+K L +GL L Sbjct: 121 MMKVRNLGRKSLEEVKHKLEELGLGL 146 >gi|150187130|emb|CAK30177.1| RNA polymerase alpha subunit [Streptococcus macacae NCTC 11558] Length = 178 Score = 163 bits (412), Expect = 4e-38, Method: Composition-based stats. Identities = 73/178 (41%), Positives = 115/178 (64%) Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IDGVLHE +I GV ED+ IILNIKG+ +K + K + + GP +TAGDI T + Sbjct: 1 KIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEEEKIIELDVEGPAEITAGDILTDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 DIE++N DH + + A ++ +TV GY+PA+ ++ + P+G + ID++Y+P+KKV Sbjct: 61 DIEIVNSDHYLFTIAEGASLKATMTVETNRGYIPAEENKKDGAPVGTLAIDSIYTPVKKV 120 Query: 184 SYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 NYQVEPARVGSKDSFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKTT 178 >gi|119662807|emb|CAJ33195.1| RNA polymerase alpha subunit [Lactobacillus pantheris] Length = 165 Score = 162 bits (411), Expect = 5e-38, Method: Composition-based stats. Identities = 83/165 (50%), Positives = 119/165 (72%), Gaps = 1/165 (0%) Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVL 128 HE S+I GV ED+T IILNIK + LK+ G+ K+ TI GP VVTA DI+T D+EVL Sbjct: 1 HEFSTIDGVLEDVTQIILNIKKLALKVEGEEEDKKATILVEGPAVVTAADIKTDADVEVL 60 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPD IC + + ME+T+ G GYVPA +++++ PIG+I +D++++PI KV+YTVE Sbjct: 61 NPDQYICTIAEGGRLEMEMTIKTGRGYVPADQNKSDDQPIGVIAVDSIFTPISKVNYTVE 120 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 SAR G+ D+DKL++ + T+GSIT ++ALA++IL D L +F+N Sbjct: 121 SARVGRRSDFDKLTLDVWTNGSITPSAAIALAAKILTDHLAIFVN 165 >gi|150036752|emb|CAM98261.1| DNA-directed RNA polymerase alpha chain [Leuconostoc lactis] Length = 187 Score = 162 bits (411), Expect = 6e-38, Method: Composition-based stats. Identities = 68/181 (37%), Positives = 107/181 (59%), Gaps = 2/181 (1%) Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EVLNP Sbjct: 1 EFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEVLNP 60 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVE 188 D I + + M +T KG GY A ++ E PIG++ +D++Y+PI++V+Y VE Sbjct: 61 DLHIATVAAGKSLHMTVTAVKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVE 120 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVK 248 + R G DYDKL+ I T+GSI D+++L ++IL + L +F++ E + + Sbjct: 121 NTRVGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMVEAE 180 Query: 249 S 249 Sbjct: 181 P 181 >gi|119672803|emb|CAK95517.1| RNA polymerase alpha subunit [Lactobacillus alimentarius] Length = 149 Score = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 65/149 (43%), Positives = 101/149 (67%) Query: 49 RVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFK 108 RVL++SL G A++ +QIDGVLHE S+I GV ED+T I+LN+K + LK D + I Sbjct: 1 RVLLASLPGTAVSDIQIDGVLHEFSAIDGVIEDVTQIVLNVKKLKLKSYADDSLKAEIDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 GP VTA DI+ +D+E+L+P+ IC + M++TV G GY PA+ ++T+ PI Sbjct: 61 VGPATVTAKDIKADDDLEILDPEQFICTVAEGGHFHMQMTVINGRGYTPAEQNKTDETPI 120 Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLD 197 G++ +D++++P++KV+Y VE+ R G+ D Sbjct: 121 GVLPVDSIFTPVEKVNYQVENTRVGKRND 149 >gi|260780686|ref|YP_003227042.1| RNA polymerase alpha subunit [Bryopsis hypnoides] gi|260176764|gb|ACX33773.1| RNA polymerase alpha subunit [Bryopsis hypnoides] Length = 363 Score = 162 bits (409), Expect = 1e-37, Method: Composition-based stats. Identities = 62/304 (20%), Positives = 122/304 (40%), Gaps = 32/304 (10%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 I+ + + P+ T+ NALRR L++ +IT V I+ + HE Sbjct: 21 TRIDENTVDHTPQLYACFQLGLFPKNQGLTIANALRRTLLTESTECSITGVLIEDIKHEY 80 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 S++KG+ E + DI++N+K I + + ++GP V+ A +++ + + +NP Sbjct: 81 SNLKGIKETVFDILMNLKKIIFFSGQSFFKTQVSFLSEKGPIVLKAKNLKLPSFLFCINP 140 Query: 131 DHVICNLDVDAVVRMEL-------------------TVSKGHGYVPAKHHRTENDPIGLI 171 D I L+ ++ + M + S K + T+N + Sbjct: 141 DQYITTLETNSKINMTIFIDQSTPKNFSYFTHCYYSNFSNNFFPFKLKKNFTQNQQSNFL 200 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 +D + PI ++Y ++ + + L I T+GS+ + A + L L F Sbjct: 201 FLDTQFCPISNLNYKIKK----KESQKEILFFEIWTNGSVHPNFILKKAIKNLLLNLIPF 256 Query: 232 INFEEPKKEVKEDINVKSLP-------FNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + K E ++ N K + + +S+ + L+ NI+ +GDL Sbjct: 257 HSLRNSKIEFEDYENKKIQKIVSQKKFIQKLIKLDLTNFPISLETYQSLKKLNILTIGDL 316 Query: 285 IQRT 288 + Sbjct: 317 YRLK 320 >gi|161511737|emb|CAP16879.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 171 Score = 161 bits (408), Expect = 1e-37, Method: Composition-based stats. Identities = 71/171 (41%), Positives = 111/171 (64%), Gaps = 2/171 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ + Sbjct: 1 VLHEFSTIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTI 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSY 185 LNP+ IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y Sbjct: 61 LNPELPICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 VE+ R GQ DYDKL++ + TD S+ ++++L+++IL + L +F+N ++ Sbjct: 121 QVENTRVGQRDDYDKLTLDVWTDVSLAASEAISLSAKILTEHLTIFVNLDD 171 >gi|116335037|ref|YP_802532.1| RNA polymerase alpha subunit [Candidatus Carsonella ruddii PV] gi|123126152|sp|Q05FK5|RPOA_CARRP RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|116235318|dbj|BAF35166.1| RNA polymerase alpha subunit [Candidatus Carsonella ruddii PV] Length = 322 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 83/313 (26%), Positives = 148/313 (47%), Gaps = 8/313 (2%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISS 74 ++ I + R+++ E F +LGN ++RV+ + I ++I + E Sbjct: 10 LKKISIKNISFFRSIIRIETFNNSFCDSLGNFIKRVIFLTTNSYKIIYLKIYKIKSEFYD 69 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + G+ E+ I+ N+ I +K++ D+ + I K+GP ++TA DI + +I + NP+ +I Sbjct: 70 LPGIIENTQTILKNLDNIIIKINNDNVANLIIKKKGPCIITAKDIFSDKNITIFNPNKII 129 Query: 135 CNLDVDAVVR--MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 N+ + V M+ S Y + + +I ++ SPI ++Y + Sbjct: 130 ANVSNNIVFYCIMKCVNSLFKNYTDEF-FQFKIFKENIIFLNNFKSPIISLNYYINKKIF 188 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM---FINFEEPKKEVKEDINVKS 249 KL I+T+GSI D ++ + FI F++ KK E N + Sbjct: 189 --NKKLKKLFFDIETNGSIKPVDCFKNCIFYIKKYFDLIFSFIGFKKYKKINVEKKNNLN 246 Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L N L + L+LS+RS NCL+ NI +GDLI+ ++ +++ + N G+KS EI Sbjct: 247 LKINSVYLNSINNLKLSIRSLNCLKNNNIFLIGDLIKISKNNLINIPNLGKKSYNEILNS 306 Query: 310 LGTMGLFLGMNLP 322 L GL L + Sbjct: 307 LKNFGLNLNSKIE 319 >gi|119662401|emb|CAJ33190.1| RNA polymerase alpha subunit [Lactobacillus frumenti] Length = 162 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 71/162 (43%), Positives = 110/162 (67%), Gaps = 2/162 (1%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++KGV ED+T IILN+K ++LK+ + K + I +GP VTA DIQ ++ VLNPD Sbjct: 1 FSTVKGVTEDVTQIILNLKKVSLKIDSEEPKDLEIDVKGPAEVTASDIQGDGEVMVLNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVES 189 I + A + +++T KG GY+ A R ++ IG++ ID++Y+PI++V+YTVE+ Sbjct: 61 LYIATVADGAELHIKMTADKGRGYLSANDNKARMDDLAIGVLPIDSIYTPIERVNYTVEN 120 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 AR GQ DYDKL++ + TDGS+T ++V+L ++IL + L MF Sbjct: 121 ARVGQRNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLKMF 162 >gi|154424759|emb|CAL18482.1| RNA polymerase alpha subunit [Streptococcus anginosus] Length = 184 Score = 161 bits (407), Expect = 2e-37, Method: Composition-based stats. Identities = 73/179 (40%), Positives = 113/179 (63%) Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVL 128 LHE ++ GV ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE++ Sbjct: 1 LHEFDTVPGVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEIV 60 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 NPDH + + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE Sbjct: 61 NPDHYLFTIGEGASLKAIMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVE 120 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 AR G +DKL++ I TDG+I ED++ L++RIL + L +F N E K Sbjct: 121 PARVGSNDGFDKLTLEIMTDGTIIPEDALGLSARILTEHLDLFTNLTEVAKSTDVMKET 179 >gi|154424843|emb|CAL18524.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 148 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 66/148 (44%), Positives = 102/148 (68%) Query: 52 MSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGP 111 +SSL GAA+T+++IDGVLHE +I GV ED+ IILN+KG+ +K + K + + GP Sbjct: 1 LSSLPGAAVTSIKIDGVLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKMIELDVEGP 60 Query: 112 GVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 VTAGDI T +DIE++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + Sbjct: 61 AEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTL 120 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYD 199 +D++Y+P+KKV+Y VE AR G +D Sbjct: 121 AVDSIYTPVKKVNYQVEPARVGSNDGFD 148 >gi|119663528|emb|CAK22335.1| RNA polymerase alpha subunit [Lactobacillus malefermentans] Length = 175 Score = 160 bits (405), Expect = 2e-37, Method: Composition-based stats. Identities = 73/175 (41%), Positives = 112/175 (64%), Gaps = 4/175 (2%) Query: 77 GVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 G+ ED+T IILN+K I+LK+ G D + + + +GP VTAGDI +D+ VLNPD I Sbjct: 1 GIVEDVTQIILNVKKISLKLEGADDEVETLEVNVKGPAQVTAGDITADSDVTVLNPDLYI 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHR--TENDPIGLITIDALYSPIKKVSYTVESARE 192 + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 61 ATVAEGATFHMRMTANKGRGYVSADQNKVRDEDMPIGVLPIDSIYTPIERVNYQVENTRV 120 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 G DYDKL++ + TDGSI +S++LA++IL + L MF+N + K + + Sbjct: 121 GHKSDYDKLTLDVWTDGSINPSESISLAAKILMEHLDMFVNLTDEAKNAEIMVEK 175 >gi|119662293|emb|CAJ33133.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. torquens KCTC 3535] Length = 161 Score = 160 bits (405), Expect = 3e-37, Method: Composition-based stats. Identities = 62/160 (38%), Positives = 102/160 (63%) Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 NIK + LK+ D K + I +GP VTAGDI+ D+E+LNPD IC + + + Sbjct: 1 NIKKLALKLDSDDDKTLEIDVKGPATVTAGDIEADGDVEILNPDLYICTVAEGGRFHIRM 60 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 T KG GYV A ++ ++ PIG++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T Sbjct: 61 TAHKGRGYVAADGNKVDDMPIGVLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWT 120 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +GSI+ ++++LA++IL + L +F+N + K + + Sbjct: 121 NGSISPREAISLAAKILTEHLDIFVNLTDEAKNAEIMVEK 160 >gi|154424869|emb|CAL18537.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 170 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 72/170 (42%), Positives = 114/170 (67%) Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE +I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE Sbjct: 1 GVLHEFDTIPGVREDVMQIILNIKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIE 60 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 ++NPDH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y Sbjct: 61 LVNPDHYLFTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQ 120 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F + E Sbjct: 121 VEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTE 170 >gi|150036718|emb|CAM98022.1| DNA-directed RNA polymerase alpha chain [Fructobacillus durionis] Length = 178 Score = 160 bits (404), Expect = 3e-37, Method: Composition-based stats. Identities = 71/178 (39%), Positives = 107/178 (60%), Gaps = 2/178 (1%) Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GV+HE S++ GV ED+T +ILN+K + + I +GP VTA D DIE Sbjct: 1 GVVHEFSTVDGVAEDVTQLILNLKKVVFATDSAEEHTLEIDVQGPKDVTAADFVGSADIE 60 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVS 184 VLNPD I L + M +TV KG GY A+ ++ + PIG++T+D++Y+PI++V+ Sbjct: 61 VLNPDLHIATLAAGKSLHMTVTVVKGRGYASAEENKQLRDEMPIGVLTVDSIYTPIERVN 120 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 Y VE R G D+DKL+M + T+GSI D+++L S+IL + L +F + +E K Sbjct: 121 YHVEQKRVGSRDDFDKLTMEVWTNGSIKPSDALSLGSKILTEHLNLFTDISPVAQETK 178 >gi|150036738|emb|CAM98024.1| DNA-directed RNA polymerase alpha chain [Leuconostoc mesenteroides subsp. dextranicum] Length = 171 Score = 159 bits (403), Expect = 5e-37, Method: Composition-based stats. Identities = 68/170 (40%), Positives = 108/170 (63%), Gaps = 2/170 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 V+HE S++ GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EV Sbjct: 1 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDIQGPADVTAADLQGGADVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSY 185 LNPD I + + M ++ KG GY A ++ + PIG++ +D++Y+PI++V+Y Sbjct: 61 LNPDLHIATVAAGKSLHMTVSAVKGRGYTSADENKKLRDEMPIGVLAVDSIYTPIERVNY 120 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 VE+ R G DYDKL+ I T+GSI D+++L ++IL + LG+F++ Sbjct: 121 QVENTRIGARDDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLGLFMDIS 170 >gi|117575083|emb|CAJ84781.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 171 Score = 159 bits (402), Expect = 6e-37, Method: Composition-based stats. Identities = 65/171 (38%), Positives = 107/171 (62%) Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T IILN+K + LK K I GP VTAGD++ +++++LNPD I + Sbjct: 1 EDVTQIILNLKKLTLKSIAADEKLAEIDVEGPATVTAGDLKVDDEVQILNPDQYIATVAE 60 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 A ++M + + +G GYVPA +++++ PIG++ +D+L+SPI+KV+Y VE R G+ DYD Sbjct: 61 GAHLQMTVAIKQGRGYVPADQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTRVGRNNDYD 120 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 KL+M + TDGSIT D+++ ++IL + L +F+N + + + Sbjct: 121 KLTMEVWTDGSITPNDALSFGAKILTEHLNVFMNTNLETEFTDVMVEKEDT 171 >gi|115350008|ref|YP_764409.1| alpha subunit of RNA polymerase [Stigeoclonium helveticum] gi|122165139|sp|Q06SF7|RPOA_STIHE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|98990222|gb|ABF60189.1| alpha subunit of RNA polymerase [Stigeoclonium helveticum] Length = 517 Score = 158 bits (399), Expect = 1e-36, Method: Composition-based stats. Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 2/158 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 ++ ++ PL G TL NALRR L+S L G AIT V+I+GV HE S++ GV Sbjct: 27 IMENKKSFYGRFYIGPLEVGQGITLANALRRALLSELNGLAITTVEIEGVSHEYSTLMGV 86 Query: 79 HEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI+LN+K I LK + I+ +GPGV+ AGDI + I+ ++P+ I Sbjct: 87 RESVLDILLNLKQIVLKSKKSVKRAQTAYIYCQGPGVIRAGDIILPSSIQCVDPEQYIAT 146 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 L D +++M++ + +G Y+ + D + +D Sbjct: 147 LSSDGILKMKVIIRQGKNYLVQTPNSLFFDEVSEFVLD 184 Score = 36.5 bits (83), Expect = 5.2, Method: Composition-based stats. Identities = 13/65 (20%), Positives = 23/65 (35%) Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 D + + I T+GSI ++ A++ L + F N + K E + Sbjct: 449 NQSPKDIIILEIWTNGSILPRTALKHATQNLSNLFIKFQNAKMMKNSFFETNKTYTQTIR 508 Query: 254 PALLK 258 K Sbjct: 509 QLYEK 513 >gi|154424725|emb|CAL18465.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 158 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 69/158 (43%), Positives = 107/158 (67%) Query: 63 VQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 ++IDGVLHE +I GV ED+ IILNIKG+ +K D K + + GP VTAGDI T Sbjct: 1 IKIDGVLHEFDTIPGVREDVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTD 60 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +D+E++NPDH + + ++ +TV+K GYV A+ ++ E+ P+G + +D++Y+P+KK Sbjct: 61 SDVEIVNPDHYLFTIAEGHSLKATMTVAKERGYVSAEGNKKEDAPVGTLAVDSIYTPVKK 120 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 V+Y VE AR G +DKL++ I T+G+I ED++ L+ Sbjct: 121 VNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLS 158 >gi|119662345|emb|CAJ33161.1| RNA polymerase alpha subunit [Lactobacillus pontis] Length = 160 Score = 157 bits (397), Expect = 2e-36, Method: Composition-based stats. Identities = 67/159 (42%), Positives = 109/159 (68%), Gaps = 2/159 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK++ + K + + +GP VTA DIQ ++ +LNPD I Sbjct: 1 GVTEDVTQIILNLKKVSLKINSEDQKDLELDVKGPAEVTAADIQGDGEVTILNPDLHIAT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + A + +++T KG GY+ A R E+ IG++ ID++Y+PI++V+YTVE+AR GQ Sbjct: 61 VADGAELHIKMTADKGRGYLSANDNKARMEDLAIGVLPIDSIYTPIERVNYTVENARVGQ 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 DYDKL++ + TDGS+T ++V+L ++IL + L +F++ Sbjct: 121 RNDYDKLTLDVWTDGSLTPTEAVSLGAKILTEHLAIFVD 159 >gi|161511741|emb|CAP16881.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 179 Score = 157 bits (397), Expect = 3e-36, Method: Composition-based stats. Identities = 69/178 (38%), Positives = 112/178 (62%), Gaps = 2/178 (1%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ I Sbjct: 2 IEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPI 61 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESARE 192 C + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 62 CTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRV 121 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 GQ DYDKL++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + K+ Sbjct: 122 GQRDDYDKLTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVEKKNS 179 >gi|154483160|ref|ZP_02025608.1| hypothetical protein EUBVEN_00861 [Eubacterium ventriosum ATCC 27560] gi|149735968|gb|EDM51854.1| hypothetical protein EUBVEN_00861 [Eubacterium ventriosum ATCC 27560] Length = 161 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 55/152 (36%), Positives = 99/152 (65%) Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 G+I +D++Y+P+++V+ +V++ R GQV D+DKL++ + T+G++ +++V+LAS++L Sbjct: 4 YQSGVIAVDSIYTPVERVNMSVQNTRVGQVTDFDKLTLDVYTNGTLDTDEAVSLASKVLC 63 Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 + L +FI+ E K+++ + L ++ELELSVRS NCL+ I + +L+ Sbjct: 64 EHLKLFIDLSETSKDIEVIAEPVDDEIDKVLEMNIDELELSVRSYNCLKRAGINTVEELV 123 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +T DM+++ N GRKSL E+ L +GL L Sbjct: 124 NKTSEDMMKVRNLGRKSLEEVLAKLKELGLGL 155 >gi|119662843|emb|CAJ33214.1| RNA polymerase alpha subunit [Lactobacillus bifermentans] Length = 142 Score = 157 bits (396), Expect = 3e-36, Method: Composition-based stats. Identities = 68/142 (47%), Positives = 95/142 (66%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S+I GV ED+T IILNIK + LK+ D K V I +GP VTAGDI+ +D+EVLNPD Sbjct: 1 FSTIDGVTEDVTQIILNIKKLALKLESDDDKTVEIDVQGPATVTAGDIEADSDVEVLNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 IC + +TV KG GYV A+ ++ ++ PIG++ ID++Y+PI +V+Y VES R Sbjct: 61 LYICTVAEGGHFHARMTVRKGRGYVAAEGNKVDDMPIGVLPIDSIYTPISRVNYQVESTR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITG 213 GQ D+DKL++ + T+GSI Sbjct: 121 VGQRNDFDKLTLDVWTNGSINP 142 >gi|154424841|emb|CAL18523.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] Length = 150 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 67/149 (44%), Positives = 101/149 (67%) Query: 57 GAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTA 116 GAA+T++ IDGVLHE ++ GV ED+ IILNIKGI +K + K + + GP VTA Sbjct: 1 GAAVTSINIDGVLHEFDTVPGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTA 60 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 GDI T +DIE++NPDH + + + ++ +TV+ G GYVPA ++ +N P+G + +D++ Sbjct: 61 GDILTDSDIEIVNPDHYLFTIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSI 120 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTI 205 Y+P+ KV+Y VE AR G +DKL++ I Sbjct: 121 YTPVTKVNYQVEPARVGSNDGFDKLTLEI 149 >gi|119662379|emb|CAJ33178.1| RNA polymerase alpha subunit [Lactobacillus pentosus] Length = 158 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 73/156 (46%), Positives = 106/156 (67%), Gaps = 2/156 (1%) Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+T IILN+K I LK+ D K + I +GP VTAGDI D+EVLNPD IC + Sbjct: 2 EDVTAIILNVKKIALKLESDETKTLEIDVKGPANVTAGDIIGDADVEVLNPDLPICTVAD 61 Query: 140 DAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A M +T + G GYV A HR ++ PIG++ +D+LYSPI++V+Y VE+ R GQ D Sbjct: 62 GAHFHMRMTANTGRGYVSAEDNKHREDDMPIGVLAVDSLYSPIERVNYQVETTRVGQRDD 121 Query: 198 YDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +DKL++ + T+GSIT ++++L+++IL D L +F+N Sbjct: 122 FDKLTLDVWTNGSITPSEAISLSAKILTDHLSIFVN 157 >gi|165932201|emb|CAP66258.1| RNA polymerase alpha subunit [Lactobacillus oligofermentans] Length = 151 Score = 156 bits (394), Expect = 5e-36, Method: Composition-based stats. Identities = 70/151 (46%), Positives = 102/151 (67%), Gaps = 2/151 (1%) Query: 70 HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 HE SS++GV ED+T IILNIK I LK+ + K + I +GP VVTAGDIQ D+ +LN Sbjct: 1 HEFSSVEGVTEDVTQIILNIKKIALKIDSEDDKTLEIDVKGPAVVTAGDIQADGDVTILN 60 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTV 187 PD + + + M++T + G GYV A R E+ PIG++ ID++Y+PI++V+Y V Sbjct: 61 PDLQLATVADGVELHMQMTANTGRGYVSADDNKSRMEDLPIGVLPIDSIYTPIERVNYNV 120 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 E AR GQ DYDKL++ + +DGSIT ++++ Sbjct: 121 EDARVGQRNDYDKLTLDVWSDGSITPSEAIS 151 >gi|150036840|emb|CAM98285.1| DNA-directed RNA polymerase alpha chain [Leuconostoc argentinum KCTC 3773] Length = 190 Score = 155 bits (392), Expect = 8e-36, Method: Composition-based stats. Identities = 65/186 (34%), Positives = 106/186 (56%), Gaps = 2/186 (1%) Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 ED+T IILN+K + L + D + + I +GP VTA D+Q D+EVLNPD I + Sbjct: 5 CREDVTQIILNLKKVVLAIDSDDERSLEIDVQGPAEVTAADLQAGADVEVLNPDLHIATV 64 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + M +T KG GY A ++ E PIG++ +D++Y+PI++V+Y VE+ R G Sbjct: 65 AAGKSLHMTVTAVKGRGYSSADENKQLREEMPIGVLAVDSIYTPIERVNYHVENTRVGAR 124 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 DYDKL+ I T+GSI D+++L ++IL + L +F++ E + + + + + Sbjct: 125 DDYDKLTFDIWTNGSIKPSDALSLGAKILAEHLNLFMDISPVAAEANVMVEAEPVAVSAS 184 Query: 256 LLKKVE 261 +E Sbjct: 185 DSAPIE 190 >gi|150036826|emb|CAM98280.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gasicomitatum] Length = 186 Score = 155 bits (392), Expect = 9e-36, Method: Composition-based stats. Identities = 67/180 (37%), Positives = 107/180 (59%), Gaps = 2/180 (1%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 S++ GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+EVLNPD Sbjct: 1 FSTVDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVES 189 I + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ Sbjct: 61 LHIATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVEN 120 Query: 190 AREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 R G DYDKL+ I T+GSI D+++L S+IL + L +F++ E + V+ Sbjct: 121 TRVGSRDDYDKLTFDIWTNGSIKPSDALSLGSKILAEHLNLFMDISPVAAEANVMVEVEP 180 >gi|254798672|ref|YP_003058319.1| alpha subunit of RNA polymerase [Parachlorella kessleri] gi|229915620|gb|ACQ90963.1| alpha subunit of RNA polymerase [Parachlorella kessleri] Length = 275 Score = 155 bits (392), Expect = 1e-35, Method: Composition-based stats. Identities = 68/251 (27%), Positives = 100/251 (39%), Gaps = 43/251 (17%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + E RG A T+ NALRR L+ L +T V IDGV+HE SSI GV Sbjct: 15 RIQSQGEMYARFHLGTFFRGQALTVANALRRTLLGELPYLIVTKVHIDGVVHEFSSIPGV 74 Query: 79 HEDLTDIILNIKGINLKMSGDSH---------KRVTIFKRGPGVVTAGDIQTVNDIEVLN 129 E + DI+LN+K + +S +V + RGP VTA D++ + + Sbjct: 75 QESVLDILLNLKRLTFTISNKKFNIFSNSWLKTKVFLKIRGPAKVTAADLKLPPHLACVW 134 Query: 130 PDHVICNLDVDAVVRMELT-------------------------------VSKGHGYVPA 158 P+H I L +A + L KG G Sbjct: 135 PNHYIATLSSNAELACVLELAVVHPKQKISIAKNEVGSKNKIFGKVTNDVFEKGKGTESK 194 Query: 159 KHHRTENDPIGLIT-IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 K + I +D YSPI+KV+Y + + + L + I TDGSI + ++ Sbjct: 195 KILTDSIEKNKKIFSLDTNYSPIRKVNYVI--YELDSKKNSEYLVLEIVTDGSIEPKQAL 252 Query: 218 ALASRILQDQL 228 A + L Sbjct: 253 RFAFKQLTKLF 263 >gi|213612396|ref|ZP_03370222.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-2068] Length = 117 Score = 155 bits (391), Expect = 1e-35, Method: Composition-based stats. Identities = 53/120 (44%), Positives = 77/120 (64%), Gaps = 3/120 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 V+IDGVLHE S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA DI Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITL 117 >gi|284110424|ref|ZP_06386522.1| DNA-directed RNA polymerase subunit alpha [Candidatus Poribacteria sp. WGA-A3] gi|283829770|gb|EFC34077.1| DNA-directed RNA polymerase subunit alpha [Candidatus Poribacteria sp. WGA-A3] Length = 155 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 66/143 (46%), Positives = 94/143 (65%), Gaps = 1/143 (0%) Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE-P 237 PIK+V++ VE+AR G+V DYDKL++ + TDGS+T ++V+ ++ IL++ L + I EE Sbjct: 1 PIKRVNFHVENARVGRVTDYDKLNLEVWTDGSVTPLEAVSSSASILREHLAICIPSEEMK 60 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + E N L + V ELELSVR+ NCL+ NI + DL+Q+TE +ML+ N Sbjct: 61 EVEHDSAYEETQAELNKHLARSVNELELSVRAANCLKNANIKTIEDLVQKTEIEMLKTKN 120 Query: 298 FGRKSLVEIKGVLGTMGLFLGMN 320 FG+KSL EIK VL MGL LG+ Sbjct: 121 FGKKSLNEIKEVLAEMGLSLGLR 143 >gi|215400751|ref|YP_002327512.1| RNA polyperase alpha-chain [Vaucheria litorea] gi|194441201|gb|ACF70929.1| RNA polyperase alpha-chain [Vaucheria litorea] Length = 230 Score = 154 bits (389), Expect = 2e-35, Method: Composition-based stats. Identities = 65/230 (28%), Positives = 117/230 (50%), Gaps = 13/230 (5%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q+N E I N +E +EN I +PL G ++GN RR+L++ + IT Sbjct: 1 MQENL-EFI--NLLEVP-----DENFGKYIIKPLNLGMGVSIGNLFRRILLTQMPRTNIT 52 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ- 120 V+ G+ +E S+IKGV ED+ +I+LN+K I K + V I GP V+T+ +Q Sbjct: 53 GVRFAGITNEFSTIKGVREDVLEILLNLKQIIFKGFKEEKTYVRIKITGPTVITSSCLQS 112 Query: 121 -TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 ++I ++NP I + D+ + EL + A + + +D + SP Sbjct: 113 ALPDEITLVNPSQYIATITNDSTLEFELKIESEKKSNLANNQAIFESS-DFLEVDKITSP 171 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 I+++ + V ++ + ++L + I TDGSIT D++ + +++Q+ Sbjct: 172 IRQILFDV--YKKSETETQEELVLQIWTDGSITPIDALITSVKLVQNLFT 219 >gi|150187149|emb|CAK30181.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 178 Score = 153 bits (387), Expect = 3e-35, Method: Composition-based stats. Identities = 66/178 (37%), Positives = 111/178 (62%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ GV ED+ IILN+KG+ +K + K + + GP +TAGDI T +DIE++NPD Sbjct: 1 FDTVPGVREDVMQIILNLKGLAVKSYVEEEKIIELDVEGPAEITAGDILTDSDIEIVNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H + + A ++ LTV GY+PA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR Sbjct: 61 HYLFTIAEGASLKATLTVGTNRGYIPAEENKKDDAPVGTLAIDSIYTPVKKVNYQVEPAR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 G ++DKL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 121 VGSNDNFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKETEQ 178 >gi|119662801|emb|CAJ33192.1| RNA polymerase alpha subunit [Lactobacillus kefiri] Length = 153 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 77/152 (50%), Positives = 100/152 (65%), Gaps = 4/152 (2%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVN 123 D VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ Sbjct: 1 DDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQADG 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIK 181 D+ VLNPD I + A M LT +KG GYV A R+ PIG++ +D++Y+PI+ Sbjct: 61 DVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIE 120 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 +V+Y VES R GQ D+DKL++ I TDGSIT Sbjct: 121 RVNYQVESTRVGQRDDFDKLTLDIWTDGSITP 152 >gi|161511733|emb|CAP16877.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 180 Score = 153 bits (386), Expect = 4e-35, Method: Composition-based stats. Identities = 67/177 (37%), Positives = 110/177 (62%), Gaps = 2/177 (1%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ I Sbjct: 2 IEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPI 61 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESARE 192 C + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R Sbjct: 62 CTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRV 121 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 GQ DYDKL++ + TD S+ ++++L+++IL + L +F+N ++ K+ + + + Sbjct: 122 GQRDDYDKLTLDVWTDXSLAASEAISLSAKILTEHLTIFVNLDDQVKDTEIMVETRR 178 >gi|119663526|emb|CAK22334.1| RNA polymerase alpha subunit [Lactobacillus paracollinoides] Length = 154 Score = 153 bits (386), Expect = 5e-35, Method: Composition-based stats. Identities = 71/154 (46%), Positives = 103/154 (66%), Gaps = 3/154 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ VLNPD I Sbjct: 1 GVVEDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYI 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREG 193 + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y VE+ R G Sbjct: 61 ATVAEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVG 120 Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 Q DYDKL++ + TD SIT +S++LA++IL + Sbjct: 121 QRDDYDKLTLDVWTDNSITPSESISLAAKILTEH 154 >gi|218755235|ref|ZP_03534031.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 118 Score = 153 bits (386), Expect = 5e-35, Method: Composition-based stats. Identities = 49/100 (49%), Positives = 71/100 (71%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLT 83 +NR+ + EPL GF +TLGN+LRR L+SS+ GAA+T+++IDGVLHE +++ GV ED+T Sbjct: 15 TDNRSQFVIEPLEPGFGYTLGNSLRRTLLSSIPGAAVTSIRIDGVLHEFTTVPGVKEDVT 74 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN 123 +IILN+K + + D + + K+GPG VTAGDI Sbjct: 75 EIILNLKSLVVSSEEDEPVTMYLRKQGPGEVTAGDIVPPP 114 >gi|150186916|emb|CAK30127.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 170 Score = 152 bits (385), Expect = 6e-35, Method: Composition-based stats. Identities = 68/170 (40%), Positives = 106/170 (62%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE++NPD Sbjct: 1 FDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEIVNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y VE AR Sbjct: 61 HYLFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQVEPAR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 VGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVAIST 170 >gi|7524918|ref|NP_045920.1| RNA polymerase alpha chain [Chlorella vulgaris] gi|3024560|sp|P56298|RPOA_CHLVU RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|2224512|dbj|BAA57996.1| RNA polymerase alpha subunit [Chlorella vulgaris] Length = 278 Score = 152 bits (384), Expect = 7e-35, Method: Composition-based stats. Identities = 55/265 (20%), Positives = 100/265 (37%), Gaps = 47/265 (17%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + RG A T GN++RR L+S + G +T V+I G HE + + V Sbjct: 15 RVQDQGSLYARFHIGTFFRGQALTFGNSIRRALLSEMPGFLMTDVRIQGATHEFAVLPDV 74 Query: 79 HEDLTDIILNIKGINLKMSGDSHK-------RVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 E + +I+LN+K ++ + GPG V A DI+ ++ ++P+ Sbjct: 75 EETVLEILLNLKKTVFVPRIPKNQKFETFQGFGFLKNNGPGKVRAADIRLPETVQCVSPE 134 Query: 132 HVICNLDVDAVVRMEL-------------------------TVSKG-------------H 153 I L A + + G Sbjct: 135 VHIATLTSGAELSLRFNLQFRNFSQLEKREGTFKSKTVAQAKTEDGNVQDTTNELPTLEK 194 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 + + + + + + +D + P++KV+Y ++S +Y + + I TDGS+ Sbjct: 195 NSLFFQQLQNKRNSKDQLFLDTVPMPVQKVNYVIKSLNAKNGSEY--IILEIWTDGSLYP 252 Query: 214 EDSVALASRILQDQLGMFINFEEPK 238 ++SV A R L D F N + Sbjct: 253 QESVEFALRNLTDLFFQFANISKKS 277 >gi|154424819|emb|CAL18512.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 171 Score = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 70/171 (40%), Positives = 108/171 (63%) Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE++NPDH + Sbjct: 1 PGVREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLF 60 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 61 TIGEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSN 120 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +DKL++ I T+G+I ED++ L++RIL + L +F N E K + Sbjct: 121 DGFDKLTLEILTNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKE 171 >gi|117575077|emb|CAJ84778.1| RNA polymerase alpha subunit [Lactobacillus amylophilus] Length = 138 Score = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 61/138 (44%), Positives = 92/138 (66%) Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+T IILN+K + LK K I GP VTAGD++ +++++LNPD I Sbjct: 1 PGVLEDVTQIILNLKKLTLKSIAADEKLAEIDVEGPATVTAGDLKVDDEVQILNPDQYIA 60 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + A ++M + + +G GYVPA +++++ PIG++ +D+L+SPI+KV+Y VE R G+ Sbjct: 61 TVAEGAHLQMTVAIKQGRGYVPADQNKSDDMPIGVVPVDSLFSPIEKVNYQVEGTRVGRN 120 Query: 196 LDYDKLSMTIDTDGSITG 213 DYDKL+M + TDGSIT Sbjct: 121 NDYDKLTMEVWTDGSITP 138 >gi|154424767|emb|CAL18486.1| RNA polymerase alpha subunit [Streptococcus constellatus subsp. constellatus] Length = 171 Score = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 70/171 (40%), Positives = 107/171 (62%) Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 GV ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE++NPDH + Sbjct: 1 PGVREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEIVNPDHYLF 60 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 TIGEGASLKAIMTVNAGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSN 120 Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +DKL++ I TDG+I ED++ L++RIL L +F N E K Sbjct: 121 DGFDKLTLEIMTDGTIIPEDALGLSARILTQHLDLFTNLTEVAKSTDVMKE 171 >gi|154424737|emb|CAL18471.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 168 Score = 152 bits (384), Expect = 8e-35, Method: Composition-based stats. Identities = 68/168 (40%), Positives = 106/168 (63%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I GV ED+ IILNIKGI +K K + + GP VTAGDI T +DIE++NPD Sbjct: 1 FDTISGVREDVMQIILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEIVNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H + + A + ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y VE AR Sbjct: 61 HYLFTISEGARFKAKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQVEPAR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 G +DKL++ I T+G+I ED++ L++RIL + L +F + E Sbjct: 121 VGSNDGFDKLTLEILTNGTIIPEDALGLSARILTEHLNLFTDLTEVAI 168 >gi|154424801|emb|CAL18503.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 162 Score = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 66/162 (40%), Positives = 107/162 (66%) Query: 71 EISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E +I GV ED+ IIL +KG+ +K + K + + GP VTAGDI T +DIE++NP Sbjct: 1 EFDTIPGVREDVMQIILKVKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIEIVNP 60 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 DH + + ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE A Sbjct: 61 DHYLFTIAEGHSLKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPA 120 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 R G +DKL++ I T+G+I ED++ L++RIL + L +F Sbjct: 121 RVGSNDGFDKLTVEIMTNGTIIPEDALGLSARILIEHLNLFT 162 >gi|119663522|emb|CAK22332.1| RNA polymerase alpha subunit [Lactobacillus acetotolerans] Length = 140 Score = 151 bits (381), Expect = 2e-34, Method: Composition-based stats. Identities = 62/140 (44%), Positives = 92/140 (65%) Query: 79 HEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 ED+ +ILN+K + LK D K + + GP VTA D++ D+EVLNPD IC + Sbjct: 1 REDVAKMILNLKKLELKCLSDDQKIIELDVEGPATVTADDLKADADVEVLNPDQYICTIA 60 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + M++ V KG GYV A +++++ PIG+I +D+L+SPIKKV+Y VES R G+ D+ Sbjct: 61 EGGHLHMQIAVRKGRGYVTASDNKSDDMPIGVIPVDSLFSPIKKVNYQVESTRVGKRDDF 120 Query: 199 DKLSMTIDTDGSITGEDSVA 218 DKL++ I TDGSI D+++ Sbjct: 121 DKLTLEIWTDGSIKPNDALS 140 >gi|108773381|ref|YP_635843.1| alpha subunit of RNA polymerase [Oltmannsiellopsis viridis] gi|122238319|sp|Q20F02|RPOA_OLTVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|82541963|gb|ABB82004.1| alpha subunit of RNA polymerase [Oltmannsiellopsis viridis] Length = 508 Score = 150 bits (380), Expect = 2e-34, Method: Composition-based stats. Identities = 48/155 (30%), Positives = 73/155 (47%), Gaps = 2/155 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + P G T+GNA RR L+S L G IT ++IDGV HE S++ GV Sbjct: 12 RIEHNRSFYSRFQLGPFDLGQGLTVGNAFRRTLLSELSGVGITLIEIDGVCHEYSTLPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI+LN+K + L + + GPGVVTA D++ + ++PD I Sbjct: 72 RESVLDILLNLKQLVLTSDTTFTVPQVGYLNFTGPGVVTAKDLKLPVSVYCVDPDQPIAT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 L DA + + V +G Y+ ++ I Sbjct: 132 LSADATLNFKFLVCQGKNYIIQTPVDKFHEYQKKI 166 Score = 70.4 bits (171), Expect = 4e-10, Method: Composition-based stats. Identities = 35/188 (18%), Positives = 62/188 (32%), Gaps = 61/188 (32%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +D L+ PIKKV+Y ++ D + + + I T+GSI +V A++ L Sbjct: 318 LPVDTLFMPIKKVNYMIDIDPAE--PDRESVVLEIWTNGSIHPRQAVHEAAKQLIHLFSP 375 Query: 231 FINFEEPKKEVKEDI---------------------------------------NVKSLP 251 F+ ++ N + Sbjct: 376 FLQTHLVPTTLQSTPYSKAASKTQEFSLNETSTEKVKDELGKVAFGSENNTAALNQQKNL 435 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLI-----QRTEAD-----------MLRM 295 + L S+R+ L+ ENI + +L+ Q+TEA +L + Sbjct: 436 VTAIQTLDIANLNFSLRTFTFLKKENINTVSELVEFWTRQKTEAKDSIQSNVQSSVLLEI 495 Query: 296 ----ANFG 299 NFG Sbjct: 496 SNNLKNFG 503 >gi|154424777|emb|CAL18491.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 185 Score = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 67/184 (36%), Positives = 113/184 (61%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 +I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPD Sbjct: 1 FDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H + + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR Sbjct: 61 HYLFTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPAR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 G +DKL++ I T+G+I ED++ L++R+L + L +F + + K + + + Sbjct: 121 VGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKETEKVN 180 Query: 252 FNPA 255 Sbjct: 181 DEKV 184 >gi|154424815|emb|CAL18510.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 174 Score = 150 bits (379), Expect = 3e-34, Method: Composition-based stats. Identities = 68/172 (39%), Positives = 110/172 (63%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+ IILNIKGI +K + K++ + GP +TAGDI T +DIE++NPDH + Sbjct: 1 VPGVREDVMQIILNIKGIAVKSYVEDEKKIELDVVGPAEITAGDILTDSDIEIVNPDHYL 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + A + LTV++G GYVPA+ ++ + P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 61 FTIGEGASFKAILTVNRGRGYVPAEGNKKDEAPVGTLAVDSIYTPVVKVNYQVEPARVGS 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 +DKL++ I T+G+ ED++ L++RIL + LG+F + + K + Sbjct: 121 NDGFDKLTLEIMTNGTTNPEDALGLSARILMEHLGLFTDLTDVAKSAEVMKE 172 >gi|194033308|ref|YP_002000450.1| alpha subunit of RNA polymerase [Oedogonium cardiacum] gi|156619050|gb|ABU88203.1| RNA polymerase alpha subunit [Oedogonium cardiacum] gi|186968925|gb|ACC97248.1| alpha subunit of RNA polymerase [Oedogonium cardiacum] Length = 442 Score = 149 bits (376), Expect = 6e-34, Method: Composition-based stats. Identities = 62/330 (18%), Positives = 122/330 (36%), Gaps = 60/330 (18%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 IV P G T+ NALRR L+S L A+T++QI V+H+ +I+G Sbjct: 100 IVKKNLRNIYGQFYIGPFFIGQGLTIANALRRTLLSELSSLAVTSIQIQDVVHQYQTIQG 159 Query: 78 VHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVIC 135 + E + D++LN+K I LK + + +GP ++ A D+ I+ ++P+ I Sbjct: 160 LQESVFDLLLNMKDIVLKSKTTIPVPQIGYLQVQGPCIIKAKDLLLPPFIQCVDPEQYIA 219 Query: 136 NLDVDAVVRMELTVSKGH--------GYVPAKHHRTE----------------------- 164 L D ++ M+ + +G GY + Sbjct: 220 TLSEDGILNMKFVIRQGKHSLTHVTPGYDSFTQKYDQHSYNSTCDTNVHSNKNRNSLSLL 279 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQ-VLDYDKLSMT------------------- 204 N + IDA ++P+ KV+Y +E Q + D + + Sbjct: 280 NTYSKHLIIDASFNPVIKVNYIIEVLDFDQLFFEKDSVKLESNDSNNFYCNEEKTLIKKE 339 Query: 205 -----IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK 259 I T+GSI+ ++ ++ + L + ++ + F + Sbjct: 340 IIILEIWTNGSISPITALKVSIQKLISVFLKIQKSKILNIQLIDSEIFYRDIFEKLTNQF 399 Query: 260 VEELELSVRSTNCLRGENIVYMGD--LIQR 287 ++ + + + + + L+Q+ Sbjct: 400 YILKFKQCQTLSDFKDSKVRPISEKFLVQK 429 >gi|161511735|emb|CAP16878.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 161 Score = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 65/161 (40%), Positives = 102/161 (63%), Gaps = 2/161 (1%) Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH 132 S+I+GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ Sbjct: 1 STIEGVVEDVTQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPEL 60 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESA 190 IC + LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ Sbjct: 61 PICTVAEGTTFHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENT 120 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 R GQ DYDKL++ + TD S+ ++++ +++IL + L +F Sbjct: 121 RVGQRDDYDKLTLDVWTDVSLAASEAISPSAKILTEHLTIF 161 >gi|154424763|emb|CAL18484.1| RNA polymerase alpha subunit [Streptococcus canis] Length = 173 Score = 148 bits (374), Expect = 1e-33, Method: Composition-based stats. Identities = 67/173 (38%), Positives = 110/173 (63%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + Sbjct: 1 IPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYL 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 FTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGS 120 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 +DKL++ I T+G+I ED++ L++R+L + L +F + + K + Sbjct: 121 NDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKATEVMKET 173 >gi|167010108|ref|ZP_02275039.1| DNA-directed RNA polymerase subunit alpha [Francisella tularensis subsp. holarctica FSC200] Length = 224 Score = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 63/223 (28%), Positives = 119/223 (53%), Gaps = 9/223 (4%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DG 67 L+ P NI + + +N T E L RG +TLG AL++ ++ S+ GA +T+++I DG Sbjct: 6 LLHPTNI---KIDEYAKNATKFSFEALERGVGYTLGFALKQTMLYSIAGACVTSIKINDG 62 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK-RVTIFKRGPGVVTAGDIQTVNDIE 126 + + + E + DIILN+K +++ ++ D +T G + +++ Sbjct: 63 KVTSLEDVIPCDETVADIILNVKSLSVTLAEDVETGTITFELSGSEEEIFSEEAKLSEGL 122 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT 186 + + IC+ + +++E V KG G+ PA+ +N G +DA +SP+ + Sbjct: 123 AITEEVFICSYNGGKKLKIEAKVEKGVGFRPAQ----DNFKDGEFLLDATFSPVVFCDFE 178 Query: 187 VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ AR G+ D DKL + I T+G++ E+++ LA+ +Q+QL Sbjct: 179 IKDARVGRRTDLDKLELNIKTNGNVNCEEALRLAATKIQNQLR 221 >gi|48374282|gb|AAT41971.1| putative RNA polymerase alpha subunit [Fremyella diplosiphon Fd33] Length = 155 Score = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 48/155 (30%), Positives = 86/155 (55%), Gaps = 8/155 (5%) Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 + + ID+++ P++KV+Y+VE AR + D+L + + T+GSI+ +++++ A+ IL D Sbjct: 1 MDFLQIDSVFMPVRKVNYSVEEARGDGSITKDRLLLEVWTNGSISPQEALSSAAGILVDL 60 Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 ++ +P +P +EEL+LSVR+ NCL+ + + DL+ Sbjct: 61 FNPL-----KDISLEPTDTGSDIPDDPTAQIPIEELQLSVRAYNCLKRAQVNSVADLLDY 115 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLP 322 T+ D+L + NFG+KS E+ L LG+ LP Sbjct: 116 TQEDLLEIKNFGQKSAEEVVEALQRR---LGITLP 147 >gi|150187010|emb|CAK30150.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 184 Score = 148 bits (373), Expect = 1e-33, Method: Composition-based stats. Identities = 69/183 (37%), Positives = 113/183 (61%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + Sbjct: 2 IPGVREDVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYL 61 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 62 FTIAEGHSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGS 121 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +DKL++ I T+G+I ED++ L++R+L + L +F + E K + + + Sbjct: 122 NDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKETEKVNDEK 181 Query: 255 ALL 257 L Sbjct: 182 VLD 184 >gi|119662809|emb|CAJ33196.1| RNA polymerase alpha subunit [Lactobacillus perolens] Length = 138 Score = 147 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 61/138 (44%), Positives = 94/138 (68%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILNIK + LK++ D K V I GP VTA +I T +D+E+LNP+ IC Sbjct: 1 GVLEDVTQIILNIKKLALKLNTDQEKTVEIDAEGPATVTAANIITDDDVEILNPEQYICT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + + M +TV G GYVPA +++++ PIG++ +D++++PI++V+Y VES R G+ Sbjct: 61 IANGGHLHMRMTVKTGRGYVPADQNKSDDMPIGVLPVDSIFTPIERVNYQVESTRVGKRN 120 Query: 197 DYDKLSMTIDTDGSITGE 214 D+DKL++ + T+GSI Sbjct: 121 DFDKLTLAVWTNGSIGPR 138 >gi|161511739|emb|CAP16880.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 166 Score = 147 bits (372), Expect = 2e-33, Method: Composition-based stats. Identities = 63/166 (37%), Positives = 103/166 (62%), Gaps = 2/166 (1%) Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 1 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 60 Query: 143 VRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 61 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDIN 246 L++ + TDGS+ ++++L+++IL + L +F+N ++ K+ + + Sbjct: 121 LTLDVWTDGSLAASEAISLSAKILTEHLTIFVNLDDQAKDTEIMVE 166 >gi|154424741|emb|CAL18473.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 155 Score = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 64/155 (41%), Positives = 104/155 (67%) Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 ++ GV ED+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE++NPD Sbjct: 1 FDTVPGVREDVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPD 60 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 H + + A + +TVS GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR Sbjct: 61 HYLFTIAEGASFQATMTVSTNRGYVPAEENKKDDAPVGTLAVDSIYTPVKKVNYQVEPAR 120 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 G +DKL++ I T+G+I ED++ L++R+L + Sbjct: 121 VGSNDGFDKLTIEIVTNGTIIPEDALGLSARVLIE 155 >gi|119662399|emb|CAJ33189.1| RNA polymerase alpha subunit [Lactobacillus equi] Length = 170 Score = 147 bits (370), Expect = 3e-33, Method: Composition-based stats. Identities = 62/170 (36%), Positives = 103/170 (60%), Gaps = 2/170 (1%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + LKM + + + I GP VTAGDI+ +D+EVLN D I + + + Sbjct: 1 ILNLKKVALKMDSEESQTLEIDVVGPLEVTAGDIKGPSDVEVLNDDLYIATVAEGHSLHV 60 Query: 146 ELTVSKGHGYVPAK--HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GYV A + ++ PIG++ ID++Y+PI++V+Y VE R GQ DYDKL++ Sbjct: 61 RMTADKGRGYVSANENKAKNDDMPIGVLAIDSIYTPIERVNYQVEKTRVGQKNDYDKLTL 120 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 + T+GSIT ++++L+++IL + L +F + + K V+ + + Sbjct: 121 DVWTNGSITPSEAISLSAKILTEHLTLFGDLTDEAKNVEIMVEKEESHKE 170 >gi|153805627|ref|YP_001382211.1| alpha subunit of RNA polymerase [Leptosira terrestris] gi|134270158|gb|ABO69347.1| alpha subunit of RNA polymerase [Leptosira terrestris] Length = 537 Score = 145 bits (367), Expect = 7e-33, Method: Composition-based stats. Identities = 45/193 (23%), Positives = 82/193 (42%), Gaps = 3/193 (1%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M +N E I + + P G T+ N LRR L+S L G AI Sbjct: 1 MDHENLNESIS-ISSIISRIETNRSFYGRFEIGPFAHGQGITVANMLRRTLLSELSGLAI 59 Query: 61 TAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGD 118 TAV+I HE ++ G+ E + DIILN+K + + + D + + +GP ++ A Sbjct: 60 TAVEIKEASHEYMTLPGISESVQDIILNLKQLIFRSNFDLKQPEFGFLSIQGPAIIKASH 119 Query: 119 IQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYS 178 + + I+ ++P+ I L + + +++ + +G Y G ++ + Sbjct: 120 FRLPSFIKCVDPNQYIATLAFNGQLNLKVQICQGKNYKFQTPLDLNWPGSGFLSSIHNSN 179 Query: 179 PIKKVSYTVESAR 191 +K Y + R Sbjct: 180 SKQKSFYIKNNTR 192 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 16/68 (23%), Positives = 38/68 (55%), Gaps = 3/68 (4%) Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDY-DKLSMTIDTDGSITGEDSVALASRI 223 ++ +DA+++P+ KV+Y + + +V + +++ + I T+GSIT + ++ A+ Sbjct: 466 IKTDNILPVDAIFTPVTKVNYLI--CLDEKVKPFKEQILLEIWTNGSITPKTAIYKAADC 523 Query: 224 LQDQLGMF 231 + D L Sbjct: 524 ILDLLLPL 531 >gi|2951864|gb|AAC05400.1| RNA polymerase alpha subunit [Buchnera aphidicola] gi|448401|prf||1917188B RNA polymerase:SUBUNIT=alpha Length = 113 Score = 145 bits (366), Expect = 8e-33, Method: Composition-based stats. Identities = 51/116 (43%), Positives = 74/116 (63%), Gaps = 3/116 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + +KP +E + T + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQNSIIGFLKPRLVEIEQI---TATHTKVTLEPLERGFGHTLGNALRRILLSSMPGYAVT 57 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 V+IDGVLHE S+ +GV ED+ +I+LN+K + +K+ G +++ K G G VTA Sbjct: 58 EVEIDGVLHEYSTKEGVQEDILEILLNLKELAVKVHGKDEVFMSLNKSGIGSVTAS 113 >gi|156619301|gb|ABU88330.1| RNA polymerase alpha subunit [Chlamydomonas moewusii] Length = 633 Score = 145 bits (366), Expect = 1e-32, Method: Composition-based stats. Identities = 45/147 (30%), Positives = 73/147 (49%), Gaps = 2/147 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + P + T+ N LRR L+S + G AI +V+I+G HE SS+ GV Sbjct: 12 RIENNRSFYGCFELGPFEPSQSLTIANTLRRTLLSEIYGLAIVSVEIEGASHEYSSLPGV 71 Query: 79 HEDLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 HE + DI+LN+K I LK S + + + RGPGVVT ++ I+ ++PD I Sbjct: 72 HESVLDILLNLKEIVLKKSIKNFTPQIGYLRARGPGVVTGSHLRLPPFIQCVDPDQYIAT 131 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRT 163 L + + ++ V G+ ++ + Sbjct: 132 LSHNGFLNIKFVVQYGNKWLASGRMPD 158 >gi|150187084|emb|CAK30167.1| RNA polymerase alpha subunit [Streptococcus hyovaginalis] Length = 165 Score = 144 bits (364), Expect = 2e-32, Method: Composition-based stats. Identities = 63/165 (38%), Positives = 106/165 (64%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+ IILN+KG+ +K + K + + +GP VTAGDI T +D+E++N DH + Sbjct: 1 GVREDVMQIILNVKGLAVKSYVEDEKIIELDVQGPAEVTAGDILTDSDVEIVNSDHYLFT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + A + +TV+ GYV A+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 IAEGASFKASMTVATNRGYVAAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSND 120 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +DKL++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 GFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKTT 165 >gi|150186957|emb|CAK30136.1| RNA polymerase alpha subunit [Streptococcus hyointestinalis] Length = 171 Score = 144 bits (363), Expect = 2e-32, Method: Composition-based stats. Identities = 64/169 (37%), Positives = 107/169 (63%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + Sbjct: 1 DVMQIILNVKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIAEG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DK Sbjct: 61 HSLKATMTVAKNRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 L++ I T+G+I ED++ L++RIL + L +F + E K + + Sbjct: 121 LTVEIMTNGTIIPEDALGLSARILIEHLNLFTDLTEVAKTTEVMKEAEQ 169 >gi|222446775|gb|ACM51431.1| RNA polymerase alpha subunit [Caulerpa filiformis] Length = 301 Score = 143 bits (362), Expect = 3e-32, Method: Composition-based stats. Identities = 52/235 (22%), Positives = 89/235 (37%), Gaps = 28/235 (11%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + + P T N+LRR L+ +QI GV HE SS+ GV Sbjct: 9 KIEKTGQFYGCFKIGPFQTHSGMTFANSLRRTLLEDNSRYIFDTIQISGVEHEYSSLIGV 68 Query: 79 HEDLTDIILNIK--------GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP 130 E + DII N++ ++L + + GPG++ A I D + P Sbjct: 69 RESVIDIIFNLQKLIFEVSDKVHLVGKDPKPQIAFLNFTGPGILRAQHIHLPKDFHFVYP 128 Query: 131 DHVICNLDVDAVVRME--------------LTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 D I L+VD + + L G G EN + +D+ Sbjct: 129 DQYIATLEVDGKLNFKLFFSPKIFQKKYKSLHSKSGSGRQMPPSVLLEN----YLFLDSD 184 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 + I++V+YT++S Q + + I T+GSI + ++ + + Sbjct: 185 FCSIERVNYTIQSGN--QNPKEEFILFEIWTNGSIHPQKAIYQGINEILLDFFPY 237 >gi|150187031|emb|CAK30155.1| RNA polymerase alpha subunit [Streptococcus urinalis 2285-97] Length = 169 Score = 143 bits (361), Expect = 3e-32, Method: Composition-based stats. Identities = 65/168 (38%), Positives = 107/168 (63%) Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV 139 ED+ IILN+KG+ +K D K V + GP +TAGDI T +DIE++NPDH + + Sbjct: 1 EDVMQIILNVKGLAVKSYVDDEKVVELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAE 60 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 ++ +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +D Sbjct: 61 GHSLKATMTVAKDRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFD 120 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 KL++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 121 KLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKATEVMKET 168 >gi|154424733|emb|CAL18469.1| RNA polymerase alpha subunit [Streptococcus pasteurianus] Length = 173 Score = 143 bits (360), Expect = 4e-32, Method: Composition-based stats. Identities = 64/173 (36%), Positives = 107/173 (61%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILNIKG+ +K D K + + GP VTAGDI T +D+E++NPDH + + Sbjct: 1 DVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 ++ +T++K GYVPA+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DK Sbjct: 61 HSLKATMTIAKNRGYVPAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFN 253 L++ I T+G+I ED++ L++R+L + L +F + E K + + Sbjct: 121 LTLEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKNTDVMKETEKVNDE 173 >gi|161511743|emb|CAP16882.1| DNA-directed RNA polymerase subunit alpha [Pediococcus claussenii] Length = 158 Score = 142 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 61/152 (40%), Positives = 96/152 (63%), Gaps = 2/152 (1%) Query: 83 TDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAV 142 T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC + Sbjct: 1 TQIILNLKKVSLKVESDEEKSLEINVMGPANVTAGDIVGDGDVTILNPELPICTVAEGTT 60 Query: 143 VRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 LT KG GY A ++ + PIG++ ID++Y+PI++V+Y VE+ R GQ DYDK Sbjct: 61 FHAVLTAEKGRGYTSADENKARKVDMPIGVLPIDSIYTPIERVNYQVENTRVGQRDDYDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 L++ + TDGS+ ++++L+++IL + L +F+ Sbjct: 121 LTLDVWTDGSLAASEAISLSAKILTEHLXIFV 152 >gi|67968322|dbj|BAE00222.1| RNA polymerase alpha chain like [Selaginella uncinata] Length = 245 Score = 142 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 51/215 (23%), Positives = 77/215 (35%), Gaps = 5/215 (2%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKG 77 + E + I P G A TLG A+RR GA T + + HE +I G Sbjct: 19 KVDNERPCHSRSIIPPPKIGQASTLGIAMRRAPPGESEGACTTPAGSPERINHEYPAIAG 78 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V E + + +N+K I L + + I GPG V A D + I ++ P + Sbjct: 79 VRESVHETSMNLKEIALTAHPSAAQEAHIPIVGPGKVAARDTVPPSSIGIIYPAQHAATV 138 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR-EGQVL 196 V G GY G DA+ PI+ +Y++ + Sbjct: 139 TRKIRSSTGSRVEGGCGYRRRNMV---EYQKGSPPPDAVSMPIRNANYSIHRLESHSGGI 195 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 + TDGS T ++ ASR + Sbjct: 196 MKEMPPPEARTDGSPTPGEATYEASRDSANLFSPV 230 >gi|304323004|ref|YP_003795543.1| alpha subunit of RNA polymerase [Floydiella terrestris] gi|270048203|gb|ACZ58498.1| alpha subunit of RNA polymerase [Floydiella terrestris] Length = 316 Score = 142 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 46/151 (30%), Positives = 69/151 (45%), Gaps = 2/151 (1%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 + P G + T+ NALRR L+S + G +T+V+I+GV HE S+I Sbjct: 28 KEEKENNQTFYGRFYIGPFEIGQSLTMANALRRSLLSEVPGLGLTSVEIEGVAHEYSTIP 87 Query: 77 GVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 GV E + DI+LNIK I K + + GP + A D+ I+ +NPD I Sbjct: 88 GVQETVFDILLNIKNIVFKSTTYLKKAEIGYCRASGPKTLRAKDLLLPAHIQCVNPDQYI 147 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 L D + M+L + +G Y+ Sbjct: 148 ATLKSDGTLNMKLKIRQGTHYLVNTPFEQSE 178 Score = 50.0 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/60 (21%), Positives = 28/60 (46%) Query: 169 GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + +D ++ P+ K +Y +E + + + I T+GSI+ ++ A + L L Sbjct: 247 KPLLLDPVFMPVTKANYVLELDERVHNSPKELIVLEIWTNGSISPHGALQTAIKKLVRLL 306 >gi|154424849|emb|CAL18527.1| RNA polymerase alpha subunit [Streptococcus ratti] Length = 170 Score = 142 bits (359), Expect = 6e-32, Method: Composition-based stats. Identities = 63/169 (37%), Positives = 106/169 (62%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILN+KG+ +K + K + + GP +TAGDI T +DIE++NPDH + + Sbjct: 1 DVMQIILNLKGLAVKSYVEEEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTIAEG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A ++ LTV GY+PA+ ++ ++ P+G + ID++Y+P+KKV+Y VE AR G ++DK Sbjct: 61 ASLKATLTVGTNRGYIPAEENKKDDAPVGTLAIDSIYTPVKKVNYQVEPARVGSNDNFDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKS 249 L++ I T+G+I ED++ L++R+L + L +F + E K + Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLPEVAKATDVMKETEQ 169 >gi|75764945|ref|ZP_00744283.1| DNA-directed RNA polymerase alpha chain [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74487569|gb|EAO51447.1| DNA-directed RNA polymerase alpha chain [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 119 Score = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 54/107 (50%), Positives = 75/107 (70%), Gaps = 2/107 (1%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + L E+ + EPL RG+ TLGN+LRR+L+SSL GAA+TA+QIDG Sbjct: 3 EIEKP-KIETVEL-NEDAKYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVTAIQIDG 60 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 VLHE S+++GV ED+T IILN+K + LK+ + K + I +G G+V Sbjct: 61 VLHEFSTVEGVVEDVTTIILNLKKLALKIYSEEEKTLEIDVQGEGIV 107 >gi|56807381|ref|ZP_00365362.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Streptococcus pyogenes M49 591] Length = 145 Score = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 55/144 (38%), Positives = 90/144 (62%) Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED++ L++R+L + L +F +F Sbjct: 1 YTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDFFF 60 Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K + + + L + +EEL+LSVRS NCL+ I + DL +++E +M+++ Sbjct: 61 VAKATEVMKETEKVNDEKVLDRTIEELDLSVRSYNCLKRAGINTVFDLTEKSEPEMMKVR 120 Query: 297 NFGRKSLVEIKGVLGTMGLFLGMN 320 N GR+SL E+K L +GL L + Sbjct: 121 NLGRRSLEEVKVKLADLGLGLKND 144 >gi|331268154|ref|YP_004347803.1| alpha subunit of RNA polymerase [Chlorella variabilis] gi|325296331|gb|ADZ05051.1| alpha subunit of RNA polymerase [Chlorella variabilis] Length = 239 Score = 142 bits (357), Expect = 1e-31, Method: Composition-based stats. Identities = 49/228 (21%), Positives = 97/228 (42%), Gaps = 13/228 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + +G A T NALRR L+S + G +T + ++G HE + + GV Sbjct: 15 RIQDQGSMYARFHLGTFIQGQALTFANALRRTLLSEIPGIIMTDILVEGASHEFAILPGV 74 Query: 79 HEDLTDIILNIKGINLKMS-------GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPD 131 E + DIILN+K + S + + GP ++ D++ ++ + P Sbjct: 75 EETVLDIILNLKKLVFAPSTSKLINLENFQATGFLKSCGPRKLSGADVKLPLTLKCVEPK 134 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE---NDPIGLITIDALYSPIKKVSYTVE 188 I + A + + + ++ + + +D + PI+KV+Y ++ Sbjct: 135 AHIATITNGAEFALRFNLEL-RNPQQSVTNKIYYPVENKTRKLVLDNVPMPIQKVNYVIK 193 Query: 189 SAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + Q L+Y + + + TDGS+ ++SV A + L + F + Sbjct: 194 ALNGKQGLEY--IVLEVWTDGSVLPQESVQFALKNLTNFFFQFAEMSK 239 >gi|154424729|emb|CAL18467.1| RNA polymerase alpha subunit [Streptococcus gallolyticus] Length = 167 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 64/167 (38%), Positives = 104/167 (62%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILNIKG+ +K D K + + GP VTAGDI T +D+E++NPDH + + Sbjct: 1 DVMQIILNIKGLAVKSYVDDEKIIELDVEGPAEVTAGDILTDSDVEIVNPDHYLFTIAEG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 ++ +TV+K GYV A+ ++ E+ P+G + +D++Y+P+KKV+Y VE AR G +DK Sbjct: 61 HSLKATMTVAKERGYVSAEGNKKEDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 L++ I T+G+I ED++ L++R+L + L +F + E K Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTEVAKSTDVMKET 167 >gi|119029438|gb|ABL59935.1| DNA-directed RNA polymerase alpha subunit [uncultured bacterium] Length = 219 Score = 141 bits (356), Expect = 1e-31, Method: Composition-based stats. Identities = 72/193 (37%), Positives = 115/193 (59%), Gaps = 4/193 (2%) Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQ 120 ++IDGVLH+ S++ G+ ED+ +++LN+K + ++ D + + K PG V A D Sbjct: 18 RIKIDGVLHDYSALDGLQEDVVEVLLNLKELAFNIASDENTVAINFEKSSPGPVLASDFA 77 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYS 178 ++IEV NP+ VICN+ ++MELT +G GY A + + IG++ +DA YS Sbjct: 78 DQSNIEVFNPNLVICNVTSGV-LKMELTAQRGRGYELAVNRDVDRNEKSIGVLQLDASYS 136 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 P+KKVSY VE AR G D DKL + ++T+G+I+ ED++ ++S ILQ QL F+N + Sbjct: 137 PVKKVSYNVEVARFGGRADLDKLVIDLETNGAISPEDAIRISSTILQQQLLAFVNLDSKL 196 Query: 239 KEVKEDINVKSLP 251 + + P Sbjct: 197 LKEPTKKEEEFDP 209 >gi|21039418|gb|AAM33638.1| RpoA [Pseudomonas putida] Length = 127 Score = 141 bits (355), Expect = 2e-31, Method: Composition-based stats. Identities = 58/130 (44%), Positives = 85/130 (65%), Gaps = 3/130 (2%) Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q D DKL + ++T+G++ E+++ A+ ILQ QL F++ + + V + Sbjct: 1 VEQRTDLDKLVIDLETNGTLDPEEAIRRAATILQQQLAAFVDLKGDSEPVVVEQE---DE 57 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +P LL+ V++LEL+VRS NCL+ ENI Y+GDLIQRTE ++L+ N G+KSL EIK VL Sbjct: 58 IDPILLRPVDDLELTVRSANCLKAENIYYIGDLIQRTEVELLKTPNLGKKSLTEIKDVLA 117 Query: 312 TMGLFLGMNL 321 + GL LGM L Sbjct: 118 SRGLSLGMRL 127 >gi|150036750|emb|CAM98028.1| DNA-directed RNA polymerase alpha chain [Leuconostoc gelidum KCTC 3527] Length = 153 Score = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 62/152 (40%), Positives = 95/152 (62%), Gaps = 2/152 (1%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+T IILN+K + L + D + + + +GP VTA D+Q D+EVLNPD I Sbjct: 2 VDGVVEDVTQIILNLKKVVLAIDSDEERSLEVDIQGPADVTAADLQAGADVEVLNPDLHI 61 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESARE 192 + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R Sbjct: 62 ATVAAGKSLHMTITAFKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRV 121 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 G DYDKL+ I T+GSI D+++L S+IL Sbjct: 122 GSRDDYDKLTFDIWTNGSIKPSDALSLGSKIL 153 >gi|156083567|ref|XP_001609267.1| DNA-directed RNA polymerase, alpha subunit [Babesia bovis T2Bo] gi|154796518|gb|EDO05699.1| DNA-directed RNA polymerase, alpha subunit, putative [Babesia bovis] Length = 676 Score = 140 bits (352), Expect = 4e-31, Method: Composition-based stats. Identities = 59/319 (18%), Positives = 119/319 (37%), Gaps = 46/319 (14%) Query: 8 ELIKPNNI----EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAV 63 +L P + + I++ P P TLG+ L+ + +S G + AV Sbjct: 234 DLDLPTKVKTASDLIMIPDTGRLYQKFYMGPYPITMGWTLGSLLKVLALSRSPGHGVVAV 293 Query: 64 QIDGVLHEISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 ++ + +E ++I GV +DL +I LN+ + L + RV +GP V AG I+ Sbjct: 294 KVHNM-NEDTTIDGVTDDLMNIALNLNEVALETLEPGGEARVRTVIKGPAQVCAGSIEWP 352 Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA------------------KHHRTE 164 + +++ PD I N++ + +E+ + G G A + E Sbjct: 353 SFVKIATPDAYITNVEEGGTLDIEIKIEWGRGLWLADYKGLYRHEDAADAVCMRRRRIKE 412 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLD---------YDKLSMTIDTDGSITG-- 213 D I + + V V G+ D ++L + + TD S T Sbjct: 413 VDEEDFHPITTFFGGCRMVRLAVHKL-IGERWDLITSSCPDPREQLVVEVWTDRSTTPKA 471 Query: 214 --EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 E ++ + +++ I + E ++ + L++ +++ + N Sbjct: 472 ALEFGLSESIAWIRELKRQLIQDADFDGEDEQLRDTWEKIDKYKSLQQRQQMMGGPPTYN 531 Query: 272 C--------LRGENIVYMG 282 L+ + Y+G Sbjct: 532 LHDTNAIPGLKESDCQYVG 550 >gi|150036734|emb|CAM98258.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 145 Score = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 59/145 (40%), Positives = 89/145 (61%), Gaps = 2/145 (1%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + GV ED+T IILN+K + L + D + + I +GP VTA D+Q D+EVLNPD I Sbjct: 1 VDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADVEVLNPDLHI 60 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESARE 192 + + M +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R Sbjct: 61 ATVAAGKSLHMTVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRV 120 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSV 217 G DYDKL+ I T+GSI D++ Sbjct: 121 GSRDDYDKLTFDIWTNGSIKPSDAL 145 >gi|161511777|emb|CAP16899.1| DNA-directed RNA polymerase subunit alpha [Pediococcus stilesii] Length = 141 Score = 139 bits (351), Expect = 5e-31, Method: Composition-based stats. Identities = 61/141 (43%), Positives = 86/141 (60%), Gaps = 2/141 (1%) Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 GV ED+T IILN+K ++LK+ D K + I GP VTAGDI D+ +LNP+ IC Sbjct: 1 GVVEDVTQIILNLKKVSLKIESDDEKTLDINVVGPANVTAGDIMGDGDVTILNPEAPICT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + LT G GY A ++ + PI ++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 61 VAEGTTFHAVLTADTGRGYTSADENKARKVDMPISVLPIDSIYTPIERVNYQVENTRVGQ 120 Query: 195 VLDYDKLSMTIDTDGSITGED 215 DYDKL++ I TDGSIT + Sbjct: 121 RDDYDKLTLDIWTDGSITPSE 141 >gi|21039420|gb|AAM33639.1| RpoA [Escherichia coli] Length = 127 Score = 139 bits (350), Expect = 7e-31, Method: Composition-based stats. Identities = 55/130 (42%), Positives = 87/130 (66%), Gaps = 3/130 (2%) Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 Q + DKL + ++T+G+I E+++ A+ IL +QL F++ + ++ ++ + Sbjct: 1 VEQRTNLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP---EVKEEKPE 57 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 58 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 117 Query: 312 TMGLFLGMNL 321 + GL LGM L Sbjct: 118 SRGLSLGMRL 127 >gi|150186949|emb|CAK30134.1| RNA polymerase alpha subunit [Streptococcus dysgalactiae subsp. dysgalactiae] Length = 161 Score = 138 bits (349), Expect = 9e-31, Method: Composition-based stats. Identities = 63/161 (39%), Positives = 105/161 (65%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + Sbjct: 1 DVMQIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 +R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DK Sbjct: 61 HSLRATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDK 120 Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 L++ I T+G+I ED++ L++R+L + L +F + + K Sbjct: 121 LTIEIMTNGTIIPEDALGLSARVLIEHLNLFTDLTDVAKAT 161 >gi|156099322|ref|XP_001615663.1| DNA-directed RNA polymerase, alpha subunit [Plasmodium vivax SaI-1] gi|148804537|gb|EDL45936.1| DNA-directed RNA polymerase, alpha subunit, putative [Plasmodium vivax] Length = 843 Score = 138 bits (348), Expect = 1e-30, Method: Composition-based stats. Identities = 55/288 (19%), Positives = 99/288 (34%), Gaps = 34/288 (11%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + I Q PL HT G L+ V + L G AI A++I + +E + I Sbjct: 426 DIIKYPQNGRLYQKFYIGPLNITDGHTFGTLLKYVCQTQLYGYAIVAIKIHNM-NEDTRI 484 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 V EDL +I LN+ + + + + + +GP ++ AG I + ++V+N + I Sbjct: 485 DNVQEDLLEIALNLSDVCIYSKEVNIETNIRLIFKGPLMLVAGMIPLPSHLQVVNKEQYI 544 Query: 135 CNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTENDPIGLITIDAL 176 C L D + + + + G G+ K E + I A Sbjct: 545 CTLKEDGHLDISIKIEYGKGHWLTYEKGLYKRELGSDNECMKKRQVKEVVEKNYMPISAS 604 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + + V V R L M I TD + ++ + + ++ L Sbjct: 605 FGTCRMVRMAVHKIATKYWCEDRCEFTDPKQMLVMEIWTDCRMLPKNVLLYGIKNIKKIL 664 Query: 229 GMFINF------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 F E +E + L+ +++E Sbjct: 665 RKFREMIISDSDFPSDAEDEEMKKLWPAIDRYKFLQTKQKMEGGPPIH 712 >gi|154424817|emb|CAL18511.1| RNA polymerase alpha subunit [Streptococcus minor] Length = 167 Score = 137 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 61/167 (36%), Positives = 103/167 (61%) Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 NIKGI +K + K++ + GP +TAGDI T +DIE++NPDH + + A + L Sbjct: 1 NIKGIAVKSYVEDEKKIELDVVGPAEITAGDILTDSDIEIVNPDHYLFTIGEGASFKAIL 60 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TV++G GYVPA+ ++ + P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T Sbjct: 61 TVNRGRGYVPAEGNKKDEAPVGTLAVDSIYTPVVKVNYQVEPARVGSNDGFDKLTLEIMT 120 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +G+ ED++ L++RIL + LG+F + + K + + + Sbjct: 121 NGTTNPEDALGLSARILMEHLGLFTDLTDVAKSAEVMKEAEPASDDR 167 >gi|313622252|gb|EFR92762.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua FSL J1-023] Length = 129 Score = 137 bits (346), Expect = 2e-30, Method: Composition-based stats. Identities = 53/124 (42%), Positives = 82/124 (66%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + I +GPGVVTA DI +D+E+LNPD I L +A + L ++G GY PA Sbjct: 1 EKTLEIDMQGPGVVTAADINYDSDVEILNPDLHIATLSDNAKFHVRLNATRGRGYTPADQ 60 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ EN PIG++ +D+++SP+ +V+Y VE+ R GQ +YDKL+ + TDGSI+ E++V+L Sbjct: 61 NKRENMPIGVLPVDSIFSPVIRVNYQVENTRVGQSTNYDKLTFDVLTDGSISPEEAVSLG 120 Query: 221 SRIL 224 + Sbjct: 121 ANSS 124 >gi|154424769|emb|CAL18487.1| RNA polymerase alpha subunit [Streptococcus criceti] Length = 168 Score = 137 bits (345), Expect = 2e-30, Method: Composition-based stats. Identities = 59/167 (35%), Positives = 107/167 (64%) Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMEL 147 N+KG+ +K + K + + +GP VTAGD+ T +DIE++NPDH + + ++ + Sbjct: 2 NVKGLAVKSYVEDEKTIELDVQGPAEVTAGDVLTDSDIEIINPDHYLFTIAEGHSLKATM 61 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 TV+K GYVPA+ +++++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T Sbjct: 62 TVAKNRGYVPAEGNKSDSAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMT 121 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 +G+I ED++ L++R+L + L +F + E K + +S+ + Sbjct: 122 NGTIIPEDALGLSARVLIEHLNLFTDLTEIAKTTEVMKETESVSNDQ 168 >gi|161511751|emb|CAP16886.1| DNA-directed RNA polymerase subunit alpha [Lactobacillus dextrinicus] Length = 138 Score = 137 bits (344), Expect = 4e-30, Method: Composition-based stats. Identities = 56/138 (40%), Positives = 92/138 (66%) Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 VTA DI+ +DIEVLNP+ IC++ V M++TVS G GYVPA ++ + PIG+I + Sbjct: 1 VTAADIKADDDIEVLNPEQYICSIAEGGHVHMQMTVSNGRGYVPADQNKNGDMPIGVIAV 60 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++++PI +V+Y VES R G+ D+DKL++ + T+GSI+ +++LA++IL D L +FI+ Sbjct: 61 DSIFTPINRVNYQVESTRVGKRNDFDKLTLDVWTNGSISPRXAISLAAKILSDHLNIFID 120 Query: 234 FEEPKKEVKEDINVKSLP 251 + K + + + Sbjct: 121 LSDEAKNTEIMVEKEETQ 138 >gi|150186925|emb|CAK30129.1| RNA polymerase alpha subunit [Streptococcus thermophilus] Length = 145 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 60/145 (41%), Positives = 98/145 (67%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILNIKG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + A + Sbjct: 1 ILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIAEGASFQA 60 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 +TVS GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I Sbjct: 61 TMTVSTNRGYVPAEENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEI 120 Query: 206 DTDGSITGEDSVALASRILQDQLGM 230 T+G+I ED++ L++R+L + L + Sbjct: 121 VTNGTIIPEDALGLSARVLIEHLNL 145 >gi|213517416|gb|ACJ50122.1| RNA polymerase alpha subunit [Chlamydomonas reinhardtii] Length = 737 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 40/157 (25%), Positives = 73/157 (46%), Gaps = 11/157 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ Sbjct: 27 RIENNTNFYGCFYLGPFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGM 86 Query: 79 HEDLTDIILNIKGINLKMS-----------GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E + D+I N++ I L+ + GP V+ A D++ ++ Sbjct: 87 KEPVLDLICNLQNIVLRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQC 146 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 ++P+ I L D + M+ +++G Y+ K + + Sbjct: 147 VDPNQYIATLAEDGFLNMKFNINEGKNYIKQKPYNLD 183 Score = 68.9 bits (167), Expect = 1e-09, Method: Composition-based stats. Identities = 20/58 (34%), Positives = 35/58 (60%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 L++S+RS L+ I + DLI+ ++ D+ + N G+KS+ EI+ L +GL L + Sbjct: 680 LKISLRSYTALKKAGITTLKDLIKYSKKDLFAIKNLGQKSVFEIEQNLALLGLTLVTD 737 >gi|119662829|emb|CAJ33207.1| RNA polymerase alpha subunit [Lactobacillus ingluviei] Length = 132 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 54/128 (42%), Positives = 83/128 (64%), Gaps = 1/128 (0%) Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR-TEN 165 +GP VTA DIQ D+ +LNPD I + A + M +T G GY A ++ + Sbjct: 1 DVKGPAEVTAADIQADGDVTILNPDLHIATVADGAELHMRMTADTGRGYNSADVNKARMD 60 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 IG++ ID++Y+PI++V+YTVE+ R GQ DYDKL++ + TDGS+T ++++LA++IL Sbjct: 61 LAIGVLPIDSIYTPIERVNYTVENTRVGQSNDYDKLTLDVWTDGSLTPTEAISLAAKILT 120 Query: 226 DQLGMFIN 233 L MF+N Sbjct: 121 SHLTMFVN 128 >gi|61676006|gb|AAX51668.1| DNA dependent RNA polymerase alpha subunit [Waddlia chondrophila WSU 86-1044] Length = 174 Score = 136 bits (343), Expect = 4e-30, Method: Composition-based stats. Identities = 67/174 (38%), Positives = 96/174 (55%), Gaps = 17/174 (9%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINL--- 94 G HTLGN+LRR++++SL AI V+I+GV HE +I + ED+T+IILNIKG L Sbjct: 1 GMGHTLGNSLRRLMLTSLEAPAIIGVRIEGVAHEYMAIDSIVEDMTNIILNIKGAKLRKL 60 Query: 95 --------KMSGDSHKRVTI------FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + G K + I +G V GDI EV+NP+H + + V Sbjct: 61 PMEDTPNARNRGLLTKVLEITQEDIDNGKGQYEVRLGDIVEGGIFEVVNPNHHVFTVTVP 120 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 +++L VS G GYVP++ H + I IDA ++P+K V+Y VE+ R GQ Sbjct: 121 MQKQVDLRVSFGRGYVPSERHVVNDKSTDEILIDAAFTPVKLVNYHVENTRVGQ 174 >gi|41179033|ref|NP_958389.1| RNA polymerase alpha subunit [Chlamydomonas reinhardtii] gi|32699675|sp|Q8HUH2|RPOA_CHLRE RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|23307781|gb|AAN17816.1| RNA polymerase alpha subunit [Chlamydomonas reinhardtii] gi|28269756|tpg|DAA00934.1| TPA_inf: RNA polymerase alpha subunit [Chlamydomonas reinhardtii] Length = 550 Score = 136 bits (342), Expect = 5e-30, Method: Composition-based stats. Identities = 40/157 (25%), Positives = 73/157 (46%), Gaps = 11/157 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + P + TL N LRR L+S L G AIT+++I+GVLH+ S++ G+ Sbjct: 27 RIENNTNFYGCFYLGPFDESLSQTLANDLRRTLLSELTGLAITSIEIEGVLHKFSTLTGM 86 Query: 79 HEDLTDIILNIKGINLKMS-----------GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E + D+I N++ I L+ + GP V+ A D++ ++ Sbjct: 87 KEPVLDLICNLQNIVLRKETISSTNMNYRATKKTYIGFLSVNGPRVIKAADLKLPAGLQC 146 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 ++P+ I L D + M+ +++G Y+ K + + Sbjct: 147 VDPNQYIATLAEDGFLNMKFNINEGKNYIKQKPYNLD 183 >gi|119662339|emb|CAJ33158.1| RNA polymerase alpha subunit [Lactobacillus paralimentarius] Length = 134 Score = 135 bits (340), Expect = 9e-30, Method: Composition-based stats. Identities = 51/134 (38%), Positives = 89/134 (66%) Query: 108 KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 GP VTA DI+ +D+E+L+P+ IC + M++TV G GY PA+ ++T+ P Sbjct: 1 VVGPATVTANDIKADDDLEILDPEQFICTVAEGGHFHMQMTVINGRGYTPAEQNKTDETP 60 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQ 227 IG++ +D++++P++KV+Y VE+ R G+ D+DKL++ I T+GSI ++++L+++IL + Sbjct: 61 IGVLPVDSIFTPVEKVNYQVENTRVGKRNDFDKLTIDIWTNGSIGPREAISLSAKILTEH 120 Query: 228 LGMFINFEEPKKEV 241 L F+N E K Sbjct: 121 LTSFVNLTEEAKSA 134 >gi|108796892|ref|YP_636190.1| alpha subunit of RNA polymerase [Pseudendoclonium akinetum] gi|122245934|sp|Q3ZJ77|RPOA_PSEAK RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|56159590|gb|AAV80614.1| alpha subunit of RNA polymerase [Pseudendoclonium akinetum] Length = 577 Score = 135 bits (340), Expect = 1e-29, Method: Composition-based stats. Identities = 55/199 (27%), Positives = 90/199 (45%), Gaps = 12/199 (6%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + P G A T+ NALRR L+S L G +IT V++ G +E I GV Sbjct: 48 RVENLTKFYGRFELGPFAPGQALTVANALRRSLLSQLPGTSITLVEVRGASNEYEIITGV 107 Query: 79 HEDLTDIILNIKGINLKMSGD--SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 E + DI+LN+K I L + S + + GPGV+ A D++ + I ++P+ I Sbjct: 108 RESILDILLNLKQIVLTSDFEIFSPQIGFLSVEGPGVIRANDLKLPSFIYAVDPNQYIAT 167 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L + M+ + G Y+ ND + S +KK ++S L Sbjct: 168 LSNSGRLNMKFLICCGKNYIT----YNPNDSQYFEWL----SLLKKSKPLIKS--NSPKL 217 Query: 197 DYDKLSMTIDTDGSITGED 215 + ++ ID+D SI ++ Sbjct: 218 NKGNINSEIDSDISIDKKN 236 Score = 117 bits (292), Expect = 3e-24, Method: Composition-based stats. Identities = 43/189 (22%), Positives = 79/189 (41%), Gaps = 33/189 (17%) Query: 162 RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALAS 221 ++ IG IDA++ PI +V+Y +ES + ++ D++ + + T+GSI ++ A+ Sbjct: 388 DHKSTKIGYFPIDAIFMPINRVNYLIESTEDIKLKIKDRVILEVWTNGSIHPRHAIHKAA 447 Query: 222 RILQDQLGMFINFEE------PKKEVKEDINVKSLPFNPALLK----------------- 258 + L +E + + + Sbjct: 448 KALIQLFLPLQQIRTNLFLISDNSHFEEGQDKIKKRIDNFKKEALLKANPQIQANPQLKK 507 Query: 259 ----------KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + LEL+ R +CL+ NI + DLI ++ D+L + NFGR+SL+E++ Sbjct: 508 RNFDHRLLELDIANLELTARPYSCLKLANINTIEDLISYSQEDLLSIKNFGRRSLIEVQK 567 Query: 309 VLGTMGLFL 317 L M L L Sbjct: 568 ALQLMKLTL 576 >gi|324533916|gb|ADY49343.1| DNA-directed RNA polymerase subunit alpha [Ascaris suum] Length = 179 Score = 134 bits (338), Expect = 1e-29, Method: Composition-based stats. Identities = 52/178 (29%), Positives = 98/178 (55%), Gaps = 5/178 (2%) Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 MELT G GY A +R + +I +D++Y+P+K SY VE R G + +YD+L + Sbjct: 1 MELTARTGIGYKLADENRGKEKKANVIYVDSIYTPVKVFSYRVEDTRVGDITNYDRLLID 60 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK----- 259 I+T+G+I+ E++++ ++ I+++ + + N EE + + I K + + Sbjct: 61 IETNGTISPEEALSYSAHIMKEHMMLVENIEEAINQSQVFIESKVEVDTQIVNETDNQNA 120 Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +E L++S R+ N L+ I + DL +T+ ++ + N G K++ EI+ L +G L Sbjct: 121 IETLDISNRAYNGLKKAGIDTIEDLCNKTKKEIAAVDNIGAKTVDEIQKQLQELGYVL 178 >gi|150186930|emb|CAK30130.1| RNA polymerase alpha subunit [Streptococcus salivarius] Length = 141 Score = 134 bits (338), Expect = 1e-29, Method: Composition-based stats. Identities = 58/141 (41%), Positives = 95/141 (67%) Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 D+ IILNIKG+ +K + K + + +GP VTAGDI T +DIE++NPDH + + Sbjct: 1 DVMQIILNIKGLAVKSYVEDEKTIELDVQGPAEVTAGDILTDSDIEIVNPDHYLFTIADG 60 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDK 200 A ++ +TV+ GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DK Sbjct: 61 ASLKATMTVATNRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDK 120 Query: 201 LSMTIDTDGSITGEDSVALAS 221 L++ I T+G+I ED++ L++ Sbjct: 121 LTIEIMTNGTIIPEDALGLSA 141 >gi|323149183|ref|YP_004222012.1| alpha subunit of RNA polymerase [Coccomyxa sp. C-169] gi|317467239|gb|ADV29860.1| alpha subunit of RNA polymerase [Coccomyxa sp. C-169] Length = 624 Score = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 44/144 (30%), Positives = 66/144 (45%), Gaps = 2/144 (1%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHE 80 + P G T+ ALRR L+S L+G AI+AV+I G H+ SSI GV E Sbjct: 14 EGNGSIYGRFLLGPFKVGQGTTVATALRRTLLSELQGIAISAVEIKGATHQYSSIAGVRE 73 Query: 81 DLTDIILNIKGINLKMSGDS--HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLD 138 DI+LN+K I L + + +GP A D++ N I ++ D I ++ Sbjct: 74 STLDIVLNLKQIVLTGDVRNGLPAVGYLAVQGPKAARARDLKLPNGIRCVDGDQYIASVS 133 Query: 139 VDAVVRMELTVSKGHGYVPAKHHR 162 + + M+ +S G YV Sbjct: 134 ANGSLTMKFVISAGKNYVSPHSPS 157 Score = 65.4 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 24/199 (12%), Positives = 63/199 (31%), Gaps = 54/199 (27%) Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 + IDA++ P+ KV+++++ + Q +++ + I T+GS+ ++ A+ L Sbjct: 427 EMDSSPLPIDAVFMPVNKVNFSLQIDDQWQE-PRERVILEIWTNGSLHPRQAIGEAASYL 485 Query: 225 QDQLGMFINFEEPK---------------------------------------------- 238 + + Sbjct: 486 VYLFSLLRQGDASPAATVQPSPQLRGLGWGTADQRGRTNLQSVEGGGREGEGSSGGMSSY 545 Query: 239 -KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 +K + +L+LS+++ L+ + D++ + + + Sbjct: 546 RATIKHPSPRALPGPGRDRSTDIADLDLSIQAYALLKRAGVHTFRDVMSLS---LNSIKG 602 Query: 298 FGRKS---LVEIKGVLGTM 313 G S L+EI ++ + Sbjct: 603 GGLASPAILLEIDALIKRL 621 >gi|289445057|ref|ZP_06434801.1| LOW QUALITY PROTEIN: probable DNA-directed RNA polymerase rpoa [Mycobacterium tuberculosis T46] gi|289417976|gb|EFD15216.1| LOW QUALITY PROTEIN: probable DNA-directed RNA polymerase rpoa [Mycobacterium tuberculosis T46] Length = 173 Score = 134 bits (338), Expect = 2e-29, Method: Composition-based stats. Identities = 37/128 (28%), Positives = 71/128 (55%) Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + ++T SI+ D++A A + L + G+ + ++ + + ++ Sbjct: 19 ILDVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPID 78 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 +L+L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + Sbjct: 79 DLDLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSP 138 Query: 322 PDWPPESI 329 P + P + Sbjct: 139 PSFDPSEV 146 >gi|262286213|gb|ACY41680.1| RNA polymerase alpha subunit [Streptococcus anginosus SK52] Length = 140 Score = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 60/140 (42%), Positives = 94/140 (67%) Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE++NPDH + + Sbjct: 1 VREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTI 60 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 GEGASLKAIMTVNTGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDG 120 Query: 198 YDKLSMTIDTDGSITGEDSV 217 +DKL++ I TDG+I ED++ Sbjct: 121 FDKLTLEIMTDGTIIPEDAL 140 >gi|108773091|ref|YP_636000.1| alpha subunit of RNA polymerase [Scenedesmus obliquus] gi|115311625|sp|P19587|RPOA_SCEOB RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|88696657|gb|ABD48283.1| alpha subunit of RNA polymerase [Scenedesmus obliquus] Length = 478 Score = 134 bits (337), Expect = 2e-29, Method: Composition-based stats. Identities = 47/155 (30%), Positives = 78/155 (50%), Gaps = 4/155 (2%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + K Q+ + + +L P + T+ NALRR L++ L AIT Sbjct: 1 MNKKIQDFFL--SCKECILENPRSFYGSFSLGPFKNSQSLTVANALRRTLLAELSNIAIT 58 Query: 62 AVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDI 119 ++I+GV HE S++ GV E + D++LN KGI LK + K + + RGPGVV A D+ Sbjct: 59 HLEIEGVTHEYSTLVGVRESVLDLLLNFKGIALKNTSPVTKPLFGYLQVRGPGVVRASDL 118 Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 + I+ ++PD I L+ + + ++ +S Sbjct: 119 KFPPMIQCVDPDQYIATLNENGKLILKFRISDFKN 153 Score = 62.7 bits (151), Expect = 9e-08, Method: Composition-based stats. Identities = 35/216 (16%), Positives = 71/216 (32%), Gaps = 53/216 (24%) Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQ-VLDYDKLSMTIDTDGSITGEDSVAL 219 ++ + + +D L++PI KV+Y +E+ Q + + + + + T+GSI + Sbjct: 261 FDSQKNKTNSLWVDPLFNPILKVNYIIETIEPMQKNIPNEIVFIELWTNGSIHPRKAFYT 320 Query: 220 ASRILQDQL--------------------------------------------------- 228 A L+ Sbjct: 321 ALLYLKTMFDKLDCMRLLNYEFSNTMLESEKTSTKFFKTFEYDFRFYNSREDKTMKSFTP 380 Query: 229 -GMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 F+ E E +N+K+ N + L L R T L N +GDL++ Sbjct: 381 EKFFLPEEIEDVEKDYLLNLKNQADNTWNDLPLTNLNLPYRITKILAKNNFFVVGDLLKI 440 Query: 288 TEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + ++ +++ G + ++ +GL LG Sbjct: 441 SPNELKKLSGIGNYCVFILQKRFEKLGLKLGSRNEK 476 >gi|262286211|gb|ACY41679.1| RNA polymerase alpha subunit [Streptococcus intermedius] Length = 140 Score = 133 bits (336), Expect = 3e-29, Method: Composition-based stats. Identities = 60/140 (42%), Positives = 94/140 (67%) Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILN+KGI +K + K + + GP +TAGDI T +DIE++NPDH + + Sbjct: 1 VREDVMQIILNVKGIAVKSYVEDEKTIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTI 60 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 A ++ +TV+ G GYVPA ++ ++ P+G + +D++Y+P+KKV+Y VE AR G Sbjct: 61 GEGASLKAIMTVNAGRGYVPADENKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDG 120 Query: 198 YDKLSMTIDTDGSITGEDSV 217 +DKL++ I TDG+I ED++ Sbjct: 121 FDKLTLEIMTDGTIIPEDAL 140 >gi|262286159|gb|ACY41653.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286161|gb|ACY41654.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286163|gb|ACY41655.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286167|gb|ACY41657.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286169|gb|ACY41658.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286171|gb|ACY41659.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286173|gb|ACY41660.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286175|gb|ACY41661.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286197|gb|ACY41672.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286199|gb|ACY41673.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286201|gb|ACY41674.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286203|gb|ACY41675.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286205|gb|ACY41676.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286207|gb|ACY41677.1| RNA polymerase alpha subunit [Streptococcus mitis] gi|262286209|gb|ACY41678.1| RNA polymerase alpha subunit [Streptococcus mitis] Length = 140 Score = 133 bits (335), Expect = 3e-29, Method: Composition-based stats. Identities = 60/140 (42%), Positives = 93/140 (66%) Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKGI +K + K + + GP VTAGDI T +DIE++NPDH + + Sbjct: 1 VREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTI 60 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 61 GEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDG 120 Query: 198 YDKLSMTIDTDGSITGEDSV 217 +DKL++ I T+G+I ED++ Sbjct: 121 FDKLTLEILTNGTIIPEDAL 140 >gi|150036846|emb|CAM98288.1| DNA-directed RNA polymerase alpha chain [Fructobacillus pseudoficulneus] Length = 169 Score = 133 bits (334), Expect = 5e-29, Method: Composition-based stats. Identities = 62/169 (36%), Positives = 98/169 (57%), Gaps = 2/169 (1%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + I +GP VTA D+ DIEVLNPD I L + M +T KG GY A+ Sbjct: 1 EHALEIDVQGPKDVTAADLMGSADIEVLNPDLHIATLAAGKALHMTVTAVKGRGYSSAEE 60 Query: 161 HRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ + PIG++T+D++Y+PI++V+Y VE+ R G DYDKL+M + T+GSI D+++ Sbjct: 61 NKQLRDEMPIGVLTVDSIYTPIERVNYHVENKRVGSRDDYDKLTMEVWTNGSIKPSDALS 120 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 L S+IL + L +F + ++ K + + A +E+L+LSV Sbjct: 121 LGSKILTEHLNLFTDISPVAQDTKVMVESEPAANTAADAAPIEDLDLSV 169 >gi|262286165|gb|ACY41656.1| RNA polymerase alpha subunit [Streptococcus pneumoniae] gi|262286177|gb|ACY41662.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286179|gb|ACY41663.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286181|gb|ACY41664.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286183|gb|ACY41665.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286185|gb|ACY41666.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286187|gb|ACY41667.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286189|gb|ACY41668.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286191|gb|ACY41669.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286193|gb|ACY41670.1| RNA polymerase alpha subunit [Streptococcus oralis] gi|262286195|gb|ACY41671.1| RNA polymerase alpha subunit [Streptococcus oralis] Length = 140 Score = 132 bits (332), Expect = 7e-29, Method: Composition-based stats. Identities = 59/140 (42%), Positives = 93/140 (66%) Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 V ED+ IILNIKGI +K + K + + GP +TAGDI T +DIE++NPDH + + Sbjct: 1 VREDVMQIILNIKGIAVKSYVEDEKIIELDVEGPAEITAGDILTDSDIEIVNPDHYLFTI 60 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLD 197 + ++ +TV+ G GYVPA ++ +N P+G + +D++Y+P+ KV+Y VE AR G Sbjct: 61 GEGSSLKATMTVNSGRGYVPADENKKDNAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDG 120 Query: 198 YDKLSMTIDTDGSITGEDSV 217 +DKL++ I T+G+I ED++ Sbjct: 121 FDKLTLEILTNGTIIPEDAL 140 >gi|83858541|ref|ZP_00952063.1| DNA-directed RNA polymerase alpha subunit [Oceanicaulis alexandrii HTCC2633] gi|83853364|gb|EAP91216.1| DNA-directed RNA polymerase alpha subunit [Oceanicaulis alexandrii HTCC2633] Length = 81 Score = 132 bits (332), Expect = 9e-29, Method: Composition-based stats. Identities = 57/80 (71%), Positives = 70/80 (87%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++ELELSVRS NCL+ +NIVY+GDLIQ++EA+MLR NFGRKSL EIK VL MGL LGM Sbjct: 1 MDELELSVRSANCLKNDNIVYIGDLIQKSEAEMLRTPNFGRKSLNEIKEVLAQMGLHLGM 60 Query: 320 NLPDWPPESIEELAKKYEDK 339 + P+WPPE+IE+LAKKYED+ Sbjct: 61 DAPNWPPENIEDLAKKYEDQ 80 >gi|207109275|ref|ZP_03243437.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 176 Score = 132 bits (331), Expect = 9e-29, Method: Composition-based stats. Identities = 54/179 (30%), Positives = 87/179 (48%), Gaps = 5/179 (2%) Query: 160 HHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + E P G + +D ++PIKKV Y +E+ +Y+K+ I+TDG I + Sbjct: 3 ENTRELMPEGYMPLDGSFTPIKKVVYEIENVLVEGDPNYEKIIFDIETDGQIDPYKAFLS 62 Query: 220 ASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIV 279 A +++ QLG+F E P ++ + L K+E + LS R NCL I Sbjct: 63 AVKVMSKQLGVF--GERPIANMEYSGDYAQRDDAKDLSAKIESMNLSARCFNCLDKIGIK 120 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 Y+G+L+ +E ++ + N G+KS EI L +G +G L E E L K+ E+ Sbjct: 121 YVGELVLMSEEELKGVKNMGKKSYDEIAEKLNDLGYPVGTELS---LEQRESLKKRLEN 176 >gi|119662291|emb|CAJ33132.1| RNA polymerase alpha subunit [Lactobacillus collinoides] Length = 135 Score = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 62/135 (45%), Positives = 88/135 (65%), Gaps = 3/135 (2%) Query: 79 HEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 ED+T IILN K I+LK+ G D + + I +GP VTAGDI +D+ VLNPD I Sbjct: 1 VEDVTQIILNTKKISLKLEGPDDEIESMEIDVKGPAQVTAGDITADSDVTVLNPDLYIAT 60 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHR-TENDPIGLITIDALYSPIKKVSYTVESAREGQV 195 + A M +T +KG GYV A ++ E+ PIG++ ID++Y+PI++V+Y VE+ R GQ Sbjct: 61 VAEGATFHMRMTANKGRGYVSADRNKAKEDMPIGVLPIDSIYTPIERVNYQVENTRVGQR 120 Query: 196 LDYDKLSMTIDTDGS 210 DYDKL++ + TD S Sbjct: 121 DDYDKLTLDVWTDSS 135 >gi|208751315|gb|ACI31270.1| RNA polymerase alpha subunit [Volvox carteri] gi|261888190|gb|ACY06045.1| alpha subunit of RNA polymerase [Volvox carteri f. nagariensis] Length = 768 Score = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 40/157 (25%), Positives = 76/157 (48%), Gaps = 11/157 (7%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ Sbjct: 27 RIENNTSFYGCFYLGPFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGM 86 Query: 79 HEDLTDIILNIKGINLKMSG-----------DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E + D+I N++ I LK R + GP V+ A D++ + ++ Sbjct: 87 KETVLDLICNLQSIVLKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQC 146 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 ++P+ I L D ++ M+L +++G ++ K H + Sbjct: 147 VDPNQYIATLAEDGLLNMKLNINEGKNFIKQKPHNLD 183 Score = 69.6 bits (169), Expect = 6e-10, Method: Composition-based stats. Identities = 30/136 (22%), Positives = 64/136 (47%), Gaps = 6/136 (4%) Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 + +Y +A + +++DK + + E S ++ ++ + + Sbjct: 635 RNNYNFYNADHIKKINFDKK------NRRLHRETSEQTSTSFAFGKIKLLLEQPGNTSTR 688 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 K +N AL + L++S+R+ L+ I+ + DL++ ++ D+L++ N G+K Sbjct: 689 KTYLNQMKFYSQAALKAPIGILKISLRAYTALKKAGILTINDLVKCSKNDLLKINNLGKK 748 Query: 302 SLVEIKGVLGTMGLFL 317 SLV I+ L +GL L Sbjct: 749 SLVLIETSLSYLGLTL 764 >gi|221058981|ref|XP_002260136.1| DNA-directed RNA polymerase, alpha subunit,truncated [Plasmodium knowlesi strain H] gi|193810209|emb|CAQ41403.1| DNA-directed RNA polymerase, alpha subunit,truncated, putative [Plasmodium knowlesi strain H] Length = 805 Score = 132 bits (331), Expect = 1e-28, Method: Composition-based stats. Identities = 54/288 (18%), Positives = 99/288 (34%), Gaps = 34/288 (11%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + I Q PL HT G L+ V + + G AI A+++ + +E + I Sbjct: 403 DIIKYPQNGRLYQKFYIGPLNITDGHTFGTLLKYVCQTQVYGYAIVAIKVHNM-NEDTRI 461 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 V EDL +I LN+ + + + V + +GP +V AG I + ++V+N + I Sbjct: 462 DNVQEDLLEIALNLSDVCIYSKEINIETNVRLIFKGPLMVVAGMIPLPSHLQVVNKEQYI 521 Query: 135 CNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTENDPIGLITIDAL 176 C L D + + + + G G+ K E + I A Sbjct: 522 CTLKEDGYLDISIKIEYGKGHWLTYEKGLYKREVGSDNECMKKRQVKEVVEKNYMPISAS 581 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + + V V R L M I +D + ++ + + ++ L Sbjct: 582 FGSCRMVRMAVHKIATKYWCEDRCEFTDPKQMLVMEIWSDCRMLPKNVLLYGIKNIKKIL 641 Query: 229 GMFINF------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRST 270 F E +E + L+ +++E Sbjct: 642 RKFREMIISDTDFPSDVEDEEIKKLWPAIDRYKFLQTKQKMEGGPPIY 689 >gi|150187079|emb|CAK30166.1| RNA polymerase alpha subunit [Streptococcus parasanguinis ATCC 15912] Length = 150 Score = 131 bits (329), Expect = 2e-28, Method: Composition-based stats. Identities = 58/150 (38%), Positives = 92/150 (61%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K + + GP VTAGDI T +DIE++NPDH + + A ++ LTV+ G GYVPA Sbjct: 1 EKIIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTIGEGASLKATLTVNSGRGYVPADQ 60 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALA 220 ++ ++ P+G + +D++Y+P+ KV+Y VE AR G +DKL++ I T+G+I ED++ L+ Sbjct: 61 NKKDDAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLEILTNGTIIPEDALGLS 120 Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +RIL + L +F N E V + Sbjct: 121 ARILTEHLNLFTNLTEIAIATDVMKEVDTT 150 >gi|246880788|gb|ACS95100.1| alpha subunit of RNA polymerase [Dunaliella salina] Length = 547 Score = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 42/162 (25%), Positives = 70/162 (43%), Gaps = 25/162 (15%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + + G + T+ NALRR L+S G AI +V+ID V HE S++ GV Sbjct: 5 RIENNKSFYGCFYLGSFDSGQSITVANALRRSLLSDCTGLAIISVKIDAVQHEYSTLPGV 64 Query: 79 HEDLTDIILNIKGINLK-------------------------MSGDSHKRVTIFKRGPGV 113 + + DI+LN K I LK + + +GPG+ Sbjct: 65 RDSVLDILLNFKEIVLKKVKNPFGGPNGYKNKGLSSVYDKVGSTFFKPVVGYLKVKGPGI 124 Query: 114 VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + A D++ I+ ++P+ I L D V+ ++ + +G Y Sbjct: 125 IRAKDLRLPPFIQCVDPNQYIATLAEDGVLNVKFVIMEGKSY 166 >gi|115443569|ref|YP_778588.1| RNA polymerase alpha subunit [Bigelowiella natans] gi|122221272|sp|Q06J39|RPOA_BIGNA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=RNAP subunit alpha; AltName: Full=RNA polymerase subunit alpha; AltName: Full=Transcriptase subunit alpha gi|110810214|gb|ABG91420.1| RNA polymerase alpha subunit [Bigelowiella natans] Length = 358 Score = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 63/340 (18%), Positives = 125/340 (36%), Gaps = 49/340 (14%) Query: 23 EEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDL 82 + + P + A N LRRVL+S ITAV I G HE S + GV E Sbjct: 16 KRNYYSRFYIGPFLKNQAFLYSNVLRRVLLSDSSNIVITAVNIVGAKHEYSLLPGVRESS 75 Query: 83 TDIILNIKGINLK----MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL- 137 D++LN+K + + + GP ++ DI N I ++ I + Sbjct: 76 LDLLLNLKELVFVKDIYTKFNKSYFAYLKSNGPKIIRCSDIILPNTIYAVDSTQYIATIS 135 Query: 138 -DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL-----------ITIDALYSPIKKVSY 185 + +++M+LT + + + ++ + + ID +S + KV+ Sbjct: 136 NNKSLILKMKLTANLLNNFYSNLNYELNSLLSYYTNDILEKTNFSLIIDPNFSCVNKVNS 195 Query: 186 TVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 ++ S + + D +S+ + T+ S + + + + + + + +++ Sbjct: 196 SLISLDNLENYN-DSISLEVWTNSSYSPRIIIQNSIKSMVNLFLSIYDTSFIDIKLENSD 254 Query: 246 NVKSLP-------------------------------FNPALLKKVEELELSVRSTNCLR 274 N L ++EL+LS+ S L+ Sbjct: 255 NFLENHLVSLSNRATFFKKSFFNICTEFNTVKYKTSFDKNLTLISIDELDLSIYSKFLLK 314 Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 NI+ + DL + + + R N K+L I+ + G Sbjct: 315 RHNILTLYDLFKIDKRVLERFYNISYKTLQSIERKMVKYG 354 >gi|11466523|ref|NP_044772.1| RNA polymerase subunit alpha [Reclinomonas americana] gi|7388081|sp|O21260|RPOA_RECAM RecName: Full=DNA-directed RNA polymerase subunit alpha, mitochondrial; Short=RNA polymerase subunit alpha; AltName: Full=Transcriptase alpha chain gi|2258353|gb|AAD11887.1| RNA polymerase subunit alpha [Reclinomonas americana] Length = 222 Score = 130 bits (327), Expect = 3e-28, Method: Composition-based stats. Identities = 62/235 (26%), Positives = 117/235 (49%), Gaps = 18/235 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 M+ K P+ I + + + N ++ PL + F+ + N LR+++ G +I Sbjct: 1 MVHK------TPSFRPIIHVLKHDFNSIQVLIGPLEKNFSGSFANLLRKIIFRYTSGVSI 54 Query: 61 TAVQIDGV--LHEISSIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTA 116 ++I+G+ LH S I GV ED+ +++ N+K + +++ +TI K+GP ++ + Sbjct: 55 IGLKINGIDSLHSYSLIPGVKEDVLNVLNNLKHLLIQIDDYDYKPILLTIQKKGPYIIKS 114 Query: 117 GDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL 176 DI ++I++LN D IC L+ D+ + + L G GYV + + + ++ D Sbjct: 115 KDIICPSNIKILNDDLYICTLENDSQIDLTLIGDIGCGYVLSTYF---GNRKSIVYSDTN 171 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 + PIK VSY V S Y++L I T+G+ + A L+D++ + Sbjct: 172 FCPIKHVSYYVRSY-----TTYEELIFYIKTNGTCNPLFVMKNAFSFLKDKINIT 221 >gi|150186973|emb|CAK30139.1| RNA polymerase alpha subunit [Streptococcus porcinus] Length = 161 Score = 130 bits (326), Expect = 4e-28, Method: Composition-based stats. Identities = 57/157 (36%), Positives = 97/157 (61%) Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 G+ +K + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+ Sbjct: 1 GLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVA 60 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+ Sbjct: 61 KKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGT 120 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 I ED++ L++R+L + L +F + E K Sbjct: 121 IIPEDALGLSARVLIEHLNLFTDLTEVAKATDVMKET 157 >gi|55274199|gb|AAV48981.1| DNA-directed RNA polymerase [Leuconostoc pseudomesenteroides] Length = 101 Score = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 47/102 (46%), Positives = 65/102 (63%), Gaps = 4/102 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KPN I +E+ + EPL RG+ TLGN+LRR+L+SSL GAA+ VQIDG Sbjct: 3 EFEKPN----IHNIEEDARYGKFVIEPLERGYGTTLGNSLRRILLSSLPGAAVNTVQIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR 109 V+HE S++ GV ED+T IILN+K + L + D + + I + Sbjct: 59 VVHEFSTVDGVVEDVTQIILNLKKVVLAIDSDDERSLEIDVQ 100 >gi|108792413|emb|CAJ33201.1| RNA polymerase alpha subunit [Lactobacillus acidipiscis] Length = 133 Score = 129 bits (325), Expect = 5e-28, Method: Composition-based stats. Identities = 53/133 (39%), Positives = 88/133 (66%), Gaps = 2/133 (1%) Query: 116 AGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK--HHRTENDPIGLITI 173 AGDIQ +++EVLNPD IC + A +T +KG GYV A +TE+ PIG++ I Sbjct: 1 AGDIQGSSEVEVLNPDLYICTVADGASFHARMTANKGRGYVSANENKAKTEDMPIGVLAI 60 Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 D++Y+PI++V+Y VE R GQ D+DKL++ + T+GSIT ++++L+++IL + L +F++ Sbjct: 61 DSIYTPIERVNYQVEKTRVGQKSDFDKLTLDVWTNGSITPSEAISLSAKILTEHLTLFVD 120 Query: 234 FEEPKKEVKEDIN 246 + K + + Sbjct: 121 LTDEAKNAEIMVE 133 >gi|119662799|emb|CAJ33191.1| RNA polymerase alpha subunit [Lactobacillus jensenii] Length = 117 Score = 129 bits (324), Expect = 7e-28, Method: Composition-based stats. Identities = 55/117 (47%), Positives = 79/117 (67%) Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE 126 GVLHE S++ GV ED+T I+LN+K + LK D K V + GP VTAGD++ +++ Sbjct: 1 GVLHEFSTVPGVREDVTKIVLNLKKLELKSIADEEKIVELDVEGPATVTAGDLKVDSEVT 60 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV 183 VLNPD IC + + M++ V G GYVPA ++T++ PIG+I +D+L+SPIKKV Sbjct: 61 VLNPDQYICTVAEGGHLHMQIAVKNGRGYVPASENKTDDMPIGVIPVDSLFSPIKKV 117 >gi|218755234|ref|ZP_03534030.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 153 Score = 129 bits (324), Expect = 7e-28, Method: Composition-based stats. Identities = 37/126 (29%), Positives = 71/126 (56%) Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +++T SI+ D++A A + L + G+ + ++ + + +++L Sbjct: 1 SVETKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDL 60 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 +L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P Sbjct: 61 DLTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPS 120 Query: 324 WPPESI 329 + P + Sbjct: 121 FDPSEV 126 >gi|119662387|emb|CAJ33182.1| RNA polymerase alpha subunit [Lactobacillus acidifarinae] Length = 132 Score = 128 bits (323), Expect = 8e-28, Method: Composition-based stats. Identities = 61/132 (46%), Positives = 87/132 (65%), Gaps = 4/132 (3%) Query: 84 DIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA 141 IILN+K I LK++G D + + I +GP VTAGDI D++VLNPD I + A Sbjct: 1 QIILNVKKIALKLNGADDQEETMEINVKGPAQVTAGDIVAGADVDVLNPDLYIATVADGA 60 Query: 142 VVRMELTVSKGHGYVPAKHHRTEN--DPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 M +T KG GYV A ++T N PIG++ +D++Y+PI++V+Y VE+AR GQ DYD Sbjct: 61 TFHMRMTADKGRGYVSADENKTRNTEMPIGVLAVDSIYTPIERVNYQVENARVGQRADYD 120 Query: 200 KLSMTIDTDGSI 211 KL++ + T+GSI Sbjct: 121 KLTLDVWTNGSI 132 >gi|225466312|ref|XP_002271159.1| PREDICTED: similar to Os04g0237300, partial [Vitis vinifera] Length = 274 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 37/119 (31%), Positives = 63/119 (52%), Gaps = 4/119 (3%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +++ + +N I PL +G A T+G A+RR L+ + G IT + + + Sbjct: 156 RTLQWKCVESRVDNKRLCYGRFILSPLIKGQADTIGIAMRRALLGEIEGTCITRAKSEKI 215 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 HE S+I G+ E + +I++N+K I L+ + + I RGPG VTA DI + +E+ Sbjct: 216 PHEYSTIVGIQESVHEILMNLKEIVLRSNLYGTRGAFICARGPGYVTAQDIISPPSVEI 274 >gi|154424739|emb|CAL18472.1| RNA polymerase alpha subunit [Streptococcus oligofermentans] Length = 136 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 57/136 (41%), Positives = 89/136 (65%) Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKGI +K K + + GP VTAGDI T +DIE++NPDH + + A + Sbjct: 1 IILNIKGIAVKSYVQDEKMIELDVEGPAEVTAGDILTDSDIEIVNPDHYLFTISEGARFK 60 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 ++ V+ G GYVPA ++ ++ P+G + +D++Y+P+ KV+Y VE AR G +DKL++ Sbjct: 61 AKMAVNSGRGYVPADENKKDDAPVGTLAVDSIYTPVTKVNYQVEPARVGSNDGFDKLTLE 120 Query: 205 IDTDGSITGEDSVALA 220 I T+G+I ED++ L+ Sbjct: 121 ILTNGTIIPEDALGLS 136 >gi|119672817|emb|CAK95488.1| RNA polymerase alpha subunit [Lactobacillus johnsonii] Length = 115 Score = 128 bits (322), Expect = 1e-27, Method: Composition-based stats. Identities = 57/113 (50%), Positives = 78/113 (69%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K I GP +VTA D++ +DIEVLNPD IC++ + M + + G GYVPA Sbjct: 2 EKIAEIDVTGPAIVTAADLKVDSDIEVLNPDQYICSIADGGHLHMNVAIKTGRGYVPASE 61 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 ++T++ PIG+I +D+L+SPIKKV+Y VESAR G+ DYDKL++ I TDGSIT Sbjct: 62 NKTDDMPIGVIPVDSLFSPIKKVNYQVESARVGKRDDYDKLTLEIWTDGSITP 114 >gi|150036730|emb|CAM98256.1| DNA-directed RNA polymerase alpha chain [Leuconostoc citreum] Length = 133 Score = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 53/133 (39%), Positives = 80/133 (60%), Gaps = 2/133 (1%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 ILN+K + L + D + + I +GP VTA D+Q D+EVLNPD I + + M Sbjct: 1 ILNLKKVVLAIDSDDERSLEIDVQGPADVTAADLQAGADVEVLNPDLHIATVAAGKSLHM 60 Query: 146 ELTVSKGHGYVPAKHHRT--ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 +T KG GY A ++ + PIG++ +D++Y+PI++V+Y VE+ R G DYDKL+ Sbjct: 61 TVTAVKGRGYSSADENKQLRDEMPIGVLAVDSIYTPIERVNYHVENTRVGSRDDYDKLTF 120 Query: 204 TIDTDGSITGEDS 216 I T+GSI D+ Sbjct: 121 DIWTNGSIKPSDA 133 >gi|260202639|ref|ZP_05770130.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis T46] gi|289763639|ref|ZP_06523017.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] gi|289711145|gb|EFD75161.1| DNA-directed RNA polymerase subunit alpha [Mycobacterium tuberculosis GM 1503] Length = 152 Score = 127 bits (320), Expect = 2e-27, Method: Composition-based stats. Identities = 37/125 (29%), Positives = 70/125 (56%) Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 ++T SI+ D++A A + L + G+ + ++ + + +++L+ Sbjct: 1 METKNSISPRDALASAGKTLVELFGLARELNVEAEGIEIGPSPAEADHIASFALPIDDLD 60 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDW 324 L+VRS NCL+ E + +G+L+ RTE+D+L + NFG+KS+ E+K L +GL L + P + Sbjct: 61 LTVRSYNCLKREGVHTVGELVARTESDLLDIRNFGQKSIDEVKIKLHQLGLSLKDSPPSF 120 Query: 325 PPESI 329 P + Sbjct: 121 DPSEV 125 >gi|68075539|ref|XP_679688.1| DNA-directed RNA polymerase, alpha subunit, truncated, [Plasmodium berghei strain ANKA] gi|56500488|emb|CAH98184.1| DNA-directed RNA polymerase, alpha subunit, truncated, putative [Plasmodium berghei] Length = 727 Score = 127 bits (318), Expect = 4e-27, Method: Composition-based stats. Identities = 52/303 (17%), Positives = 107/303 (35%), Gaps = 39/303 (12%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + ++ Q PL HT G+ ++ V S + G AI ++I + +E + I Sbjct: 325 DVLIYPQNGRLYQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHNM-NEDTKI 383 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + EDL +I LN+ + + + + + +GP ++ AG I + ++V+N + I Sbjct: 384 ENTQEDLLEIALNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYI 443 Query: 135 CNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTENDPIGLITIDAL 176 C + + + + + + G G+ K E + A Sbjct: 444 CTIKENGYIDISIKIEYGKGHWITYDKGLYKREIGSDNECMKKRQIKEVVNNNYTPLTAS 503 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +SP + V TV R L + I TD + ++ + + ++ L Sbjct: 504 FSPCRMVRITVHKIATKYWCEDRCEFTDPKQMLVVEIWTDPRMLPKNVLLYGIKNIKKIL 563 Query: 229 GMFINFEEP------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC-----LRGEN 277 F +E +E + L+ +++E N + N Sbjct: 564 NKFREMIINDTDFPCDQEDREIKKLWPFIDRYKYLQTKQKMEGGPPIVNVDEELNTKNTN 623 Query: 278 IVY 280 + Sbjct: 624 VNT 626 >gi|84999732|ref|XP_954587.1| DNA-directed RNA polymerase alpha chain [Theileria annulata] gi|65305585|emb|CAI73910.1| DNA-directed RNA polymerase alpha chain, putative [Theileria annulata] Length = 680 Score = 126 bits (317), Expect = 4e-27, Method: Composition-based stats. Identities = 51/278 (18%), Positives = 97/278 (34%), Gaps = 34/278 (12%) Query: 11 KPNNI----EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 P + + I + P P T+G+ L+ + S G A+ AV+I Sbjct: 242 TPTKVKEASDLIRIPDTGRLYQKFYMGPYPVTMGWTIGSLLKVMTQSRCPGHAVVAVKIH 301 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGINLKMSGD-SHKRVTIFKRGPGVVTAGDIQTVNDI 125 + + +++ GV +DL +I LN K + L+ RV +GP +V AG ++ + Sbjct: 302 NMNKD-TTVDGVADDLLNIALNFKMVALQTLEPGKEARVRTKIKGPAMVCAGALEWPPFV 360 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA------------------KHHRTENDP 167 ++ NP+ I L+ A + +E+ + G G+ A + E Sbjct: 361 KICNPESYITKLEEGAELDLEIKIEWGRGFWMADSKGLYRVEEGANSLCQKRRDIKEVKE 420 Query: 168 IGLITIDALYSPIKKVSYTVESAREGQVL---------DYDKLSMTIDTDGSITGEDSVA 218 G ++ + + V GQ D+L + I TD S T + + Sbjct: 421 EGFYPTSCVFGGCRMIRLAVHKL-MGQRWCSLTYTCPDPMDQLVVEIWTDVSTTPKHVLE 479 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPAL 256 + L + + + + Sbjct: 480 FGLCEVIAWLTELKRQVSHDVDFENEDEQLKDIWEKID 517 >gi|154483161|ref|ZP_02025609.1| hypothetical protein EUBVEN_00862 [Eubacterium ventriosum ATCC 27560] gi|149735969|gb|EDM51855.1| hypothetical protein EUBVEN_00862 [Eubacterium ventriosum ATCC 27560] Length = 127 Score = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 57/125 (45%), Positives = 83/125 (66%), Gaps = 4/125 (3%) Query: 51 LMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFK 108 ++SSL G+A++ ++IDGVLHE SS+ GV ED+T+I+LNIK + +K + D K I Sbjct: 1 MLSSLPGSAVSQIKIDGVLHEFSSVPGVKEDVTEIVLNIKQLEIKNNSTTDEPKVAHIDV 60 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDA--VVRMELTVSKGHGYVPAKHHRTEND 166 G VVTA DIQ +DIE+LNPD VI L+ A + MEL ++KG GYV ++ ++ ++ Sbjct: 61 TGDCVVTAADIQVDSDIEILNPDLVIATLNGGADSKLSMELIITKGRGYVSSEKNKNDSL 120 Query: 167 PIGLI 171 PI Sbjct: 121 PIRCY 125 >gi|254701950|ref|ZP_05163778.1| DNA-directed RNA polymerase subunit alpha [Brucella suis bv. 5 str. 513] Length = 70 Score = 126 bits (316), Expect = 6e-27, Method: Composition-based stats. Identities = 50/72 (69%), Positives = 57/72 (79%), Gaps = 2/72 (2%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI 60 MIQKNWQELIKPN +++I G ++AEPL RGF TLGNALRRVL+SSLRGAA+ Sbjct: 1 MIQKNWQELIKPNKVDFITHGSRT--HATVVAEPLERGFGLTLGNALRRVLLSSLRGAAV 58 Query: 61 TAVQIDGVLHEI 72 TAVQIDGVLHE Sbjct: 59 TAVQIDGVLHEF 70 >gi|150186905|emb|CAK30124.1| RNA polymerase alpha subunit [Streptococcus gallinaceus] Length = 138 Score = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 56/138 (40%), Positives = 92/138 (66%) Query: 85 IILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVR 144 IILNIKGI +K + K + + GP +TAGDI T +DIE++NPDH + + A + Sbjct: 1 IILNIKGIAVKSYVEDEKTIELDVVGPAEITAGDILTDSDIEIVNPDHYLFTIAAGATFK 60 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 +TV+ G GY+PA+ ++ ++ P+G + +D++Y+P+ KV+Y VE AR G +DKL++ Sbjct: 61 AVMTVNTGRGYIPAEGNKKDDAPVGTLAVDSIYTPVVKVNYQVEPARVGSNDGFDKLTLE 120 Query: 205 IDTDGSITGEDSVALASR 222 I T+G+ ED++ L++R Sbjct: 121 IMTNGTTIPEDALGLSAR 138 >gi|150187003|emb|CAK30148.1| RNA polymerase alpha subunit [Streptococcus parauberis] Length = 161 Score = 125 bits (313), Expect = 1e-26, Method: Composition-based stats. Identities = 54/160 (33%), Positives = 95/160 (59%) Query: 96 MSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 + K + + GP VTAGDI T +DIE++NPDH + + ++ +TV+K GY Sbjct: 1 SYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSLKATMTVAKKRGY 60 Query: 156 VPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 +PA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ I T+G+I ED Sbjct: 61 IPAEGNKQDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTIEIMTNGTIIPED 120 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 ++ L++R+L + L +F + E K + + Sbjct: 121 ALGLSARVLIEHLNLFTDLTEVAKTTDVMKETEKVNDEKI 160 >gi|82540505|ref|XP_724565.1| DNA-directed RNA polymerase [Plasmodium yoelii yoelii str. 17XNL] gi|23479250|gb|EAA16130.1| DNA-directed RNA polymerase [Plasmodium yoelii yoelii] Length = 803 Score = 123 bits (309), Expect = 4e-26, Method: Composition-based stats. Identities = 52/303 (17%), Positives = 107/303 (35%), Gaps = 39/303 (12%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + ++ Q PL HT G+ ++ V S + G AI ++I + +E + I Sbjct: 401 DVLIYPQNGRLYQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHNM-NEDTKI 459 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + EDL +I LN+ + + + + + +GP ++ AG I + ++V+N + I Sbjct: 460 ENTQEDLLEIALNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYI 519 Query: 135 CNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTENDPIGLITIDAL 176 C + + + + + + G G+ K E + A Sbjct: 520 CTIKENGYIDISIKIEYGKGHWITYDKGLYKREIGSDNECMKKRQIKEVVNNNYTPLTAS 579 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 +SP + V TV R L + I TD + ++ + + ++ L Sbjct: 580 FSPCRMVRTTVHKIATKYWCEDRCEFTDPKQMLVVEIWTDPRMLPKNVLLYGIKNIKKIL 639 Query: 229 GMFINFEEP------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC-----LRGEN 277 F +E +E + L+ +++E N + N Sbjct: 640 KKFREMIINDTDFPCDQEDREIKKLWPFIDRYKYLQTKQKMEGGPPIVNIDEELNTKNNN 699 Query: 278 IVY 280 + Sbjct: 700 VNT 702 >gi|258597949|ref|XP_001348869.2| DNA-directed RNA polymerase, alpha subunit, putative [Plasmodium falciparum 3D7] gi|255528941|gb|AAN37308.2| DNA-directed RNA polymerase, alpha subunit, putative [Plasmodium falciparum 3D7] Length = 861 Score = 123 bits (308), Expect = 5e-26, Method: Composition-based stats. Identities = 56/326 (17%), Positives = 120/326 (36%), Gaps = 44/326 (13%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + I Q + PL HT G+ ++ V + + G AI +++ + +E + I Sbjct: 468 DIIKYPQNGKLYQKFYIGPLNITDGHTFGSLIKYVCQTQIYGYAIVGIKVHNM-NEDTKI 526 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 V EDL +I LNI + + + + + +GP ++ AG I + ++++N +H I Sbjct: 527 NNVQEDLLEIALNISDVCIYSKEINLESNIRLIFKGPLMLVAGMIPLPSHLKIINKEHYI 586 Query: 135 CNLDVDAVVRMELTVSKGHGYV------------------PAKHHRTENDPIGLITIDAL 176 C + D + + + + G G+ K E + I + Sbjct: 587 CTIKEDGFIDISIKIEYGKGHWLTYDKGLYKRERGSDNDCMKKREIKEVVHKNYMPISSS 646 Query: 177 YSPIKKVSYTVESA--------REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQL 228 + + + TV R L + I TD + ++ + + ++ L Sbjct: 647 FGACRMIRLTVHKIATKFWCEDRCEFTDPKQMLVVEIWTDCRMLPKNVLLYGIKNIKKIL 706 Query: 229 GMFINFEEP------KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG 282 F ++E +E N+ L+ +++E N + Sbjct: 707 RKFREMIVKDTDFTFQEEEQEIKNLWPAIDKYKFLQTRQKMEGGPPIHNIDEDV----LS 762 Query: 283 DLIQRTEA------DMLRMANFGRKS 302 + IQ+ ++ +++ NF + S Sbjct: 763 EQIQKNKSLDPFSQELMNPDNFPKHS 788 >gi|289804411|ref|ZP_06535040.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 74 Score = 122 bits (306), Expect = 7e-26, Method: Composition-based stats. Identities = 36/77 (46%), Positives = 50/77 (64%), Gaps = 3/77 (3%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQIDGVLHEISSIKGV 78 V+IDGVLHE S+ +GV Sbjct: 58 EVEIDGVLHEYSTKEGV 74 >gi|58618634|gb|AAW80815.1| RNA polymerase alpha subunit [Polytrichadelphus purpureus] Length = 165 Score = 122 bits (306), Expect = 7e-26, Method: Composition-based stats. Identities = 46/163 (28%), Positives = 82/163 (50%), Gaps = 20/163 (12%) Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + PI+ +Y+V S + + L + I T+GSIT ++++ ASR L D F++ E+ Sbjct: 1 FMPIRNANYSVHSFENNNKI-QEILFIEIWTNGSITPKEALYEASRSLXDLFIPFLHTEK 59 Query: 237 PKK------EVKEDINVKSLPFNPALLKKVEEL----------ELSVRSTNCLRGENIVY 280 + E K + F+P K +E+ ELS R+ NCL+ N+ Sbjct: 60 KETIDGLKTEYKSNDMSDFSSFSPLANKSTKEITFKHIFIDQLELSARAYNCLKRVNVHT 119 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + DL+ ++ D++++ NFG+KS ++ VL + +NLP Sbjct: 120 ISDLLNYSQDDLMKIKNFGKKS---VEQVLEALXKXFSINLPK 159 >gi|221060799|ref|XP_002261969.1| dna-directed rna polymerase alpha chain [Plasmodium knowlesi strain H] gi|193811119|emb|CAQ41847.1| dna-directed rna polymerase alpha chain,putative [Plasmodium knowlesi strain H] Length = 674 Score = 120 bits (300), Expect = 4e-25, Method: Composition-based stats. Identities = 50/226 (22%), Positives = 95/226 (42%), Gaps = 9/226 (3%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM---SGDSH 101 NA RRV M L+G +TA++I + HE I GV E+ D+ N++ I K + D Sbjct: 322 NAFRRVAMKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLAQNLRQITFKNVPENIDMD 381 Query: 102 KRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 +T +GP +V AG +Q IE++N + IC++ + + M++ + YV Sbjct: 382 NYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGSYLEMDVKIESIEEYVMPE 441 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ + + + + + TDGSIT + Sbjct: 442 YGSQSRNRDICKDNFIHFSSSCTPVEYFGFMGQRRGINLDTLGEINIVEMHTDGSITPKS 501 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N +D +V+ NP + Sbjct: 502 ALLKTIDYISENFQYMENALYNNCHTCDDGSVEEEFRNPEFYMDKD 547 >gi|119672809|emb|CAK95485.1| RNA polymerase alpha subunit [Lactobacillus mucosae] Length = 121 Score = 119 bits (299), Expect = 5e-25, Method: Composition-based stats. Identities = 49/121 (40%), Positives = 77/121 (63%), Gaps = 2/121 (1%) Query: 120 QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT--ENDPIGLITIDALY 177 Q D+ +LNPD I + A + + +T KG GYVPA ++ IG + ID++Y Sbjct: 1 QGDGDVTILNPDLHIATVADGAELHIMMTADKGRGYVPADQNKLRLSGLEIGTLPIDSIY 60 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 +PI++V+YTVE+ R GQ D+DKL++ + TDGS+T +++LA++IL + L MF+N E Sbjct: 61 TPIERVNYTVENTRVGQSNDFDKLTLDVWTDGSLTPTAAISLAAKILTEHLEMFVNLTEE 120 Query: 238 K 238 Sbjct: 121 A 121 >gi|154424749|emb|CAL18477.1| RNA polymerase alpha subunit [Streptococcus pyogenes] Length = 128 Score = 118 bits (297), Expect = 1e-24, Method: Composition-based stats. Identities = 54/128 (42%), Positives = 86/128 (67%) Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV 143 IILN+KG+ +K + K + + GP VTAGDI T +DIE++NPDH + + + Sbjct: 1 QIILNVKGLAVKSYVEDEKIIELEVEGPAEVTAGDILTDSDIELVNPDHYLFTIAEGHSL 60 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSM 203 R +TV+K GYVPA+ ++ ++ P+G + +D++Y+P+KKV+Y VE AR G +DKL++ Sbjct: 61 RATMTVAKKRGYVPAEGNKKDDAPVGTLAVDSIYTPVKKVNYQVEPARVGSNDGFDKLTI 120 Query: 204 TIDTDGSI 211 I T+G+I Sbjct: 121 EIMTNGTI 128 >gi|56554702|pdb|1XS9|D Chain D, A Model Of The Ternary Complex Formed Between Mara, The Alpha-Ctd Of Rna Polymerase And Dna Length = 84 Score = 118 bits (297), Expect = 1e-24, Method: Composition-based stats. Identities = 46/82 (56%), Positives = 61/82 (74%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 2 SHFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 61 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L + GL LGM L +WPP SI + Sbjct: 62 LASRGLSLGMRLENWPPASIAD 83 >gi|228311784|pdb|2JZB|A Chain A, Solution Structure Of The Complex Between E.Coli Nusa-Ar2 And Rnap-Actd Length = 99 Score = 118 bits (297), Expect = 1e-24, Method: Composition-based stats. Identities = 46/90 (51%), Positives = 65/90 (72%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 + ++ + F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+K Sbjct: 9 QPEVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKK 68 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 SL EIK VL + GL LGM L +WPP SI + Sbjct: 69 SLTEIKDVLASRGLSLGMRLENWPPASIAD 98 >gi|156102625|ref|XP_001617005.1| hypothetical protein [Plasmodium vivax SaI-1] gi|148805879|gb|EDL47278.1| hypothetical protein, conserved [Plasmodium vivax] Length = 668 Score = 118 bits (296), Expect = 1e-24, Method: Composition-based stats. Identities = 48/226 (21%), Positives = 93/226 (41%), Gaps = 9/226 (3%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGD 99 NA RRV + L+G +TA++I + HE I GV E+ D+ N++ I K D Sbjct: 316 NAFRRVAIKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLAQNLRHITFKNVPEEADID 375 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 ++ +GP +V AG +Q IE++N + IC++ + + M++ + YV Sbjct: 376 NYITGKFRIKGPMIVVAGHMQLPKGIEIVNKNQYICSVSAGSYLEMDVKIESIEEYVMPE 435 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ + + + + + TDGSIT + Sbjct: 436 YGSQSRNRDICKDNFIHFSSSCTPVEYFGFMGQRRGINLDTLGEINIVEMHTDGSITPKS 495 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N +D V+ NP + Sbjct: 496 ALLKTIDYISENFQYMENALYNNCHTCDDGTVQEEFRNPEFYMDKD 541 >gi|24158833|pdb|1LB2|B Chain B, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna Polymerase In Complex With Cap And Dna gi|24158834|pdb|1LB2|E Chain E, Structure Of The E. Coli Alpha C-Terminal Domain Of Rna Polymerase In Complex With Cap And Dna Length = 84 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 46/82 (56%), Positives = 61/82 (74%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK V Sbjct: 2 PEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDV 61 Query: 310 LGTMGLFLGMNLPDWPPESIEE 331 L + GL LGM L +WPP SI + Sbjct: 62 LASRGLSLGMRLENWPPASIAD 83 >gi|81301|pir||S05342 DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - green alga KS3/2 chloroplast (fragment) Length = 129 Score = 117 bits (294), Expect = 2e-24, Method: Composition-based stats. Identities = 41/114 (35%), Positives = 62/114 (54%), Gaps = 2/114 (1%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 +L P + T+ NALRR L++ L AIT ++I+GV HE S++ GV Sbjct: 16 ILENPRSFYGSFSLGPFKNSQSLTVANALRRTLLAELSNIAITHLEIEGVTHEYSTLVGV 75 Query: 79 HEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQTVNDIEVLNP 130 E + D++LN KGI LK + K + + RGPGVV A D++ I+ ++P Sbjct: 76 RESVLDLLLNFKGIALKNTSPVTKPLFGYLQVRGPGVVRASDLKFPPMIQCVDP 129 >gi|157830665|pdb|1COO|A Chain A, The Cooh-Terminal Domain Of Rna Polymerase Alpha Subunit Length = 98 Score = 117 bits (293), Expect = 3e-24, Method: Composition-based stats. Identities = 46/80 (57%), Positives = 61/80 (76%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 F+P LL+ V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL Sbjct: 18 FDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLA 77 Query: 312 TMGLFLGMNLPDWPPESIEE 331 + GL LGM L +WPP SI + Sbjct: 78 SRGLSLGMRLENWPPASIAD 97 >gi|119662855|emb|CAJ33220.1| RNA polymerase alpha subunit [Lactobacillus vaginalis] Length = 120 Score = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 50/118 (42%), Positives = 77/118 (65%) Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 KG+ LK+ + K + I GP VTAGDI +D+E+LN D +IC++ A LTV Sbjct: 3 KGLALKLYAEEEKTLEIDITGPATVTAGDIIVDSDVEILNKDLIICSVSEGATFHARLTV 62 Query: 150 SKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G GYV A ++ E+ PIG++ +D++Y+P+++V+Y VE+ R G+ D+DKL+M I T Sbjct: 63 KPGRGYVQADENKKEDMPIGVLPVDSIYTPVRRVNYQVENTRVGRRDDFDKLTMEIWT 120 >gi|253795635|ref|YP_003038731.1| putative DNA-directed RNA polymerase, alpha subunit [Candidatus Hodgkinia cicadicola Dsem] gi|253739943|gb|ACT34278.1| putative DNA-directed RNA polymerase, alpha subunit [Candidatus Hodgkinia cicadicola Dsem] Length = 228 Score = 116 bits (291), Expect = 4e-24, Method: Composition-based stats. Identities = 64/195 (32%), Positives = 99/195 (50%), Gaps = 6/195 (3%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGD 99 AHTL ALRR LM+ + G A+ + +DG H ++ +GV ED+ + N I + Sbjct: 25 AHTLAVALRRTLMARVEGWAVVGLCVDGAAHALARAEGVIEDVLGVAANAARIVFEGECG 84 Query: 100 SHKRVTIFKR-GPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA 158 S + V R GVVTAG + + V+N + +C++ V R E V++G GY+ A Sbjct: 85 SRRVVKAVVRASAGVVTAGQLVLPEGLRVVNTNERVCSVGAGCVFRAEFVVARGVGYMRA 144 Query: 159 KHHRTENDPI--GLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDS 216 R + G +DA +SP+K+VSY V SA + + D +L I+T+G + G + Sbjct: 145 AQARARWSRVLAGYTVVDAHFSPVKRVSYKVSSAEDDRSCDRAQLV--IETNG-VDGAHA 201 Query: 217 VALASRILQDQLGMF 231 V A R L + Sbjct: 202 VVDACRELSRCFQLV 216 >gi|153820406|ref|ZP_01973073.1| DNA-directed RNA polymerase alpha chain [Vibrio cholerae NCTC 8457] gi|126509049|gb|EAZ71643.1| DNA-directed RNA polymerase alpha chain [Vibrio cholerae NCTC 8457] Length = 75 Score = 116 bits (290), Expect = 6e-24, Method: Composition-based stats. Identities = 43/74 (58%), Positives = 56/74 (75%) Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + V++LEL+VRS NCL+ E I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL L Sbjct: 1 RPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSL 60 Query: 318 GMNLPDWPPESIEE 331 GM L +WPP SI E Sbjct: 61 GMRLENWPPASIAE 74 >gi|83314615|ref|XP_730437.1| DNA-directed RNA polymerase subunit alpha [Plasmodium yoelii yoelii str. 17XNL] gi|23490159|gb|EAA22002.1| DNA-directed RNA polymerase alpha chain [Plasmodium yoelii yoelii] Length = 656 Score = 116 bits (290), Expect = 6e-24, Method: Composition-based stats. Identities = 51/226 (22%), Positives = 95/226 (42%), Gaps = 9/226 (3%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 NA RRV + L+G +TA++I G+ HE I GV E+ D+ N++ I K + Sbjct: 304 NAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDLSQNLRQITFKNVPEDADMN 363 Query: 104 ----VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 +GP +V AG +Q +IE++N + IC + + + M++ + YV Sbjct: 364 NYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 423 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ +T + + + + + TDGSIT + Sbjct: 424 YGSQSRNRDICKDNFIHFCSSCTPVEYFGFTGQRRGINLDILGEINIVEMHTDGSITPKT 483 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N ED +V+ NP E Sbjct: 484 ALLKTIDYMSENFQYIENALHNNCHSCEDGSVEEEFRNPEFYMDKE 529 >gi|300431274|gb|ADK12602.1| RNA polymerase alpha subunit [Pappostipa vaginata] Length = 167 Score = 116 bits (290), Expect = 6e-24, Method: Composition-based stats. Identities = 45/164 (27%), Positives = 82/164 (50%), Gaps = 20/164 (12%) Query: 174 DALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 DA+ P++ V+Y++ S G ++ L + I T+GS+T ++++ ASR L D F++ Sbjct: 1 DAVSMPVRNVNYSIFSCGNGNE-KHEILFLEIWTNGSLTPKEALYEASRNLIDLFLPFLH 59 Query: 234 FEEPKKEVKEDINVKSLPFNPALLKK----------------VEELELSVRSTNCLRGEN 277 EE +E+ N + P K +++LEL R+ NCL+ N Sbjct: 60 AEEEGTSFEENKNRFTPPLFTFQKKLTNLKKNKKGIPLNCIFIDQLELPSRTYNCLKRAN 119 Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 I + DL+ +TE D++R+ +F + + K + + L +NL Sbjct: 120 IHTLLDLLSKTEEDLMRIDSF---RMEDGKQIWDNLEKHLPINL 160 >gi|307702712|ref|ZP_07639664.1| DNA-directed RNA polymerase alpha chain domain protein [Streptococcus oralis ATCC 35037] gi|307623828|gb|EFO02813.1| DNA-directed RNA polymerase alpha chain domain protein [Streptococcus oralis ATCC 35037] Length = 115 Score = 115 bits (287), Expect = 1e-23, Method: Composition-based stats. Identities = 44/114 (38%), Positives = 69/114 (60%) Query: 207 TDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELS 266 T+G+I ED++ L++RIL + L +F N E K + + + L + +EEL+LS Sbjct: 2 TNGTIIPEDALGLSARILTEHLDLFTNLTEIAKSTEVMKEADTESDDRILDRTIEELDLS 61 Query: 267 VRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 VRS NCL+ I + DL +++EA+M+++ N GRKSL E+K L +GL L Sbjct: 62 VRSYNCLKRAGINTVHDLTEKSEAEMMKVRNLGRKSLEEVKLKLIDLGLGLKDK 115 >gi|119662287|emb|CAJ33130.1| RNA polymerase alpha subunit [Lactobacillus buchneri] Length = 125 Score = 114 bits (286), Expect = 2e-23, Method: Composition-based stats. Identities = 49/124 (39%), Positives = 76/124 (61%), Gaps = 2/124 (1%) Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSPIKKVSYTV 187 PD I + A M LT +KG GYV A R+ PIG++ +D++Y+PI++V+Y V Sbjct: 1 PDLHIATVAEGATFHMRLTANKGRGYVSAVENKKRSSEMPIGVLPVDSIYTPIERVNYQV 60 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 ES R GQ D+DKL++ I TDGSIT ++V+LA++IL + L MF++ + K + + Sbjct: 61 ESTRVGQRDDFDKLTLDIWTDGSITPSEAVSLAAKILTEHLEMFVDLTDEAKNTEIMVEK 120 Query: 248 KSLP 251 + Sbjct: 121 EETH 124 >gi|70945266|ref|XP_742471.1| DNA-directed RNA polymerase alpha chain [Plasmodium chabaudi chabaudi] gi|56521474|emb|CAH79423.1| DNA-directed RNA polymerase alpha chain, putative [Plasmodium chabaudi chabaudi] Length = 529 Score = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 52/226 (23%), Positives = 98/226 (43%), Gaps = 9/226 (3%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM---SGDSH 101 NA RRV + L+G TA++I G+ HE I GV E+ D+ N++ I K + D + Sbjct: 255 NAFRRVAIKHLKGGRATALRIPGMKHEYYCIVGVRENFFDLSQNLRQITFKNVPENADMN 314 Query: 102 KRVT--IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 +T +GP +V AG +Q +IE++N + IC + + + M++ + YV Sbjct: 315 NYITGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 374 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ +T + + + + + TDGSIT + Sbjct: 375 YGSQSRNRDICKDNFIHFCSSCTPVEHFGFTGQRRGINLDVLGEINIVEMHTDGSITPKT 434 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N ED +++ NP E Sbjct: 435 ALLKTIDYMSENFQYMENALHNNCHSCEDGSLEEEFRNPEFYMDKE 480 >gi|169835538|ref|ZP_02868726.1| hypothetical protein cdivTM_00193 [candidate division TM7 single-cell isolate TM7a] Length = 96 Score = 114 bits (285), Expect = 2e-23, Method: Composition-based stats. Identities = 36/91 (39%), Positives = 55/91 (60%) Query: 20 LGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + EPL G+ +TLGN+LRRVLMSS+ GAA+ + +I+G HE +++ G+ Sbjct: 6 IEDYSSTSAAFTVEPLRGGYGNTLGNSLRRVLMSSIHGAAVISFKIEGATHEFTTVPGIK 65 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKRG 110 ED+ DI LN+K + +KM D + + K G Sbjct: 66 EDVVDISLNLKSVKIKMHTDDPIELRLEKHG 96 >gi|124512894|ref|XP_001349803.1| DNA-directed RNA polymerase alpha chain, putative [Plasmodium falciparum 3D7] gi|23615220|emb|CAD52210.1| DNA-directed RNA polymerase alpha chain, putative [Plasmodium falciparum 3D7] Length = 619 Score = 113 bits (284), Expect = 3e-23, Method: Composition-based stats. Identities = 47/226 (20%), Positives = 97/226 (42%), Gaps = 9/226 (3%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK-----MSGD 99 NA RRV + L+G +TA++I + HE I GV E+ D+ N++ I K + D Sbjct: 267 NAFRRVAIKHLKGGRVTALRIPNMKHEFYCIVGVRENFFDLAQNLRQITFKNVPEDVDMD 326 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 ++ +GP +V AG +Q ++E++N + IC++ + + M++ + YV Sbjct: 327 NYMIGKFRIKGPMIVVAGHMQLPKNVEIVNRNQYICSVAAGSYLSMDVKIESIEEYVMPE 386 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ +T + + + + TDGSIT + Sbjct: 387 YGSQSRNRDICKDNFIHFSSSCTPVEHFVFTGQRRGINLDTLGEINIVEMHTDGSITPKS 446 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N + +D ++ NP + Sbjct: 447 ALLKTIDYISENFQYIENALYNNCHICDDGSLDEEFRNPEFYMDKD 492 >gi|119662813|emb|CAJ33198.1| RNA polymerase alpha subunit [Lactobacillus vaccinostercus] Length = 114 Score = 111 bits (278), Expect = 1e-22, Method: Composition-based stats. Identities = 50/114 (43%), Positives = 76/114 (66%), Gaps = 2/114 (1%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 VLHE S+++GV ED+T IILN+K I+LK+ + K + I +GP VTAGDI+ D+EV Sbjct: 1 VLHEFSTVEGVTEDVTQIILNMKQISLKIDSEEDKTLEIDVKGPAAVTAGDIEADGDVEV 60 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPA--KHHRTENDPIGLITIDALYSP 179 LNP+ I + A + +++T + G GYV A R ++ PIG++ ID++Y+P Sbjct: 61 LNPELHIATVADGAELHIQMTANTGRGYVSADDNKARMDDLPIGVLPIDSIYTP 114 >gi|68076655|ref|XP_680247.1| DNA-directed RNA polymerase alpha chain [Plasmodium berghei strain ANKA] gi|56501153|emb|CAH98242.1| DNA-directed RNA polymerase alpha chain, putative [Plasmodium berghei] Length = 573 Score = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 51/226 (22%), Positives = 96/226 (42%), Gaps = 10/226 (4%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 NA RRV + L+G +TA++I G+ HE I GV E+ D+ N++ I K ++ Sbjct: 222 NAFRRVAIKHLKGGRVTALRIPGMKHEYYCIVGVRENFFDLSQNLRQITFKNVPENADMN 281 Query: 104 ----VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP-- 157 +GP +V AG +Q +IE++N + IC + + + M++ + YV Sbjct: 282 NYIIGKFRIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPE 341 Query: 158 --AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGED 215 ++ + I + +P++ +T + + + + + TDGSIT + Sbjct: 342 YGSQSRNRDICKDNFI-FCSSCTPVEYFGFTGQRRGINLDILGEINIVEMHTDGSITPKT 400 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 ++ + + N ED +V+ NP E Sbjct: 401 ALLKTIDYMSENFQYIENALHNNCHSCEDGSVEEEFRNPEFYMDKE 446 >gi|62361814|gb|AAX81443.1| RNA polymerase alpha subunit [Simkania negevensis] Length = 159 Score = 111 bits (277), Expect = 2e-22, Method: Composition-based stats. Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 17/159 (10%) Query: 55 LRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLK-----------------MS 97 L AI +++I+G HE ++I+GV ED+T IILN+KG L+ Sbjct: 1 LEAPAIISIKIEGAPHEYTAIEGVIEDMTHIILNLKGTLLRKIPLVENKDTRAPTIISQD 60 Query: 98 GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP 157 D + + G VV I ++ E++NPDH I + R++L ++ G GYVP Sbjct: 61 LDVTQDMLDTGGGQFVVKFKHIMGESNFEMINPDHHIFTITKPMRKRIDLKIAIGRGYVP 120 Query: 158 AKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 ++ H + + I ID+ +SP++ V+Y VE+ R GQ Sbjct: 121 SERHELPDKVVDEIVIDSAFSPVRLVNYFVENTRVGQDT 159 >gi|94502224|ref|ZP_01308710.1| DNA-directed RNA polymerase alpha chain [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] gi|94451195|gb|EAT14134.1| DNA-directed RNA polymerase alpha chain [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] Length = 92 Score = 110 bits (276), Expect = 3e-22, Method: Composition-based stats. Identities = 40/89 (44%), Positives = 58/89 (65%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGV 68 +K + + + + L EPL G+ T+GN LRRVL+SSL G AI++V+I+GV Sbjct: 3 FLKFKQSKNLRVLKLTPEEGLFKIEPLFPGWGVTIGNTLRRVLLSSLEGYAISSVKIEGV 62 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMS 97 HE S+IKGV ED+T+IILN+K + K + Sbjct: 63 NHEFSTIKGVIEDMTEIILNLKKVRFKKN 91 >gi|85717255|ref|ZP_01048210.1| DNA-directed RNA polymerase alpha subunit [Nitrobacter sp. Nb-311A] gi|85695896|gb|EAQ33799.1| DNA-directed RNA polymerase alpha subunit [Nitrobacter sp. Nb-311A] Length = 317 Score = 108 bits (269), Expect = 1e-21, Method: Composition-based stats. Identities = 39/76 (51%), Positives = 55/76 (72%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 LL++V++LELSVRS NCL+ + I ++G+L+Q++E +MLR NFGR+SL EIK + Sbjct: 234 SQQAGKLLERVDDLELSVRSANCLKKDGINHVGELVQKSEDEMLRTPNFGRRSLNEIKDL 293 Query: 310 LGTMGLFLGMNLPDWP 325 L GL LGM+L WP Sbjct: 294 LAASGLHLGMDLSGWP 309 Score = 103 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 40/102 (39%), Positives = 69/102 (67%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +E P + +P L + ++ELELSVR++ CL+ +++ +GD + +EA++L Sbjct: 135 WEPPPSPPPPYVPPVGIPPTVHLYRSIDELELSVRTSLCLKNDDVRLVGDFARNSEAELL 194 Query: 294 RMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKK 335 R+ NFGRKSL E+K +LG +GL LG+ LP+WPP +++ L+++ Sbjct: 195 RIPNFGRKSLNELKEILGQVGLQLGLALPEWPPPNVDFLSQQ 236 >gi|152218428|gb|ABS31648.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218430|gb|ABS31649.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218432|gb|ABS31650.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218434|gb|ABS31651.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218436|gb|ABS31652.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218438|gb|ABS31653.1| RpoA [Francisella noatunensis subsp. noatunensis] gi|152218440|gb|ABS31654.1| RpoA [Francisella noatunensis subsp. noatunensis] Length = 167 Score = 108 bits (269), Expect = 2e-21, Method: Composition-based stats. Identities = 53/173 (30%), Positives = 91/173 (52%), Gaps = 6/173 (3%) Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 IE++N D I L + + TVS G TE + +G I +DA ++PIK Sbjct: 1 TQGIEIINKDQPIATLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIK 60 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V++ + + L + + T+G+I +V A +Q+ +F++ P Sbjct: 61 RVAFEIFDNGAS-----ETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-SNG 114 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 115 KTGDALLDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|302858180|ref|XP_002960035.1| hypothetical protein VOLCADRAFT_72193 [Volvox carteri f. nagariensis] gi|300253491|gb|EFJ38900.1| hypothetical protein VOLCADRAFT_72193 [Volvox carteri f. nagariensis] Length = 136 Score = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 32/123 (26%), Positives = 58/123 (47%), Gaps = 11/123 (8%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + P + T+ N +RR L+S L AIT+++I+G+LH+ SS+ G+ Sbjct: 14 RIENNTSFYGCFYLGPFDDSLSQTIANDIRRTLLSELTSLAITSIEIEGILHKYSSLPGM 73 Query: 79 HEDLTDIILNIKGINLKMSG-----------DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 E + D+I N++ I LK R + GP V+ A D++ + ++ Sbjct: 74 KETVLDLICNLQSIVLKKQEISFTNITLRSTKKTYRGFLNVSGPRVIKAMDLKLPSGLQC 133 Query: 128 LNP 130 ++P Sbjct: 134 VDP 136 >gi|71032023|ref|XP_765653.1| DNA-directed RNA polymerase, subunit alpha [Theileria parva strain Muguga] gi|68352610|gb|EAN33370.1| DNA-directed RNA polymerase, alpha subunit, putative [Theileria parva] Length = 746 Score = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 49/323 (15%), Positives = 100/323 (30%), Gaps = 79/323 (24%) Query: 11 KPNNI----EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 P + + I + P P T+G+ L+ + S G A+ AV+I Sbjct: 264 TPTKVKEASDLIRIPDTGRLYQKFYMGPYPVTMGWTIGSLLKVMTQSRCPGHAVVAVKIH 323 Query: 67 GVLHEISSIKGVHEDLTDIILNIKGI---NLKMSGDSHKRVTIF---------------- 107 + + +++ GV +DL +I LN+K + + + I+ Sbjct: 324 NMNKD-TTVNGVADDLLNIALNLKMVSYTHFYTIYTHFTHLHIYTFTHLHIYTFTHLHTY 382 Query: 108 ---------------------------KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 +GP ++ AG ++ + +++ NP+ I L+ Sbjct: 383 TFLQIFTQFIVSLQTLEYGKEARVRTVIKGPAMLCAGALEWPSFVKLCNPECYITKLEEG 442 Query: 141 AVVRMELTVSKGHGYVPA------------------KHHRTENDPIGLITIDALYSPIKK 182 A + +E+ + G G+ A + E G ++ + Sbjct: 443 AELDLEIKIEWGRGFWMADSKGLYRLEEGANSLCHKRRDIKEVKEEGFYPTSCVFGGCRM 502 Query: 183 VSYTVESAREGQVL---------DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 + V GQ D+L + I TD S T + + + L F Sbjct: 503 IRLAVHKL-MGQRWCSLTYTCPDPMDQLVVEIWTDVSTTPKHVLEFGLSEVIAWLTEFKR 561 Query: 234 FEEPKKEVKEDINVKSLPFNPAL 256 + + + + Sbjct: 562 QVSHDVDFEHEDEQLKDIWEKID 584 Score = 40.7 bits (94), Expect = 0.28, Method: Composition-based stats. Identities = 16/89 (17%), Positives = 31/89 (34%), Gaps = 1/89 (1%) Query: 226 DQLGMFINFEEPKKEVKEDINVKSLP-FNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 ++L E+ + K P + K ++ L ++ + LR M DL Sbjct: 654 EELQAEEYNEKSEINAKNFEKFIPKPVEDTFENKDIDLLPVNSDIISSLRMSGFNVMADL 713 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + + ++ N +S IK L Sbjct: 714 MDYSVEELSHFPNLSIESAKIIKNFLTEH 742 >gi|152218442|gb|ABS31655.1| RpoA [Francisella philomiragia] gi|152218444|gb|ABS31656.1| RpoA [Francisella philomiragia] gi|152218446|gb|ABS31657.1| RpoA [Francisella philomiragia] Length = 167 Score = 107 bits (268), Expect = 2e-21, Method: Composition-based stats. Identities = 52/173 (30%), Positives = 91/173 (52%), Gaps = 6/173 (3%) Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 IE++N D I L + + TVS G TE + +G I +D+ ++PIK Sbjct: 1 TQGIEIINKDQPIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIK 60 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V++ + + L + + T+G+I +V A +Q+ +F++ P Sbjct: 61 RVAFEIF-----DNGTNETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNG 114 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 K + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 115 KTGDALLDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|152218448|gb|ABS31658.1| RpoA [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 167 Score = 106 bits (266), Expect = 4e-21, Method: Composition-based stats. Identities = 52/170 (30%), Positives = 91/170 (53%), Gaps = 6/170 (3%) Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 IE++N D I L + + TVS G TE + +G I +D+ ++PIK+V+ Sbjct: 4 IEIINKDQPIATLTNERKFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVA 63 Query: 185 YTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 + + + L + + T+G+I +V A +Q+ +F++ P K Sbjct: 64 FEIF-----DNGTNETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTG 117 Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ +++ Sbjct: 118 DALLDSNIDPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQLMK 167 >gi|313616947|gb|EFR89580.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua FSL S4-378] gi|313622258|gb|EFR92767.1| DNA-directed RNA polymerase subunit alpha [Listeria innocua FSL J1-023] Length = 107 Score = 106 bits (264), Expect = 5e-21, Method: Composition-based stats. Identities = 37/103 (35%), Positives = 62/103 (60%) Query: 215 DSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 ++V+L ++IL + L +F+N + ++ + I + L +EEL+LSVRS NCL+ Sbjct: 1 EAVSLGAKILSEHLSIFVNLTDEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRSYNCLK 60 Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 61 RAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 103 >gi|77406111|ref|ZP_00783185.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae H36B] gi|77175292|gb|EAO78087.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae H36B] Length = 110 Score = 106 bits (264), Expect = 5e-21, Method: Composition-based stats. Identities = 47/107 (43%), Positives = 66/107 (61%), Gaps = 4/107 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E KP I E ++ + EPL RG+ TLGN+LRR L+SSL GAA+T+++IDG Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGYGTTLGNSLRRXLLSSLPGAAVTSIKIDG 58 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 VLHE +I GV ED+ IILN+KG+ +K + K + + GP + Sbjct: 59 VLHEFDTIPGVREDVMQIILNVKGLAVKSYVEDEKIIELDVEGPAEI 105 >gi|300193165|pdb|3K4G|A Chain A, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193166|pdb|3K4G|B Chain B, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193167|pdb|3K4G|C Chain C, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193168|pdb|3K4G|D Chain D, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193169|pdb|3K4G|E Chain E, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193170|pdb|3K4G|F Chain F, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193171|pdb|3K4G|G Chain G, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain gi|300193172|pdb|3K4G|H Chain H, Crystal Structure Of E. Coli Rna Polymerase Alpha Subunit C-Terminal Domain Length = 86 Score = 105 bits (261), Expect = 1e-20, Method: Composition-based stats. Identities = 44/85 (51%), Positives = 58/85 (68%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 ++ F+P LL+ V++LEL+VRS NCL E I Y+GDL+QRTE ++L N G SL EI Sbjct: 1 MEXPEFDPILLRPVDDLELTVRSANCLXAEAIHYIGDLVQRTEVELLXTPNLGXXSLTEI 60 Query: 307 KGVLGTMGLFLGMNLPDWPPESIEE 331 VL + GL LGM L +WPP SI + Sbjct: 61 XDVLASRGLSLGMRLENWPPASIAD 85 >gi|143452|gb|AAA22708.1| RNA polymerase alpha subunit [Bacillus subtilis] Length = 65 Score = 104 bits (260), Expect = 2e-20, Method: Composition-based stats. Identities = 33/65 (50%), Positives = 46/65 (70%), Gaps = 2/65 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG 67 E+ KP IE + + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T++QIDG Sbjct: 3 EIEKP-KIETVEISDDAKF-GKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTSIQIDG 60 Query: 68 VLHEI 72 VLHE Sbjct: 61 VLHEF 65 >gi|156089709|ref|XP_001612261.1| hypothetical protein [Babesia bovis T2Bo] gi|154799515|gb|EDO08693.1| hypothetical protein BBOV_III011410 [Babesia bovis] Length = 610 Score = 103 bits (258), Expect = 3e-20, Method: Composition-based stats. Identities = 44/211 (20%), Positives = 85/211 (40%), Gaps = 26/211 (12%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGD 99 N+LRRV L ITA++I G+ +E SI G+ ED D+ N+ + + + Sbjct: 239 NSLRRVAKRHLGAGRITALRIPGMKNEFYSIVGLREDFFDLSRNLTKVIFRNVPMTATFH 298 Query: 100 SHKRVTIFKRGPGVVTAGDIQTVNDIE-----------------VLNPDHVICNLDVDAV 142 + +GP + AG I+ + ++N + IC L DA Sbjct: 299 RPLIGRLRLKGPIIAVAGHIELDQTFQKEGVGSSSGSKDDRRIEIVNKNQYICALSRDAY 358 Query: 143 VRMELTVSKGHGYVPAKHH----RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDY 198 + ME+ + YV + + P G I + +PI+ ++ + + Sbjct: 359 LDMEVKIEYIANYVMPEKGPESLNRDITPDGFIHFSSSCTPIEVFAFDGDRRGIDEESTS 418 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + +++ + TDGS T ++ + ++ Sbjct: 419 EIVTLELHTDGSTTPRLALLNCATFIETWFE 449 >gi|86148803|ref|ZP_01067070.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. MED222] gi|85833393|gb|EAQ51584.1| DNA-directed RNA polymerase alpha subunit [Vibrio sp. MED222] Length = 82 Score = 101 bits (251), Expect = 2e-19, Method: Composition-based stats. Identities = 27/65 (41%), Positives = 40/65 (61%), Gaps = 3/65 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQINT---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQID 66 V+I+ Sbjct: 58 EVEIE 62 >gi|221487600|gb|EEE25832.1| hypothetical protein TGGT1_089410 [Toxoplasma gondii GT1] Length = 1082 Score = 100 bits (248), Expect = 4e-19, Method: Composition-based stats. Identities = 47/293 (16%), Positives = 100/293 (34%), Gaps = 54/293 (18%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI----------- 65 ++ + + P+P T+G+ ++ G AI A+++ Sbjct: 602 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAIVALKLHAPRKPNAGGR 661 Query: 66 -------DGVLH---------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 +G ++ + V EDL +I LN+KG+ + V + Sbjct: 662 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 721 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---------- 158 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A Sbjct: 722 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 781 Query: 159 --------KHHRTENDPIGLITIDALY---SPIKKVSYTVESAREGQV-----LDYDKLS 202 + E D G ++ + ++ + + R Q ++L Sbjct: 782 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 841 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 + I TD S + ++ +A A + + + K + + + Sbjct: 842 LEIWTDASKSPKEVLAFALQDMLAWFVDLRRQLVEDVDWKTEDEDLTAAWKHV 894 >gi|218672329|ref|ZP_03521998.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli GR56] Length = 57 Score = 99.3 bits (246), Expect = 7e-19, Method: Composition-based stats. Identities = 40/56 (71%), Positives = 48/56 (85%) Query: 284 LIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 LIQ+TEA+MLR NFGRKSL EIK VL +MGL LGM +P WPPE+IE+LAK+YED+ Sbjct: 1 LIQKTEAEMLRTPNFGRKSLNEIKEVLASMGLHLGMEVPAWPPENIEDLAKRYEDQ 56 >gi|20451756|emb|CAD30546.1| DNA-directed RNA polymerase alpha subunit [Listonella anguillarum] Length = 61 Score = 99.3 bits (246), Expect = 8e-19, Method: Composition-based stats. Identities = 27/64 (42%), Positives = 38/64 (59%), Gaps = 3/64 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 AVQI 65 V I Sbjct: 58 EVVI 61 >gi|221507397|gb|EEE33001.1| RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein, putative [Toxoplasma gondii VEG] Length = 1084 Score = 98.9 bits (245), Expect = 1e-18, Method: Composition-based stats. Identities = 47/293 (16%), Positives = 101/293 (34%), Gaps = 54/293 (18%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI----------- 65 ++ + + P+P T+G+ ++ G A+ A+++ Sbjct: 604 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAVVALKLHAPRKPNAGGR 663 Query: 66 -------DGVLH---------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 +G ++ + V EDL +I LN+KG+ + V + Sbjct: 664 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 723 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---------- 158 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A Sbjct: 724 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 783 Query: 159 --------KHHRTENDPIGLITIDALY---SPIKKVSYTVESAREGQV-----LDYDKLS 202 + E D G ++ + ++ + + R Q ++L Sbjct: 784 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 843 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 + I TD S + ++ +A A + + L + K + + + Sbjct: 844 LEIWTDASKSPKEVLAFALQDMLAWLVDLRRQLVEDVDWKTEDEDLTAAWKHV 896 >gi|237830453|ref|XP_002364524.1| RNA polymerase Rpb3/Rpb11 dimerization domain-containing protein [Toxoplasma gondii ME49] gi|211962188|gb|EEA97383.1| RNA polymerase Rpb3/Rpb11 dimerization domain-containing protein [Toxoplasma gondii ME49] Length = 623 Score = 98.9 bits (245), Expect = 1e-18, Method: Composition-based stats. Identities = 47/293 (16%), Positives = 101/293 (34%), Gaps = 54/293 (18%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI----------- 65 ++ + + P+P T+G+ ++ G A+ A+++ Sbjct: 143 VTIIPETGHLYQKLYIGPVPVTTGWTMGSLIKAFAAQRCPGHAVVALKLHAPRKPNAGGR 202 Query: 66 -------DGVLH---------EISSIKGVHEDLTDIILNIKGINL-KMSGDSHKRVTIFK 108 +G ++ + V EDL +I LN+KG+ + V + Sbjct: 203 RGRKKTGEGEPQSAGGEAEAPMVTQLPNVREDLLEIALNLKGVAFETLRPRESACVRVKA 262 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPA---------- 158 GP ++ AG I + + V NP+H I ++ V+ +E+ + G G A Sbjct: 263 VGPQLLVAGMIDWPSFVRVGNPEHFIAKVEEGGVLDLEMKLEWGRGAWLADLHGLYREEE 322 Query: 159 --------KHHRTENDPIGLITIDALY---SPIKKVSYTVESAREGQV-----LDYDKLS 202 + E D G ++ + ++ + + R Q ++L Sbjct: 323 GVDTRCYKRRRIWEVDHRGFYPTSCIFGACTMMRLAVHKLMGTRFCQDRQASTNPTEQLV 382 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 + I TD S + ++ +A A + + L + K + + + Sbjct: 383 LEIWTDASKSPKEVLAFALQDMLAWLVDLRRQLVEDVDWKTEDEDLTAAWKHV 435 >gi|260903552|ref|ZP_05911947.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AQ4037] gi|308109055|gb|EFO46595.1| DNA-directed RNA polymerase, alpha subunit [Vibrio parahaemolyticus AQ4037] Length = 58 Score = 97.4 bits (241), Expect = 3e-18, Method: Composition-based stats. Identities = 25/61 (40%), Positives = 36/61 (59%), Gaps = 3/61 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF HTLGNALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQISS---THAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVT 57 Query: 62 A 62 Sbjct: 58 E 58 >gi|213420797|ref|ZP_03353863.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E01-6750] Length = 56 Score = 97.0 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 31/54 (57%), Positives = 40/54 (74%) Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 I Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 2 IHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 55 >gi|85713167|ref|ZP_01044199.1| DNA-directed RNA polymerase alpha subunit [Idiomarina baltica OS145] gi|85693037|gb|EAQ31003.1| DNA-directed RNA polymerase alpha subunit [Idiomarina baltica OS145] Length = 70 Score = 97.0 bits (240), Expect = 4e-18, Method: Composition-based stats. Identities = 26/65 (40%), Positives = 39/65 (60%), Gaps = 3/65 (4%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 +Q + E +KP ++ + + EPL RGF +TL NALRR+L+SS+ G A+T Sbjct: 1 MQGSVTEFLKPRLVDIEQIST---THAKVTLEPLERGFGYTLRNALRRILLSSMPGCAVT 57 Query: 62 AVQID 66 V+ID Sbjct: 58 EVEID 62 >gi|85000353|ref|XP_954895.1| DNA-directed RNA polymerase D subunit [Theileria annulata strain Ankara] gi|65303041|emb|CAI75419.1| DNA-directed RNA polymerase D subunit, putative [Theileria annulata] Length = 587 Score = 96.2 bits (238), Expect = 6e-18, Method: Composition-based stats. Identities = 55/279 (19%), Positives = 102/279 (36%), Gaps = 63/279 (22%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKM-----SGD 99 N+LRRV L ITA++I G+ +E S+ G+ ED +++ N++G+ K + Sbjct: 183 NSLRRVAKRHLGSGRITALRIPGMENEFYSVVGLREDFFELVRNLRGVIFKNVPKTATFH 242 Query: 100 SHKRVTIFKRGPGVVTAGDIQTV------------------------------------- 122 T+ +GP + AG ++ Sbjct: 243 RPVIATLRLKGPIIAVAGHLKFDNKRSTKTASDIDNKTENKNDNTDTKADNEEGVINDYV 302 Query: 123 ------NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP----AKHHRTENDPIGLIT 172 +IEV+N +H IC+L + M++ + YV + + P G I Sbjct: 303 YDKKYTGEIEVINKNHYICSLSQGCYLTMDVKIEYISNYVIPEFGPESLNRDITPDGFIH 362 Query: 173 IDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFI 232 + +P++ +T E + + +S+ + TDGS T ++ ++ L + + Sbjct: 363 FCSSCNPVEIFGFTGERRGLDEQSTSEIVSLELHTDGSATPRVALLRSATFLLNWFDRTL 422 Query: 233 NFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 +L + LKKV S N Sbjct: 423 Y-----------ALRTNLTRDYYALKKVNTFNTSQLIHN 450 >gi|119662819|emb|CAJ33202.1| RNA polymerase alpha subunit [Lactobacillus diolivorans] Length = 98 Score = 96.2 bits (238), Expect = 7e-18, Method: Composition-based stats. Identities = 50/98 (51%), Positives = 62/98 (63%), Gaps = 2/98 (2%) Query: 66 DGVLHEISSIKGVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQTVN 123 D VLHE S+IKGV ED+T IILN+K I+LK+ G D + + I GP VTAGDIQ + Sbjct: 1 DDVLHEFSTIKGVVEDVTQIILNVKKISLKLDGPEDEEENLEIDVIGPADVTAGDIQGDS 60 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 D+ VLNPD I + A M LT +KG GYV A + Sbjct: 61 DVTVLNPDLHIATVAEGATFHMRLTANKGRGYVSAVEN 98 >gi|166714704|gb|ABY88077.1| RpoA [Stenotrophomonas sp. ICB220] Length = 122 Score = 95.0 bits (235), Expect = 1e-17, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R +D I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F ++ + P Sbjct: 62 KLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRGEAKPSKTGVDP 113 >gi|166714638|gb|ABY88044.1| RpoA [Pseudoxanthomonas dokdonensis] Length = 122 Score = 95.0 bits (235), Expect = 2e-17, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R +D I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRHPDDETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F ++ + P Sbjct: 62 KLVLDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRQRGEAKPSPTGVDP 113 >gi|119662805|emb|CAJ33194.1| RNA polymerase alpha subunit [Lactobacillus manihotivorans] Length = 89 Score = 94.7 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 36/88 (40%), Positives = 55/88 (62%) Query: 101 HKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 K V I GP VTA DI + +D+EVLNP+ IC + + +TV G GYV A Sbjct: 2 DKTVEIDVAGPATVTAADIVSDSDVEVLNPEQYICTVAEGGRFHVRMTVKTGRGYVAADQ 61 Query: 161 HRTENDPIGLITIDALYSPIKKVSYTVE 188 ++ ++ PIG++ ID++++PI +V+Y VE Sbjct: 62 NKVDDMPIGVLPIDSIFTPISRVNYQVE 89 >gi|237749604|ref|ZP_04580084.1| RpoA [Helicobacter bilis ATCC 43879] gi|229374800|gb|EEO25191.1| RpoA [Helicobacter bilis ATCC 43879] Length = 88 Score = 94.7 bits (234), Expect = 2e-17, Method: Composition-based stats. Identities = 30/84 (35%), Positives = 46/84 (54%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 + + + + + L +EEL+LSVRS NCL+ I + +L +TE DM+ Sbjct: 1 MTDEAQHAEIMVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMM 60 Query: 294 RMANFGRKSLVEIKGVLGTMGLFL 317 ++ N GRKSL E+K L +GL L Sbjct: 61 KVRNLGRKSLEEVKAKLEELGLGL 84 >gi|213585431|ref|ZP_03367257.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 54 Score = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 30/53 (56%), Positives = 39/53 (73%) Query: 279 VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 Y+GDL+QRTE ++L+ N G+KSL EIK VL + GL LGM L +WPP SI + Sbjct: 1 HYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLENWPPASIAD 53 >gi|183397281|gb|ACC62187.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 93.9 bits (232), Expect = 3e-17, Method: Composition-based stats. Identities = 48/160 (30%), Positives = 83/160 (51%), Gaps = 6/160 (3%) Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + + TVS G E + +G I +DA ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLVATVSVGRNVGILSALPIELEKVGDIAVDADFNPIKRVAFEIF---- 56 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A +Q+ +F++ + P K + Sbjct: 57 -DNSASETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLKVP-SNGKTGDALLDSNI 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|166714628|gb|ABY88039.1| RpoA [Stenotrophomonas maltophilia] Length = 122 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 65/112 (58%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + + +G+GY PA R+ ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMAVKIERGYGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPANNGVDP 113 >gi|166714682|gb|ABY88066.1| RpoA [Stenotrophomonas sp. LMG 981] Length = 122 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 40/113 (35%), Positives = 64/113 (56%), Gaps = 3/113 (2%) Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDY 198 + M L + +G GY PA R ++ I +DA +SP+++V+Y+VE+AR Q D Sbjct: 1 SINMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 DKL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 61 DKLVIEIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|183397279|gb|ACC62186.1| RpoA1 [Francisella noatunensis] Length = 154 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 49/160 (30%), Positives = 83/160 (51%), Gaps = 6/160 (3%) Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + + TVS G TE + +G I +DA ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGA 60 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A +Q+ +F++ P K + Sbjct: 61 S-----ETLEVFVKTNGTIEPLAAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNI 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|183397285|gb|ACC62189.1| RpoA1 [Francisella philomiragia] Length = 154 Score = 93.5 bits (231), Expect = 4e-17, Method: Composition-based stats. Identities = 48/160 (30%), Positives = 83/160 (51%), Gaps = 6/160 (3%) Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + + TVS G TE + +G I +D+ ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLTATVSVGRNVGILSALPTELEKVGDIAVDSDFNPIKRVAFEIF---- 56 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A +Q+ +F++ P K + Sbjct: 57 -DNGTNETLEVFVKTNGTIEPLVAVTKALEYFCEQISVFVSLRVP-SNGKTGDALLDSNI 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|71904766|gb|AAZ52664.1| DNA-dependent RNA polymerase alpha chain [Mycoplasma hominis ATCC 23114] Length = 180 Score = 93.1 bits (230), Expect = 5e-17, Method: Composition-based stats. Identities = 29/150 (19%), Positives = 72/150 (48%) Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ + +D+ +SPIKKV+ E + ++L + ++TDG++ ++ + Sbjct: 5 PKLESKIKNGQFLAMDSDFSPIKKVAILFEELNSTSNIIEERLKIKVETDGTVEAKNVME 64 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 A++I+ + N + D + P + +++L L++RS N LR Sbjct: 65 EAAKIIVAHFQIIGNIDALGTIDLFDDQKEKHEKTPKVSVSIDKLNLTIRSLNALRRAGF 124 Query: 279 VYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + ++++ ++ ++ + N G+KS+ +I Sbjct: 125 NNVDEIMKLSDEELSNIKNLGKKSVQDIID 154 >gi|166714644|gb|ABY88047.1| RpoA [Stenotrophomonas sp. LMG 10857] Length = 122 Score = 93.1 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 41/112 (36%), Positives = 64/112 (57%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y+VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL M I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVMDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|183397277|gb|ACC62185.1| RpoA1 [Francisella sp. PQ1104] gi|183397283|gb|ACC62188.1| RpoA1 [Francisella sp. PQ1105] Length = 154 Score = 93.1 bits (230), Expect = 6e-17, Method: Composition-based stats. Identities = 49/160 (30%), Positives = 84/160 (52%), Gaps = 6/160 (3%) Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESARE 192 I L + + TVS G TE + +G I +DA ++PIK+V++ + Sbjct: 1 PIATLTNEREFSLVATVSVGRNVGILSALPTELEKVGDIAVDADFNPIKRVAFEIFDNGA 60 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 + L + + T+G+I +V A + +Q+ +F++ P K + Sbjct: 61 S-----ETLEVFVKTNGTIESLAAVTKALKYFCEQISVFVSLRVP-SNGKTGDALLDSNI 114 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM 292 +P LLK +++LEL+VRS+NCLR ENI Y+GDL+Q +E+ + Sbjct: 115 DPILLKPIDDLELTVRSSNCLRAENIKYLGDLVQYSESQL 154 >gi|166714680|gb|ABY88065.1| RpoA [Stenotrophomonas sp. ICB207] Length = 122 Score = 92.7 bits (229), Expect = 7e-17, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKIERGFGYQPAAARRRPDEETRTIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAPKPATGGVDP 113 >gi|166714634|gb|ABY88042.1| RpoA [Stenotrophomonas nitritireducens] Length = 122 Score = 92.3 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 41/112 (36%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|207108315|ref|ZP_03242477.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_CA4C1] Length = 130 Score = 92.3 bits (228), Expect = 8e-17, Method: Composition-based stats. Identities = 35/121 (28%), Positives = 59/121 (48%), Gaps = 9/121 (7%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL---------KMSGDSHKRVTIFKRGPGVVTAGDIQTV 122 S++GV ED++ I+N+K I + V +GP + A D+ + Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRFIAKALVGQDSSLENQSVVVDYSFKGPMELRARDLNSE 127 Query: 123 N 123 + Sbjct: 128 H 128 >gi|166714630|gb|ABY88040.1| RpoA [Stenotrophomonas maltophilia] Length = 107 Score = 92.3 bits (228), Expect = 9e-17, Method: Composition-based stats. Identities = 38/105 (36%), Positives = 62/105 (59%), Gaps = 3/105 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G+GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGYGYQPAAARRCPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 KL + I+T+G+I E++V A+ IL DQL +F +F + + Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKP 106 >gi|166714720|gb|ABY88085.1| RpoA [Stenotrophomonas sp. ICB141] gi|166714722|gb|ABY88086.1| RpoA [Stenotrophomonas sp. ICB129] gi|166714724|gb|ABY88087.1| RpoA [Stenotrophomonas sp. ICB133] Length = 122 Score = 92.3 bits (228), Expect = 1e-16, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRARGAAKPANNGVDP 113 >gi|166714684|gb|ABY88067.1| RpoA [Stenotrophomonas sp. LMG 10874] gi|166714696|gb|ABY88073.1| RpoA [Stenotrophomonas sp. LMG 11111] gi|166714698|gb|ABY88074.1| RpoA [Stenotrophomonas sp. ICB130] gi|166714700|gb|ABY88075.1| RpoA [Stenotrophomonas sp. ICB134] gi|166714702|gb|ABY88076.1| RpoA [Stenotrophomonas sp. ICB209] Length = 122 Score = 92.0 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714668|gb|ABY88059.1| RpoA [Stenotrophomonas sp. LMG 10888] gi|166714670|gb|ABY88060.1| RpoA [Stenotrophomonas sp. LMG 10883] gi|166714688|gb|ABY88069.1| RpoA [Stenotrophomonas sp. LMG 10882] Length = 122 Score = 92.0 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 41/112 (36%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKVERGFGYQPAAARRRPDEESRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|315283810|ref|ZP_07871881.1| DNA-directed RNA polymerase subunit alpha [Listeria marthii FSL S4-120] gi|313612547|gb|EFR86618.1| DNA-directed RNA polymerase subunit alpha [Listeria marthii FSL S4-120] Length = 86 Score = 92.0 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 30/82 (36%), Positives = 47/82 (57%) Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 + ++ + I + L +EEL+LSVRS NCL+ I + +L ++E DM+++ Sbjct: 1 DEAQKAEIMIEKEESHKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKV 60 Query: 296 ANFGRKSLVEIKGVLGTMGLFL 317 N GRKSL E+K L +GL L Sbjct: 61 RNLGRKSLEEVKVKLADLGLSL 82 >gi|115531954|ref|YP_784109.1| putative rpoA-like protein [Pelargonium x hortorum] gi|115531992|ref|YP_784147.1| putative rpoA-like protein [Pelargonium x hortorum] gi|122164250|sp|Q06FN4|RPAL2_PELHO RecName: Full=Putative DNA-directed RNA polymerase subunit alpha-like 2; Short=Putative PEP 2; AltName: Full=Putative plastid-encoded RNA polymerase subunit alpha 2; Short=Putative RNA polymerase subunit alpha 2 gi|112382108|gb|ABI17301.1| putative rpoA-like protein [Pelargonium x hortorum] gi|112382146|gb|ABI17339.1| putative rpoA-like protein [Pelargonium x hortorum] Length = 322 Score = 92.0 bits (227), Expect = 1e-16, Method: Composition-based stats. Identities = 53/264 (20%), Positives = 87/264 (32%), Gaps = 13/264 (4%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 +E L PL A L L L++ + T +I + Sbjct: 11 QQVEADQLDS-GLYYGRFALSPLTAKQASLLKKGLPEALLTEILCLRFTHAKIQNECVNL 69 Query: 73 SSIKGVHEDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 +I G+ E L +I+ N I L G + RGP A DI+ I+V Sbjct: 70 MNIVGIQESLDEILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIKV 129 Query: 128 LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 I + +EL + T +ID PI+KV ++ Sbjct: 130 EIETQHIATITEPIPFVVELKIEL---VSSTSKGETGITDEEGFSIDPN-PPIQKVDTSI 185 Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + + Q + L + I TD +I +++A ASR + L + E + E N Sbjct: 186 QCY-DYQGEPFQTLFLDIWTDRTIHPHEALAQASRKIFGLLSLVFQAEYFQYN--ELENG 242 Query: 248 KSLPFNPALLKKVEELELSVRSTN 271 E+ + + N Sbjct: 243 LRYGKFCLYPMTKEQFQWIQTALN 266 >gi|166714642|gb|ABY88046.1| RpoA [Stenotrophomonas sp. LMG 10992] Length = 122 Score = 91.6 bits (226), Expect = 1e-16, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 64/112 (57%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M + + +G GY PA R+ ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMAVKIERGFGYQPAAARRSPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFNHRDRGAAKPANNGVDP 113 >gi|166714636|gb|ABY88043.1| RpoA [Stenotrophomonas koreensis] Length = 122 Score = 91.6 bits (226), Expect = 2e-16, Method: Composition-based stats. Identities = 42/112 (37%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L V +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 LNMRLKVERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + IDT+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVLDIDTNGTIDAEEAVRTAADILTDQLSVFGDFTHRDRGAAKPTNNGVDP 113 >gi|68000767|ref|XP_669714.1| hypothetical protein [Plasmodium berghei strain ANKA] gi|56484216|emb|CAI01628.1| hypothetical protein PB300311.00.0 [Plasmodium berghei] Length = 212 Score = 91.2 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 29/133 (21%), Positives = 62/133 (46%), Gaps = 2/133 (1%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + ++ Q PL HT G+ ++ V S + G AI ++I + +E + I Sbjct: 81 DVLIYPQNGRLYQKFYIGPLNITDGHTFGSLIKYVCQSQIYGYAIVGIKIHNM-NEDTKI 139 Query: 76 KGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 + EDL +I LN+ + + + + + +GP ++ AG I + ++V+N + I Sbjct: 140 ENTQEDLLEIALNLSDVCIYSKEINIETNIRLIFKGPLMLVAGMIPLPSHLKVVNKEQYI 199 Query: 135 CNLDVDAVVRMEL 147 C + + + + + Sbjct: 200 CTIKENGYIDISI 212 >gi|166714648|gb|ABY88049.1| RpoA [Stenotrophomonas sp. LMG 10887] Length = 122 Score = 91.2 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY P R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPVAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714654|gb|ABY88052.1| RpoA [Stenotrophomonas sp. LMG 1108] gi|166714658|gb|ABY88054.1| RpoA [Stenotrophomonas sp. LMG 6608] gi|166714672|gb|ABY88061.1| RpoA [Stenotrophomonas sp. ICB91] gi|166714674|gb|ABY88062.1| RpoA [Stenotrophomonas sp. ICB194] gi|166714676|gb|ABY88063.1| RpoA [Stenotrophomonas pavanii] gi|166714686|gb|ABY88068.1| RpoA [Stenotrophomonas sp. LMG 10879] gi|166714690|gb|ABY88070.1| RpoA [Stenotrophomonas sp. LMG 10989] gi|166714694|gb|ABY88072.1| RpoA [Stenotrophomonas sp. LMG 11087] Length = 122 Score = 91.2 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 41/112 (36%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 V M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 VNMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714664|gb|ABY88057.1| RpoA [Stenotrophomonas sp. LMG 10853] Length = 122 Score = 91.2 bits (225), Expect = 2e-16, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ I DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADIPSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714646|gb|ABY88048.1| RpoA [Stenotrophomonas sp. LMG 10881] Length = 122 Score = 90.8 bits (224), Expect = 3e-16, Method: Composition-based stats. Identities = 41/113 (36%), Positives = 62/113 (54%), Gaps = 3/113 (2%) Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDY 198 + M L V +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D Sbjct: 1 DINMRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDL 60 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 DKL + I+T+G+I E++V A IL DQL +F +F + + N P Sbjct: 61 DKLVIDIETNGTIDAEEAVRTAGDILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714678|gb|ABY88064.1| RpoA [Stenotrophomonas sp. ICB128] Length = 122 Score = 90.4 bits (223), Expect = 3e-16, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 ++M L + +G GY P R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 IKMRLKIERGFGYQPGAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|285803273|pdb|3IHQ|B Chain B, Crystal Structure Of Reduced C10s Spx In Complex With The Alpha C-Terminal Domain Of Rna Polymeras Length = 75 Score = 90.4 bits (223), Expect = 4e-16, Method: Composition-based stats. Identities = 30/67 (44%), Positives = 41/67 (61%) Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K L Sbjct: 4 MKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAKL 63 Query: 311 GTMGLFL 317 +GL L Sbjct: 64 EELGLGL 70 >gi|166714632|gb|ABY88041.1| RpoA [Stenotrophomonas acidaminiphila] Length = 119 Score = 90.0 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 41/110 (37%), Positives = 62/110 (56%), Gaps = 3/110 (2%) Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKL 201 M L V +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D DKL Sbjct: 1 MRLKVERGFGYQPAASRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKL 60 Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 61 VIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 110 >gi|150187027|emb|CAK30154.1| RNA polymerase alpha subunit [Streptococcus uberis] Length = 101 Score = 90.0 bits (222), Expect = 4e-16, Method: Composition-based stats. Identities = 41/100 (41%), Positives = 64/100 (64%) Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 I GV ED+ IILNIKG+ +K + K + + GP VTAGDI T +DIE++NPDH + Sbjct: 2 IPGVREDVMQIILNIKGLAVKSYVEDEKMIELDVEGPAEVTAGDILTDSDIELVNPDHYL 61 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 + ++ +TV+K GYVPA+ ++ ++ P+G + +D Sbjct: 62 FTIAEGHSLKATMTVAKKRGYVPAEGNKKDDAPVGTLAVD 101 >gi|166714652|gb|ABY88051.1| RpoA [Stenotrophomonas sp. LMG 11004] Length = 98 Score = 90.0 bits (222), Expect = 5e-16, Method: Composition-based stats. Identities = 37/97 (38%), Positives = 58/97 (59%), Gaps = 3/97 (3%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARCRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 KL + I+T+G+I E++V A+ IL DQL +F +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTH 98 >gi|320103200|ref|YP_004178791.1| RNA polymerase subunit alpha domain-containing protein [Isosphaera pallida ATCC 43644] gi|319750482|gb|ADV62242.1| RNA polymerase alpha subunit domain protein [Isosphaera pallida ATCC 43644] Length = 448 Score = 89.7 bits (221), Expect = 5e-16, Method: Composition-based stats. Identities = 33/115 (28%), Positives = 51/115 (44%), Gaps = 4/115 (3%) Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK----EDINVKSLPFNPALLKKVEELELSVR 268 E I + + ++ + + E+ + L V + ELSVR Sbjct: 245 AEQCFRRVLDIYPNHPRARLYLKDVRASKEMYYDEEAERRYDHLRQVLEIPVTDFELSVR 304 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 S NCL+ I +GDL + TE+ +L NFG SL EIK ++ L LGM + + Sbjct: 305 SRNCLKKMGIRTLGDLTRITESQLLSSKNFGETSLTEIKAMMEAKSLRLGMAIEN 359 Score = 78.5 bits (192), Expect = 2e-12, Method: Composition-based stats. Identities = 27/83 (32%), Positives = 39/83 (46%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K V+ S L + EL LSVR+ C+ I +G+LI T+ +L N Sbjct: 366 KVAVEPVDEPISPEERAKLAMPITELNLSVRARKCMNKLGITTVGELIAHTQDQLLECKN 425 Query: 298 FGRKSLVEIKGVLGTMGLFLGMN 320 FG SL E++ L +GL L + Sbjct: 426 FGVTSLNEVRDKLSELGLKLKND 448 >gi|119662857|emb|CAJ33221.1| RNA polymerase alpha subunit [Lactobacillus coryniformis subsp. coryniformis KCTC 3167] Length = 98 Score = 89.7 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 36/98 (36%), Positives = 65/98 (66%) Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 ++ ID++Y+PI +V+Y VES R G+ D+DKL++ + T+GSI+ ++++LA++IL + L Sbjct: 1 VLPIDSIYTPISRVNYQVESTRVGRRNDFDKLTLDVWTNGSISPREAISLAAKILTEHLD 60 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSV 267 +F+N + K + + + P L +EEL+LSV Sbjct: 61 IFVNLTDEAKNAEIMVEKEETPKEKMLEMTIEELDLSV 98 >gi|224983719|pdb|3GFK|B Chain B, Crystal Structure Of Bacillus Subtilis SpxRNA POLYMERASE Alpha Subunit C-Terminal Domain Complex Length = 79 Score = 89.7 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 30/71 (42%), Positives = 42/71 (59%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+ Sbjct: 5 KEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEV 64 Query: 307 KGVLGTMGLFL 317 K L +GL L Sbjct: 65 KAKLEELGLGL 75 >gi|166714666|gb|ABY88058.1| RpoA [Stenotrophomonas sp. LMG 10991] Length = 122 Score = 89.7 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+A Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRRVLDASFSPVRRVAYAVEAALVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714656|gb|ABY88053.1| RpoA [Stenotrophomonas sp. LMG 11114] Length = 122 Score = 89.7 bits (221), Expect = 6e-16, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I ED+V + IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEDAVRTGADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|82407558|pdb|1Z3E|B Chain B, Crystal Structure Of Spx In Complex With The C-Terminal Domain Of The Rna Polymerase Alpha Subunit Length = 73 Score = 89.3 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 30/68 (44%), Positives = 42/68 (61%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL E+K Sbjct: 1 MEKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSLEEVKAK 60 Query: 310 LGTMGLFL 317 L +GL L Sbjct: 61 LEELGLGL 68 >gi|75764303|ref|ZP_00743839.1| DNA-directed RNA polymerase alpha chain [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|74488206|gb|EAO51886.1| DNA-directed RNA polymerase alpha chain [Bacillus thuringiensis serovar israelensis ATCC 35646] Length = 78 Score = 89.3 bits (220), Expect = 7e-16, Method: Composition-based stats. Identities = 30/74 (40%), Positives = 43/74 (58%) Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 + + L +EEL+LSVRS NCL+ I + +L +TE DM+++ N GRKSL Sbjct: 1 MVEKEEDQKEKVLEMTIEELDLSVRSYNCLKRAGINTVQELANKTEEDMMKVRNLGRKSL 60 Query: 304 VEIKGVLGTMGLFL 317 E+K L +GL L Sbjct: 61 EEVKHKLEELGLGL 74 >gi|325119669|emb|CBZ55222.1| putative RNA polymerase Rpb3/Rpb11 dimerisation domain-containing protein [Neospora caninum Liverpool] Length = 980 Score = 89.3 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 46/310 (14%), Positives = 100/310 (32%), Gaps = 71/310 (22%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID--------GV 68 V+ + + P+P T+G+ ++ G A+ A+++ G Sbjct: 453 VTVIPETGHLYQKLYIGPIPVTTGWTMGSLIKAFAAQRCPGHAVVALKLHAPPQAAKKGA 512 Query: 69 LH------------------------------------EISSIKGVHEDLTDIILNIKGI 92 ++ + V ED+ +I LN+KG+ Sbjct: 513 RKGRLKTREKRSEAHMHGAVASEGEGEPGGGDGEQTQPMVTKLPSVREDILEIALNLKGV 572 Query: 93 NLKMSGDSH-KRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + + + GP ++ AG I + + V NP+H I ++ V+ +E+ + Sbjct: 573 AFETLAPRESACIRVKVVGPQLLVAGMIGWPSFVRVANPEHFIAKVEEGGVLDLEIKLEW 632 Query: 152 GHGYVPA------------------KHHRTENDPIGLITIDALY---SPIKKVSYTVESA 190 G G A + E D G ++ + ++ + + Sbjct: 633 GRGAWLADLHGLYREEEGVDTRCYKRRRIWEVDNRGFYPTSCVFGACTMMRLAVHKLMGT 692 Query: 191 REGQV-----LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDI 245 R Q ++L + I TD S + ++ +A A + + L + K + Sbjct: 693 RFCQDRQVSTNPTEQLVVEIWTDASKSPKEVLAFALQDMLAWLLDLRRQLVQDVDWKTED 752 Query: 246 NVKSLPFNPA 255 + + Sbjct: 753 EDLNASWKHV 762 >gi|207092544|ref|ZP_03240331.1| DNA-directed RNA polymerase subunit alpha [Helicobacter pylori HPKX_438_AG0C1] Length = 126 Score = 89.3 bits (220), Expect = 8e-16, Method: Composition-based stats. Identities = 30/83 (36%), Positives = 48/83 (57%) Query: 12 PNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE 71 P I + ++E NR + P G+A TL + +RR+L+ S G A ++I+GV HE Sbjct: 8 PLIPSEIKVLEKEGNRVKISLAPFEFGYAVTLAHPIRRLLLLSSVGYAPIGLKIEGVHHE 67 Query: 72 ISSIKGVHEDLTDIILNIKGINL 94 S++GV ED++ I+N+K I Sbjct: 68 FDSLRGVTEDVSLFIMNLKNIRF 90 >gi|166714650|gb|ABY88050.1| RpoA [Stenotrophomonas sp. LMG 10890] Length = 122 Score = 88.9 bits (219), Expect = 9e-16, Method: Composition-based stats. Identities = 41/112 (36%), Positives = 63/112 (56%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 V M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 VNMRLKIDRGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVQTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|255018323|ref|ZP_05290449.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL F2-515] Length = 62 Score = 88.9 bits (219), Expect = 1e-15, Method: Composition-based stats. Identities = 28/58 (48%), Positives = 40/58 (68%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +EEL+LSVRS NCL+ I + +L ++E DM+++ N GRKSL E+K L +GL L Sbjct: 1 MEELDLSVRSYNCLKRAGINTVQELADKSEDDMMKVRNLGRKSLEEVKVKLADLGLSL 58 >gi|166714692|gb|ABY88071.1| RpoA [Stenotrophomonas sp. LMG 11000] Length = 122 Score = 88.1 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 39/112 (34%), Positives = 62/112 (55%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G Y PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFAYQPAALRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL + I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 62 KLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 113 >gi|166714706|gb|ABY88078.1| RpoA [Stenotrophomonas sp. LMG 11108] Length = 122 Score = 88.1 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 40/112 (35%), Positives = 60/112 (53%), Gaps = 3/112 (2%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L +G GY PA R ++ I +DA +SP+++V+Y+VE+AR Q D D Sbjct: 2 INMRLKSERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYSVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 KL M I+T+G+I +++V A IL DQL F +F + N P Sbjct: 62 KLVMDIETNGTIDAQEAVRTAPDILNDQLSAFGDFPHRHRGAPIPANNGMDP 113 >gi|255027531|ref|ZP_05299517.1| DNA-directed RNA polymerase subunit alpha [Listeria monocytogenes FSL J2-003] Length = 55 Score = 88.1 bits (217), Expect = 2e-15, Method: Composition-based stats. Identities = 26/55 (47%), Positives = 37/55 (67%), Gaps = 2/55 (3%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 E+ KP IE I + + + + EPL RG+ TLGN+LRR+L+SSL GAA+T+ Sbjct: 3 EIEKP-KIETIEISDDAK-YGKFVVEPLERGYGTTLGNSLRRILLSSLPGAAVTS 55 >gi|166714660|gb|ABY88055.1| RpoA [Stenotrophomonas sp. LMG 957] Length = 97 Score = 87.7 bits (216), Expect = 2e-15, Method: Composition-based stats. Identities = 37/92 (40%), Positives = 56/92 (60%), Gaps = 3/92 (3%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAWRRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVALASRILQDQLGMF 231 KL + I+T+G+I E++V A IL DQL +F Sbjct: 62 KLVIDIETNGTIDAEEAVRTADDILSDQLSVF 93 >gi|166714708|gb|ABY88079.1| RpoA [Stenotrophomonas sp. LMG 10878] Length = 116 Score = 87.0 bits (214), Expect = 4e-15, Method: Composition-based stats. Identities = 38/107 (35%), Positives = 60/107 (56%), Gaps = 3/107 (2%) Query: 148 TVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYDKLSMT 204 + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D DKL + Sbjct: 1 KIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLDKLVID 60 Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 I+T+G+I E++V A+ IL DQL +F +F + + N P Sbjct: 61 IETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGAAKPANNGVDP 107 >gi|149173495|ref|ZP_01852125.1| probable DNA-directed RNA polymerase alpha chain [Planctomyces maris DSM 8797] gi|148847677|gb|EDL62010.1| probable DNA-directed RNA polymerase alpha chain [Planctomyces maris DSM 8797] Length = 415 Score = 85.8 bits (211), Expect = 1e-14, Method: Composition-based stats. Identities = 32/80 (40%), Positives = 45/80 (56%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ L + V + ELSVRS NCL +I +GDL + +E D+L NFG+ Sbjct: 249 DEETARNEARMKQLLDRPVTDFELSVRSRNCLHAMDIHTLGDLTRVSENDLLAGKNFGQT 308 Query: 302 SLVEIKGVLGTMGLFLGMNL 321 SL EI+ +L + GL +G NL Sbjct: 309 SLDEIREMLSSFGLHIGQNL 328 Score = 78.5 bits (192), Expect = 1e-12, Method: Composition-based stats. Identities = 28/71 (39%), Positives = 39/71 (54%) Query: 247 VKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 L NPA K + +L LSVRS C+ I +G+L++R+ ++L NFG SL EI Sbjct: 342 PPELADNPATEKPISDLGLSVRSRKCMSRLGIGTIGELLRRSPDELLASRNFGVTSLNEI 401 Query: 307 KGVLGTMGLFL 317 + L M L L Sbjct: 402 REKLTEMNLKL 412 >gi|307069669|ref|YP_003878146.1| putative DNA-directed RNA polymerase subunit alpha [Candidatus Zinderia insecticola CARI] gi|306482929|gb|ADM89800.1| putative DNA-directed RNA polymerase, alpha subunit [Candidatus Zinderia insecticola CARI] Length = 224 Score = 85.0 bits (209), Expect = 1e-14, Method: Composition-based stats. Identities = 51/202 (25%), Positives = 100/202 (49%), Gaps = 9/202 (4%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEIS 73 I + + N +L + L G A+ + N ++++ ++ ++G + + + +EIS Sbjct: 2 KINKFIEKKIGINYSLFYLKNLKNGIANIIANFIKKISLNQIKGFCVYKIIFKNIKNEIS 61 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDH 132 IKG+ ED+ DI+LNIK + K+ + + G + A +I+T+N +I++LNP H Sbjct: 62 YIKGIKEDIIDIVLNIKNVIFKIKNNKTTF-FLKNYFLGPIYAYNIKTLNKNIKILNPSH 120 Query: 133 VICNLDVDAVVRMELTVSKGHGY-----VPAKHHRTENDPIGLITIDALYSPIKKVSYTV 187 +I N + + + + V KG GY + + +I +D Y+P+KK + + Sbjct: 121 LIANAIIKTKLNILIKVKKGKGYINNNEKKKFKYYNKEKKKIVIYLDTNYTPVKKFFFKI 180 Query: 188 ESAREGQVLDYDKLSMTIDTDG 209 + Y+ L + I T+G Sbjct: 181 KKKII--KKKYEDLKIYIKTNG 200 >gi|325106907|ref|YP_004267975.1| RNA polymerase subunit alpha domain protein [Planctomyces brasiliensis DSM 5305] gi|324967175|gb|ADY57953.1| RNA polymerase alpha subunit domain protein [Planctomyces brasiliensis DSM 5305] Length = 436 Score = 84.3 bits (207), Expect = 2e-14, Method: Composition-based stats. Identities = 31/86 (36%), Positives = 41/86 (47%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ + L + + ELS RS NCL I + DL + +E +L NFG Sbjct: 271 DEEAARRDKQLEQILSIPMSDFELSARSRNCLERAGIDRLEDLTKMSEEQLLAGKNFGET 330 Query: 302 SLVEIKGVLGTMGLFLGMNLPDWPPE 327 SL EIK +L GL LG N+ PE Sbjct: 331 SLKEIKAILEMHGLKLGQNVHKKQPE 356 Score = 83.5 bits (205), Expect = 4e-14, Method: Composition-based stats. Identities = 27/97 (27%), Positives = 44/97 (45%) Query: 221 SRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVY 280 + + L + N + + E + V +LELSVR+ CL I Sbjct: 337 AILEMHGLKLGQNVHKKQPEPLYKPEELTPEERMIHEMTVSDLELSVRARKCLARLGINT 396 Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +G+L+ R+ ++L + NFG SL EI+ LG + L Sbjct: 397 VGELVSRSADELLSVRNFGVTSLNEIREKLGEKNIRL 433 >gi|32471678|ref|NP_864671.1| DNA-directed RNA polymerase alpha chain [Rhodopirellula baltica SH 1] gi|32397049|emb|CAD72353.1| probable DNA-directed RNA polymerase alpha chain [Rhodopirellula baltica SH 1] gi|327539093|gb|EGF25725.1| RNA polymerase alpha subunit domain protein [Rhodopirellula baltica WH47] Length = 500 Score = 84.3 bits (207), Expect = 3e-14, Method: Composition-based stats. Identities = 31/77 (40%), Positives = 42/77 (54%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ ++ L V ELSVRS NCL+ I +GDL + +E ++L NFG Sbjct: 334 DEEAQRRNDRLAQTLNMPVANFELSVRSRNCLQKMGIETIGDLTRHSEQELLSSKNFGET 393 Query: 302 SLVEIKGVLGTMGLFLG 318 SLVEI+ +L GL LG Sbjct: 394 SLVEIREMLSQKGLSLG 410 Score = 71.5 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 28/82 (34%), Positives = 43/82 (52%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E+ + D + S L + + +L LSVR+ C+ I +G+LI++T DML Sbjct: 415 EKKSNDPPVDTSHMSPDEQALLERPIADLNLSVRARKCMTRLQINSIGELIRKTGDDMLE 474 Query: 295 MANFGRKSLVEIKGVLGTMGLF 316 NFG SL E++ LG +GL Sbjct: 475 CKNFGVTSLNEVREKLGDLGLK 496 >gi|91203075|emb|CAJ72714.1| hypothetical protein kustd1969 [Candidatus Kuenenia stuttgartiensis] Length = 380 Score = 82.7 bits (203), Expect = 8e-14, Method: Composition-based stats. Identities = 40/169 (23%), Positives = 62/169 (36%), Gaps = 11/169 (6%) Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 ++ I P K +Y YD + ++ + + + Sbjct: 209 EDDLAIEYYERCTNLRPAHKNAYMNLGILYEDNGKYDDAIFCYE---AVLDVEPMHERAS 265 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG 282 E+ + K L + + ELSVRS NCL NI + Sbjct: 266 FCLKSAKASSEM-----VFDEEASKKQGHEGDVLNIPISDFELSVRSRNCLEKMNIHTLR 320 Query: 283 DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 DL + +E D+L NFG SL EIK +L GL LG + + +IE+ Sbjct: 321 DLTRISEPDLLTFKNFGETSLNEIKAILIQKGLQLGQS---YDGHNIEK 366 >gi|168704678|ref|ZP_02736955.1| probable DNA-directed RNA polymerase alpha chain [Gemmata obscuriglobus UQM 2246] Length = 458 Score = 81.9 bits (201), Expect = 1e-13, Method: Composition-based stats. Identities = 30/83 (36%), Positives = 43/83 (51%) Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + + L + + ELSVRS NCL+ NI +GDL + TE +L NFG Sbjct: 289 HYSPEDEQLTQANRVVLEIPITDFELSVRSRNCLKRMNIRTLGDLTRVTEPQLLASKNFG 348 Query: 300 RKSLVEIKGVLGTMGLFLGMNLP 322 SL EI+ ++ T GL +G +L Sbjct: 349 ETSLDEIRAIMVTKGLRIGQSLD 371 Score = 74.2 bits (181), Expect = 3e-11, Method: Composition-based stats. Identities = 27/74 (36%), Positives = 38/74 (51%) Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 S L K V +L LSVR+ C+ NI +G+L+QRT ++L NFG+ SL Sbjct: 382 PQQNLSPEEQATLGKPVSDLNLSVRARKCMNRLNIGTLGELVQRTADELLEAKNFGQTSL 441 Query: 304 VEIKGVLGTMGLFL 317 E++ L L L Sbjct: 442 TEVRERLQQFNLKL 455 >gi|87307747|ref|ZP_01089890.1| probable DNA-directed RNA polymerase alpha chain [Blastopirellula marina DSM 3645] gi|87289361|gb|EAQ81252.1| probable DNA-directed RNA polymerase alpha chain [Blastopirellula marina DSM 3645] Length = 455 Score = 81.6 bits (200), Expect = 2e-13, Method: Composition-based stats. Identities = 32/77 (41%), Positives = 43/77 (55%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ K L V + ELSVRS NCL+ I +GDL + +E ++L NFG Sbjct: 289 DEEAQKKRDRIAQVLSIPVTDFELSVRSRNCLQKMGIQTLGDLSRCSEQELLSSKNFGET 348 Query: 302 SLVEIKGVLGTMGLFLG 318 SLVEI+ +L + GL LG Sbjct: 349 SLVEIREMLNSKGLELG 365 Score = 73.5 bits (179), Expect = 5e-11, Method: Composition-based stats. Identities = 25/83 (30%), Positives = 42/83 (50%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 ++ + E ++ S L + + EL LSVR+ C+ I +G+L++RT ++L Sbjct: 370 DKGQPEPTIEVAGLSPDEQALLDRPISELNLSVRARKCMVRLGISTIGELVRRTGDELLE 429 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 NFG SL E++ L L L Sbjct: 430 CKNFGVTSLNEVREKLTASNLKL 452 >gi|296120871|ref|YP_003628649.1| RNA polymerase subunit alpha domain protein [Planctomyces limnophilus DSM 3776] gi|296013211|gb|ADG66450.1| RNA polymerase alpha subunit domain protein [Planctomyces limnophilus DSM 3776] Length = 451 Score = 81.2 bits (199), Expect = 2e-13, Method: Composition-based stats. Identities = 30/100 (30%), Positives = 52/100 (52%), Gaps = 4/100 (4%) Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPAL----LKKVEELELSVRSTNCLRGENIVYM 281 + + + ++ + + + + + V + ELSVRS NCL +I + Sbjct: 255 NHVRARMYMKDIEATQEMYYDDDMARNEARMAQLLSRPVTDFELSVRSRNCLASMDIHTL 314 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 GDL + +E+D+L+ NFG SLVEI+ ++ GL +G NL Sbjct: 315 GDLTRVSESDLLQGKNFGETSLVEIRDLMQQHGLKVGQNL 354 Score = 72.7 bits (177), Expect = 8e-11, Method: Composition-based stats. Identities = 26/81 (32%), Positives = 38/81 (46%) Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 P N S L + V +L LSVR+ C+ I +G+L+Q++ ++L Sbjct: 368 PASAFAPIGNDLSPQEQALLSRPVSDLNLSVRARKCMARLQIGTLGELVQKSADELLATK 427 Query: 297 NFGRKSLVEIKGVLGTMGLFL 317 NFG SL EI+ L L L Sbjct: 428 NFGVTSLNEIRAQLTEHNLKL 448 >gi|110004169|emb|CAK98507.1| hypothetical protein with alpha rna polymerase domain pd001179 [Spiroplasma citri] Length = 111 Score = 79.6 bits (195), Expect = 6e-13, Method: Composition-based stats. Identities = 23/83 (27%), Positives = 43/83 (51%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E ++++ + + N L +++LE++ R+ CL I + DL+ +TE ++ Sbjct: 27 NEIQEQITIWLEMDETERNQLLNHSIDDLEITQRTQICLEKAKIYRLSDLVSKTENEIKN 86 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 + N G KSL EIK + +GL Sbjct: 87 IKNLGEKSLTEIKEKMHELGLHF 109 >gi|283781750|ref|YP_003372505.1| RNA polymerase subunit alpha [Pirellula staleyi DSM 6068] gi|283440203|gb|ADB18645.1| RNA polymerase alpha subunit domain protein [Pirellula staleyi DSM 6068] Length = 440 Score = 79.3 bits (194), Expect = 8e-13, Method: Composition-based stats. Identities = 30/77 (38%), Positives = 44/77 (57%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRK 301 E+ ++ L V + ELSVRS NCL+ + +GDL + +E ++L NFG Sbjct: 274 DEEAQRRNDRLAQVLSIPVTDFELSVRSRNCLQKMGVRTLGDLTRTSEQELLASKNFGET 333 Query: 302 SLVEIKGVLGTMGLFLG 318 SLVEI+ +L + GL LG Sbjct: 334 SLVEIRDMLHSKGLELG 350 Score = 70.0 bits (170), Expect = 5e-10, Method: Composition-based stats. Identities = 27/83 (32%), Positives = 44/83 (53%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E+ E D+ S L + + EL LSVR+ C+ + +G+L+++T D+L Sbjct: 355 EKAVAEPVLDLASMSPDEQALLERPISELNLSVRARKCMARLGLTLIGELVRKTGDDLLE 414 Query: 295 MANFGRKSLVEIKGVLGTMGLFL 317 NFG SL E++ L T+G+ L Sbjct: 415 CKNFGVTSLNEVREKLTTLGIKL 437 >gi|166714710|gb|ABY88080.1| RpoA [Stenotrophomonas sp. LMG 10851] gi|166714712|gb|ABY88081.1| RpoA [Stenotrophomonas sp. LMG 10877] Length = 93 Score = 78.9 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 31/81 (38%), Positives = 50/81 (61%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA +SP+++V+Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL + Sbjct: 4 LVLDASFSPVRRVAYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSV 63 Query: 231 FINFEEPKKEVKEDINVKSLP 251 F +F + + N P Sbjct: 64 FGDFTHRDRGAAKPANNGVDP 84 >gi|291533600|emb|CBL06713.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Megamonas hypermegale ART12/1] Length = 85 Score = 78.9 bits (193), Expect = 1e-12, Method: Composition-based stats. Identities = 26/74 (35%), Positives = 43/74 (58%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E+ + + + + +E+L+LSVRS NCL+ I + DL+Q++E DM++ Sbjct: 6 EDIPADEGIFNVPEEDNTSKVMEMTIEDLDLSVRSYNCLKRAEINTVADLMQKSEDDMIK 65 Query: 295 MANFGRKSLVEIKG 308 + N GRKSL E+K Sbjct: 66 VRNLGRKSLEEVKK 79 >gi|166714662|gb|ABY88056.1| RpoA [Stenotrophomonas sp. LMG 978] Length = 81 Score = 75.0 bits (183), Expect = 2e-11, Method: Composition-based stats. Identities = 29/79 (36%), Positives = 47/79 (59%), Gaps = 3/79 (3%) Query: 143 VRMELTVSKGHGYVPAKHHRTENDPIGLI---TIDALYSPIKKVSYTVESAREGQVLDYD 199 + M L + +G GY PA R ++ I +DA +SP+++V+Y VE+AR Q D D Sbjct: 2 INMRLKIERGFGYQPAAARRRPDEETRAIGRLVLDASFSPVRRVAYAVEAARVEQRTDLD 61 Query: 200 KLSMTIDTDGSITGEDSVA 218 KL + I+ +G+I E++V Sbjct: 62 KLVIDIENNGTIDAEEAVR 80 >gi|71027147|ref|XP_763217.1| DNA-directed RNA polymerase subunit alpha [Theileria parva strain Muguga] gi|68350170|gb|EAN30934.1| DNA-directed RNA polymerase, alpha subunit, putative [Theileria parva] Length = 377 Score = 73.5 bits (179), Expect = 5e-11, Method: Composition-based stats. Identities = 43/250 (17%), Positives = 88/250 (35%), Gaps = 53/250 (21%) Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKM-----SGDSHKRVTIFKRGPGVVTAGDIQTV 122 + +E S+ G+ ED +++ N++G+ K + + T+ +GP + AG ++ Sbjct: 1 MDNEFYSVVGLREDFFELVRNLRGVIFKNVPKTATFTNPVIATLRLKGPIIAVAGHLKFD 60 Query: 123 --------------------------------------------NDIEVLNPDHVICNLD 138 +IEV+N +H IC+L Sbjct: 61 NKKSSKTNPNSTDESTDKNADNTDAKVENAENVINDYVYDKKYTGEIEVINKNHYICSLS 120 Query: 139 VDAVVRMELTVSKGHGYVPAKHH----RTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + M++ + YV +H + P G I + +P++ +T E + Sbjct: 121 QGCYLTMDVKIEYISNYVIPEHGPESLNRDITPDGFIHFCSSVNPVEVFGFTGERRGLDE 180 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNP 254 + +++ + TDGS T ++ ++ L + + K FN Sbjct: 181 QSTSEIVTLEVHTDGSATPRVALLKSATFLLNWFDRTLYALRTNLSRDFYALKKENMFNT 240 Query: 255 ALLKKVEELE 264 + L EL Sbjct: 241 SPLMLNHELN 250 >gi|213580698|ref|ZP_03362524.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. E98-0664] Length = 46 Score = 73.5 bits (179), Expect = 5e-11, Method: Composition-based stats. Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 3/49 (6%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRV 50 +Q + E +KP ++ + + EPL RGF HTLGNALRR+ Sbjct: 1 MQGSVTEFLKPRLVDIEQVSS---THAKVTLEPLERGFGHTLGNALRRI 46 >gi|68062152|ref|XP_673079.1| hypothetical protein [Plasmodium berghei strain ANKA] gi|56490663|emb|CAI02138.1| hypothetical protein PB300573.00.0 [Plasmodium berghei] Length = 299 Score = 72.3 bits (176), Expect = 9e-11, Method: Composition-based stats. Identities = 30/159 (18%), Positives = 63/159 (39%), Gaps = 4/159 (2%) Query: 107 FKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVP----AKHHR 162 +GP +V AG +Q +IE++N + IC + + + M++ + YV ++ Sbjct: 14 RIKGPMIVVAGHMQLPKNIEIINKNQYICYVAAGSYLEMDVKIESIEEYVMPEYGSQSRN 73 Query: 163 TENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASR 222 + I + +P++ +T + + + + + TDGSIT + ++ Sbjct: 74 RDICKDNFIHFCSSCTPVEYFGFTGQRRGINLDILGEINIVEMHTDGSITPKTALLKTID 133 Query: 223 ILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + + N ED +V+ NP E Sbjct: 134 YMSENFQYIENALHNNCHSCEDGSVEEEFRNPEFYMDKE 172 >gi|24638176|sp|Q8SL86|RPOA_EUGVI RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|19168446|gb|AAL83368.1| RNA polymerase alpha subunit [Euglena viridis] Length = 214 Score = 71.5 bits (174), Expect = 2e-10, Method: Composition-based stats. Identities = 35/182 (19%), Positives = 73/182 (40%), Gaps = 41/182 (22%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGV-------------LHEISSIKGVHEDLTDIILNI 89 N LRR+L+ G ++I G ++E S + ++E + + LNI Sbjct: 35 FANQLRRILLGKSEGLRF--LKISGFIANKNSKFSVYQKINEFSEFEEINESVFQLFLNI 92 Query: 90 KGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRME 146 K I+L + T+ P + DI +I+++ + I +L ++M+ Sbjct: 93 KNIDLYYRSCDANKRFFGTLEAYYPKTYSQDDIILSKNIKLIKKNQHIFSLS-SLKLKMK 151 Query: 147 LTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 + G I + ++P+K+V+Y +E L + ++ + ++ Sbjct: 152 FILEAKKG------------------IGSFFTPVKRVNYIIE----ENKLSFSRVVLELE 189 Query: 207 TD 208 TD Sbjct: 190 TD 191 >gi|224179501|ref|YP_002601032.1| alpha subunit of RNA polymerase [Monomastix sp. OKE-1] gi|217314544|gb|ACK36887.1| alpha subunit of RNA polymerase [Monomastix sp. OKE-1] Length = 324 Score = 71.2 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 9/71 (12%) Query: 21 GQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------VLHE 71 + L +G T+ NALRRVL+ + G IT V+ + LHE Sbjct: 36 ENSSLHYGKFYLSGLKKGQGITVANALRRVLLYDIMGLGITKVKFNSKNNENLSSQKLHE 95 Query: 72 ISSIKGVHEDL 82 S+I G+ E + Sbjct: 96 FSTISGIRESI 106 Score = 58.8 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 28/151 (18%), Positives = 52/151 (34%), Gaps = 19/151 (12%) Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN----------LDVDAVVR 144 K + + + Q N +++NP+ + L Sbjct: 174 KNKNNQSSVFVLRGKHLISADQRTNQNPNFAQLINPEQYLATILPIQKTATGLSKFPEFE 233 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREG------QVLDY 198 +E + G G + N+ + + P+KKV+YTVE + + Sbjct: 234 IEYKI--GKGNLFENLDLQSNNE-EFLLNSGPFFPVKKVNYTVEDIKNSTNNFLWERGFS 290 Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + + I TDGS+ E +++ A IL D Sbjct: 291 ECVFFEIWTDGSLHPEKALSQAFDILLDFFQ 321 >gi|115531956|ref|YP_784111.1| putative rpoA-like protein [Pelargonium x hortorum] gi|115531990|ref|YP_784145.1| putative rpoA-like protein [Pelargonium x hortorum] gi|122164251|sp|Q06FN6|RPAL3_PELHO RecName: Full=Putative DNA-directed RNA polymerase subunit alpha-like 3; Short=Putative PEP 3; AltName: Full=Putative plastid-encoded RNA polymerase subunit alpha 3; Short=Putative RNA polymerase subunit alpha 3 gi|112382110|gb|ABI17303.1| putative rpoA-like protein [Pelargonium x hortorum] gi|112382144|gb|ABI17337.1| putative rpoA-like protein [Pelargonium x hortorum] Length = 365 Score = 71.2 bits (173), Expect = 2e-10, Method: Composition-based stats. Identities = 41/217 (18%), Positives = 77/217 (35%), Gaps = 10/217 (4%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED 81 ++ PL + L L L++ + T +I + +I G+ E Sbjct: 28 HKDFAYGRFALSPLTAKESRLLKKGLFEALLTEILCLRFTHAKIQNECVNLMNIVGIQES 87 Query: 82 LTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN 136 L +I+ N I L G + RGP A DI+ I+V I Sbjct: 88 LDEILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIKVEIETQHIAT 147 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 + +EL + T +ID PI+KV+ +++ G Sbjct: 148 ITEPIPFVVELRIEL---VSSTSKGETGITDEEGFSIDPN-PPIRKVNSSIQGYEYGGQT 203 Query: 197 DYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +++LS+ + T I +++ L S + + + + Sbjct: 204 -FERLSIEMLTSLPIIPNEALLLGSMKIMNLFQIVLQ 239 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 15/86 (17%), Positives = 35/86 (40%), Gaps = 5/86 (5%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 G E D ID+ ++P++ + +ES E + +L + I T Sbjct: 283 GRKHQGPLTDEEDDS----IDSNFTPVQNLDCRIESYEEEGQT-FQRLFLEIWTKSPTEP 337 Query: 214 EDSVALASRILQDQLGMFINFEEPKK 239 ++++ AS + + +F+ + + Sbjct: 338 QEALWEASAKILELFSLFLQTSKENE 363 >gi|32474617|ref|NP_867611.1| DNA-directed RNA polymerase alpha chain [Rhodopirellula baltica SH 1] gi|32445156|emb|CAD75158.1| probable DNA-directed RNA polymerase alpha chain [Rhodopirellula baltica SH 1] gi|327540701|gb|EGF27273.1| DNA-directed RNA polymerase, alpha subunit [Rhodopirellula baltica WH47] Length = 92 Score = 68.1 bits (165), Expect = 2e-09, Method: Composition-based stats. Identities = 21/58 (36%), Positives = 36/58 (62%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 + E+ L+VR+TNCL I+ + DL+ T +L+++NFG K+L E+ L +G + Sbjct: 24 SIAEMGLTVRTTNCLEETGILTVRDLLNATPRRLLKISNFGEKTLEEVYDALEQLGFY 81 >gi|239933877|ref|ZP_04690830.1| DNA-directed RNA polymerase subunit alpha [Streptomyces ghanaensis ATCC 14672] Length = 88 Score = 67.3 bits (163), Expect = 3e-09, Method: Composition-based stats. Identities = 24/88 (27%), Positives = 46/88 (52%) Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 ++ IG I +D++YSP+ KV+Y VE+ R Q D+DKL + ++T ++ D++A Sbjct: 1 MQNKQVGQEIGRIPVDSIYSPVLKVTYKVEATRVEQRTDFDKLIVDVETKQAMRPRDAMA 60 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDIN 246 A + L + G+ + + + Sbjct: 61 SAGKTLVELFGLARELNIGAEGIDMGPS 88 >gi|87309222|ref|ZP_01091359.1| probable DNA-directed RNA polymerase alpha chain [Blastopirellula marina DSM 3645] gi|87288213|gb|EAQ80110.1| probable DNA-directed RNA polymerase alpha chain [Blastopirellula marina DSM 3645] Length = 93 Score = 66.9 bits (162), Expect = 5e-09, Method: Composition-based stats. Identities = 23/59 (38%), Positives = 35/59 (59%) Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 E+ L+VR+TNCL I + DL+ T AD+L ++NFG K+L E+ L ++G Sbjct: 21 EMSTAEIGLTVRTTNCLEERGIFTVRDLLNCTRADLLSISNFGEKTLDEVYSSLESIGF 79 >gi|221484912|gb|EEE23202.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii GT1] Length = 837 Score = 65.8 bits (159), Expect = 1e-08, Method: Composition-based stats. Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 1/52 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED-LTDIILNIKGINLK 95 NALRR +S L AI+AV+I+G HE S+ G+ ED + DI N+ I + Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFNNLGKIVFR 125 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 4/109 (3%) Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 277 NFTHPLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNAGYYVNMDFKIERIREYV 336 Query: 157 PA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + D G + +P+ +Y E E +D++ Sbjct: 337 MPEFGYDSLERDRDKEGFMYFTNYVAPVPIFAYAAERRGEAVHTKWDEV 385 >gi|237835983|ref|XP_002367289.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii ME49] gi|211964953|gb|EEB00149.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii ME49] gi|221506032|gb|EEE31667.1| DNA-directed RNA polymerase alpha chain, putative [Toxoplasma gondii VEG] Length = 836 Score = 65.8 bits (159), Expect = 1e-08, Method: Composition-based stats. Identities = 23/52 (44%), Positives = 32/52 (61%), Gaps = 1/52 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED-LTDIILNIKGINLK 95 NALRR +S L AI+AV+I+G HE S+ G+ ED + DI N+ I + Sbjct: 74 NALRRTSLSRLESLAISAVKIEGAKHEFYSLPGIREDIVDDIFNNLGKIVFR 125 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 4/109 (3%) Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 277 NFTHPLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNAGYYVNMDFKIERIREYV 336 Query: 157 PA----KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + D G + +P+ +Y E E +D++ Sbjct: 337 MPEFGYDSLERDRDKEGFMYFTNYVAPVPIFAYAAERRGEAVHTKWDEV 385 >gi|295106723|emb|CBL04266.1| DNA-directed RNA polymerase subunit beta' [Gordonibacter pamelaeae 7-10-1-b] Length = 1473 Score = 65.4 bits (158), Expect = 1e-08, Method: Composition-based stats. Identities = 19/56 (33%), Positives = 29/56 (51%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++L +S R N I + DL+ TE D+LR+ G K++ E+K L GL Sbjct: 1322 DDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEELKEGLAERGLS 1377 >gi|257064681|ref|YP_003144353.1| DNA-directed RNA polymerase subunit beta' [Slackia heliotrinireducens DSM 20476] gi|256792334|gb|ACV23004.1| DNA-directed RNA polymerase subunit beta' [Slackia heliotrinireducens DSM 20476] Length = 1463 Score = 65.0 bits (157), Expect = 1e-08, Method: Composition-based stats. Identities = 20/56 (35%), Positives = 30/56 (53%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++L +S R N I +GDL+ TE ++LR+ G K+L E+K L GL Sbjct: 1311 DDLGVSQRWANKFSEAGIETVGDLVGYTEDELLRIEGIGAKALEELKAGLQDHGLE 1366 >gi|269216200|ref|ZP_06160054.1| DNA-directed RNA polymerase, beta subunit [Slackia exigua ATCC 700122] gi|269130459|gb|EEZ61537.1| DNA-directed RNA polymerase, beta subunit [Slackia exigua ATCC 700122] Length = 1458 Score = 65.0 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 19/56 (33%), Positives = 29/56 (51%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++L +S R N I +GDL+ TE ++LR+ G K+L E+K L L Sbjct: 1310 DDLGVSQRWANKFSEAGIDTVGDLVGYTEDELLRIEGIGAKALEELKAGLEEHELS 1365 >gi|115531952|ref|YP_784107.1| putative rpoA-like protein [Pelargonium x hortorum] gi|115531994|ref|YP_784149.1| putative rpoA-like protein [Pelargonium x hortorum] gi|122164248|sp|Q06FN2|RPAL1_PELHO RecName: Full=Putative DNA-directed RNA polymerase subunit alpha-like 1; Short=Putative PEP 1; AltName: Full=Putative plastid-encoded RNA polymerase subunit alpha 1; Short=Putative RNA polymerase subunit alpha 1 gi|112382106|gb|ABI17299.1| putative rpoA-like protein [Pelargonium x hortorum] gi|112382148|gb|ABI17341.1| putative rpoA-like protein [Pelargonium x hortorum] Length = 574 Score = 65.0 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 40/219 (18%), Positives = 72/219 (32%), Gaps = 12/219 (5%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI--SSIKGVH 79 + PL + L LR L++ + T +I + +I G+ Sbjct: 19 HNDLLYGRFALSPLTAKESRLLKKGLREALLTGILCLRFTHAKIQNACKNLNLMNIVGIQ 78 Query: 80 EDLTDIILNIKGINLKMS-----GDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVI 134 E L +I+ N I L G + RGP A DI+ I+V I Sbjct: 79 ESLDEILKNFGKIILTGKLEEFVGKGPFVAILDVRGPLNAMAVDIELPPGIKVEIETQHI 138 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQ 194 + +EL + T +ID PI+KV+ +++ G Sbjct: 139 ATITEPIPFVVELRIEL---VSSTSKGETGITDEEGFSIDPN-PPIQKVNSSIQGYEYGG 194 Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 + L + I + ++ L S + + + + Sbjct: 195 QT-FQTLFIEILSTSPTVPNKALLLVSMKIMNLFQIVLQ 232 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 20/115 (17%), Positives = 43/115 (37%), Gaps = 10/115 (8%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 G E D ID+ ++P++ + +ES E + +L + I T Sbjct: 276 GRKHQGPLTDEEDDS----IDSNFTPVQNLDCRIESYEEEGQT-FQRLFLEIWTKSPTEP 330 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE-----VKEDINVKSLPFNPALLKKVEEL 263 ++++ AS + + +F+ + ++ +K+ K L EE Sbjct: 331 QEALWEASAKILELFSLFLQTSKENEKDLKQIIKDWTENKRKHQEVLRLLDSEES 385 >gi|313906563|ref|ZP_07839891.1| RNA polymerase alpha subunit domain protein [Eubacterium cellulosolvens 6] gi|313468593|gb|EFR63967.1| RNA polymerase alpha subunit domain protein [Eubacterium cellulosolvens 6] Length = 976 Score = 65.0 bits (157), Expect = 2e-08, Method: Composition-based stats. Identities = 21/58 (36%), Positives = 33/58 (56%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++ + LS RSTN L E I +GD++ TE +L++ N G+KS+ EI + L Sbjct: 7 SIDTIGLSARSTNALHREEIHTVGDMLGFTEESLLQVKNLGKKSVEEIVEKIKKYKLN 64 >gi|297745992|emb|CBI16048.3| unnamed protein product [Vitis vinifera] Length = 110 Score = 64.2 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 4/54 (7%) Query: 13 NNIEYIVLGQEEEN----RTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITA 62 +++ + N I P G A T+G +RR L + G IT Sbjct: 11 RTLQWKCVESRVNNKRLCYGRFILSPFIIGQADTIGIVMRRTLFGEIEGTCITR 64 >gi|24638179|sp|Q8SL92|RPOA_EUGGA RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|19168437|gb|AAL83362.1| RNA polymerase alpha subunit [Euglena granulata] Length = 216 Score = 64.2 bits (155), Expect = 3e-08, Method: Composition-based stats. Identities = 33/192 (17%), Positives = 72/192 (37%), Gaps = 36/192 (18%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLH------------EISSIKGVHEDLTDIILNIK 90 LGN R+ L+ S G I + V H E S ++ V E D+ Sbjct: 36 LGNIFRQFLLGSFEGLVINEKRFY-VSHTNSLYKDFYLVNEFSLLEEVLEPFYDVWTVFD 94 Query: 91 GINLKMSGDSHK--RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 + K K + G G + + DI +++ +L + + + + L Sbjct: 95 NLRFKEKFSLSKRYYARLLTYGSGEINSKDIIVPSNLSLLENKSLFTLITDSLCIDVILQ 154 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + +G + ++ +++V+Y +E++ G ++Y+KL + I T Sbjct: 155 ILSKNG--------------------SPFNGVERVNYILENSNSGN-INYNKLYLDISTR 193 Query: 209 GSITGEDSVALA 220 ++ +++ Sbjct: 194 YFLSPMEALFEC 205 >gi|108773408|ref|YP_635927.1| PEP RNA polymerase alpha subunit [Helicosporidium sp. ex Simulium jonesii] gi|122197336|sp|Q2EEW7|RPOA_HELSJ RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|87242983|gb|ABD33975.1| RNA polymerase alpha chain [Helicosporidium sp. ex Simulium jonesi] Length = 246 Score = 63.8 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 41/235 (17%), Positives = 80/235 (34%), Gaps = 31/235 (13%) Query: 21 GQEEENRT-LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVH 79 + N + PLP G A +LG +R VL+ A+ ++ + + + G Sbjct: 11 NEYNNNYAASFLIGPLPEGIAQSLGFNIRSVLLKEFPYFAVKNIRFNPENNNYKTHIGTK 70 Query: 80 EDLTDIILNIKGINLKMSGDSHKRVTIFKR----------------------GPGVVTAG 117 E + II I GI+ S D +K + ++K G G++ A Sbjct: 71 ESIETIINTILGIDFNYSFDFYKAMGLYKSKPKALFQENLSKAKFLCSAKQVGEGILYAK 130 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 D+ I+ P +I ++ + + G + I I + Sbjct: 131 DLMLPVGIKCTTPYKIIAHVTKQNFLGFTFELGFLFGLNNNIKFENKLYSIKTYPIQNIN 190 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA-LASRILQDQLGMF 231 I + L+ + + ++ T S+ D + L+ +L L + Sbjct: 191 IEIINSKKSF-------NLNSESIILSFTTKSSLQPIDVIKILSYLLLNKHLILI 238 >gi|166714640|gb|ABY88045.1| RpoA [Stenotrophomonas rhizophila] Length = 79 Score = 63.8 bits (154), Expect = 3e-08, Method: Composition-based stats. Identities = 27/70 (38%), Positives = 41/70 (58%) Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 +V+Y VE+AR Q D DKL + I+T+G+I E++V A+ IL DQL +F +F + Sbjct: 1 RVAYAVEAARVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSVFGDFTHRDRGA 60 Query: 242 KEDINVKSLP 251 + N P Sbjct: 61 AKPANNGVDP 70 >gi|325120592|emb|CBZ56146.1| putative DNA-directed RNA polymerase alpha chain [Neospora caninum Liverpool] Length = 941 Score = 63.8 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 1/52 (1%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED-LTDIILNIKGINLK 95 NALRR +S + A+ AV+I+G HE S+ G+ ED + DI N+ I + Sbjct: 183 NALRRTSLSRIESLAVAAVKIEGAKHEFYSLPGIREDIVDDIFNNLGKIVFR 234 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 4/109 (3%) Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 + R + RGP V AG IQ +EV+N + + ++ V M+ + + YV Sbjct: 384 NFTHPLRAKLRVRGPLVAVAGHIQLPEGVEVVNKNQYLFTVNSGYYVNMDFKIERIREYV 443 Query: 157 PAKHHRT----ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + + D G + +P+ +Y E E +D++ Sbjct: 444 MPEFGYDSLERDRDEEGFMYFTNHVAPVPIFAYAAERRGEAVHTKWDEV 492 >gi|94502342|ref|ZP_01308812.1| DNA-directed RNA polymerase alpha chain [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] gi|94451097|gb|EAT14052.1| DNA-directed RNA polymerase alpha chain [Candidatus Sulcia muelleri str. Hc (Homalodisca coagulata)] Length = 87 Score = 63.8 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 31/86 (36%), Positives = 49/86 (56%) Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 GYVP++ ++ G I +D++++PIK V Y +++ + +Y+ L + I TDGSI Sbjct: 2 GYVPSEENKENLIGSGSIPMDSIFTPIKNVKYKIDNCSINKNSNYESLLLEIKTDGSINP 61 Query: 214 EDSVALASRILQDQLGMFINFEEPKK 239 D++ AS IL L MFI KK Sbjct: 62 RDALTNASNILIQHLKMFIYETRKKK 87 >gi|256826829|ref|YP_003150788.1| DNA-directed RNA polymerase subunit beta' [Cryptobacterium curtum DSM 15641] gi|256582972|gb|ACU94106.1| DNA-directed RNA polymerase subunit beta' [Cryptobacterium curtum DSM 15641] Length = 1463 Score = 63.8 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 19/55 (34%), Positives = 29/55 (52%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++L +S R N I +GDLI +E D+LR+ G K++ E+K L L Sbjct: 1320 DDLGVSQRWANKFSEAGIETVGDLIGYSEEDLLRIEGIGAKAIEELKEGLEKHDL 1374 >gi|328955919|ref|YP_004373252.1| DNA-directed RNA polymerase subunit beta' [Coriobacterium glomerans PW2] gi|328456243|gb|AEB07437.1| DNA-directed RNA polymerase subunit beta' [Coriobacterium glomerans PW2] Length = 1497 Score = 63.8 bits (154), Expect = 4e-08, Method: Composition-based stats. Identities = 24/90 (26%), Positives = 42/90 (46%) Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 QL E + N +++ + A L ++L +S R TN I +GDL+ Sbjct: 1308 QQLDWAGFDEFGVGDGSFTRNGRTISADDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLV 1367 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++E D+LR+ G K++ E++ L L Sbjct: 1368 GKSEEDLLRIDGIGAKAIEELRDGLEAHNL 1397 >gi|269925713|ref|YP_003322336.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC BAA-798] gi|269789373|gb|ACZ41514.1| sigma-70 region 4 domain protein [Thermobaculum terrenum ATCC BAA-798] Length = 785 Score = 63.5 bits (153), Expect = 4e-08, Method: Composition-based stats. Identities = 30/131 (22%), Positives = 56/131 (42%), Gaps = 12/131 (9%) Query: 211 ITGEDSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEELELSV 267 IT +A AS + ++ + + + + + L + + +E L+LS Sbjct: 110 ITTVQDLASASTFYIRAILGYVGRSQALVKQYTEEYLMKLLRLSKSHEVDNSLENLQLSP 169 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 R LR I L + T+ ++L++ G+ +L EIK V LG + + Sbjct: 170 RIRGILRRAGIFTADQLYRLTDEELLKLKGIGKAALEEIKAV------KLG-DADN--KR 220 Query: 328 SIEELAKKYED 338 SIEE ++ +D Sbjct: 221 SIEEEKQRLDD 231 >gi|221194869|ref|ZP_03567926.1| DNA-directed RNA polymerase, beta' subunit [Atopobium rimae ATCC 49626] gi|221185773|gb|EEE18163.1| DNA-directed RNA polymerase, beta' subunit [Atopobium rimae ATCC 49626] Length = 1480 Score = 63.5 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 1/76 (1%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++L +S R TN I +GDLI +TE D+LR+ G K++ E++ L L L + Sbjct: 1336 DDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGSKAIEELRQGLDARNL-LYIL 1394 Query: 321 LPDWPPESIEELAKKY 336 PD E+L++ Sbjct: 1395 EPDEDEADAEDLSQLL 1410 >gi|241765300|ref|ZP_04763279.1| hypothetical protein AcdelDRAFT_2510 [Acidovorax delafieldii 2AN] gi|241365019|gb|EER59924.1| hypothetical protein AcdelDRAFT_2510 [Acidovorax delafieldii 2AN] Length = 222 Score = 63.5 bits (153), Expect = 5e-08, Method: Composition-based stats. Identities = 19/65 (29%), Positives = 31/65 (47%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 E EL+ L + +GDL+Q + ++R+ F ++ I+ L GL +GM Sbjct: 146 SEIYELTDPVIALLVAAGVHRLGDLVQMSPTALMRIRGFDVLAMERIEEGLTIFGLKVGM 205 Query: 320 NLPDW 324 LP W Sbjct: 206 ALPGW 210 >gi|257784971|ref|YP_003180188.1| DNA-directed RNA polymerase, beta' subunit [Atopobium parvulum DSM 20469] gi|257473478|gb|ACV51597.1| DNA-directed RNA polymerase, beta' subunit [Atopobium parvulum DSM 20469] Length = 1475 Score = 63.1 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 1/76 (1%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++L +S R TN I +GDLI +TE D+LR+ G K++ E++ L L L + Sbjct: 1334 DDLGVSQRWTNKFSEVGIETVGDLIGKTEEDLLRIDGIGAKAIEELRDGLEARNL-LYIL 1392 Query: 321 LPDWPPESIEELAKKY 336 P+ E+L++ Sbjct: 1393 EPEEDEADSEDLSQLL 1408 >gi|308233483|ref|ZP_07664220.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM 15829] gi|328943547|ref|ZP_08241012.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM 15829] gi|327491516|gb|EGF23290.1| DNA-directed RNA polymerase subunit beta' [Atopobium vaginae DSM 15829] Length = 1485 Score = 63.1 bits (152), Expect = 6e-08, Method: Composition-based stats. Identities = 30/102 (29%), Positives = 48/102 (47%), Gaps = 1/102 (0%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 E+ N +SL A L ++L +S R TN I +GDLI +TE ++LR Sbjct: 1311 EDYSNNGVYSKNGRSLSTEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEDELLR 1370 Query: 295 MANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 + G K++ E++ L L L + PD E+L++ Sbjct: 1371 IDGIGAKAIEELREGLEARNL-LYILEPDEDEADSEDLSQLL 1411 >gi|326392492|ref|ZP_08213873.1| RNA polymerase dimerization [Thermoanaerobacter ethanolicus JW 200] gi|325991467|gb|EGD50078.1| RNA polymerase dimerization [Thermoanaerobacter ethanolicus JW 200] Length = 85 Score = 62.7 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 27/82 (32%), Positives = 45/82 (54%) Query: 176 LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 L+ K+VSY VE+ R G V DYDKL++ + T+G+IT ++++++AS +L FI+F Sbjct: 3 LFYTSKRVSYNVENTRVGHVTDYDKLTLEVWTNGTITPKEAISMASDMLIKYFQKFISFT 62 Query: 236 EPKKEVKEDINVKSLPFNPALL 257 K ++ L Sbjct: 63 GEYKSSDIFVDKPEKKSRETYL 84 >gi|210630991|ref|ZP_03296716.1| hypothetical protein COLSTE_00601 [Collinsella stercoris DSM 13279] gi|210160207|gb|EEA91178.1| hypothetical protein COLSTE_00601 [Collinsella stercoris DSM 13279] Length = 1490 Score = 62.7 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 18/55 (32%), Positives = 31/55 (56%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++L +S R TN I +GDL+ ++E D+LR+ G K++ E++ L L Sbjct: 1346 DDLGVSQRWTNKFSEVGIETVGDLVGKSEEDLLRIDGIGAKAIEELRDGLEEHNL 1400 >gi|166714718|gb|ABY88084.1| RpoA [Stenotrophomonas sp. LMG 11002] Length = 65 Score = 62.7 bits (151), Expect = 8e-08, Method: Composition-based stats. Identities = 27/61 (44%), Positives = 43/61 (70%) Query: 171 ITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGM 230 + +DA +SP+++V+Y VE+A Q D DKL + I+T+G+I E++V A+ IL DQL + Sbjct: 3 LVLDASFSPVRRVAYAVEAAAVEQRTDLDKLVIDIETNGTIDAEEAVRTAADILSDQLSV 62 Query: 231 F 231 F Sbjct: 63 F 63 >gi|139438557|ref|ZP_01772073.1| Hypothetical protein COLAER_01071 [Collinsella aerofaciens ATCC 25986] gi|133776096|gb|EBA39916.1| Hypothetical protein COLAER_01071 [Collinsella aerofaciens ATCC 25986] Length = 1373 Score = 62.3 bits (150), Expect = 9e-08, Method: Composition-based stats. Identities = 24/90 (26%), Positives = 40/90 (44%) Query: 226 DQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLI 285 QL E + N ++ A L ++L +S R TN I +GDL+ Sbjct: 1189 QQLDWAGYDEFGGADGSFTRNGHTISAEKARLYLFDDLGVSQRWTNKFSEVGIETVGDLV 1248 Query: 286 QRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++E D+LR+ G K++ E++ L L Sbjct: 1249 GKSEEDLLRIDGIGAKAIEELRDGLEAHDL 1278 >gi|315651633|ref|ZP_07904644.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986] gi|315486087|gb|EFU76458.1| conserved hypothetical protein [Eubacterium saburreum DSM 3986] Length = 596 Score = 62.3 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 17/66 (25%), Positives = 34/66 (51%) Query: 250 LPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 ++ LEL VRS N L+ NI+ + L++ ++ ++L++ N G++ + EI+ Sbjct: 217 EMQQKVDEDSIDNLELGVRSYNVLKRANIISIKKLLKMSDDELLKIRNLGKRQVAEIRTQ 276 Query: 310 LGTMGL 315 L Sbjct: 277 LIEKNY 282 >gi|302336390|ref|YP_003801597.1| DNA-directed RNA polymerase subunit beta' [Olsenella uli DSM 7084] gi|301320230|gb|ADK68717.1| DNA-directed RNA polymerase subunit beta' [Olsenella uli DSM 7084] Length = 1476 Score = 62.3 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 1/76 (1%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 ++L +S R TN I +GDLI +TE D+LR+ G K++ E++ L L L + Sbjct: 1335 DDLGVSQRWTNKFSEVGIETVGDLIGKTEDDLLRIDGIGAKAIEELRDGLEARNL-LYIL 1393 Query: 321 LPDWPPESIEELAKKY 336 PD E+L++ Sbjct: 1394 EPDDDEADSEDLSQLL 1409 >gi|4140424|gb|AAD04047.1| DNA-directed RNA polymerase [Chlamydia trachomatis] Length = 62 Score = 62.3 bits (150), Expect = 1e-07, Method: Composition-based stats. Identities = 19/46 (41%), Positives = 27/46 (58%) Query: 25 ENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLH 70 + +A+PL +G HTLG+ALRR L+ L AI + + GVL Sbjct: 8 DKVARFVADPLEKGMGHTLGSALRRALLIGLEAPAIVSFSMTGVLQ 53 >gi|303232376|ref|ZP_07319068.1| DNA-directed RNA polymerase, beta' subunit [Atopobium vaginae PB189-T1-4] gi|302481460|gb|EFL44528.1| DNA-directed RNA polymerase, beta' subunit [Atopobium vaginae PB189-T1-4] Length = 1484 Score = 61.9 bits (149), Expect = 1e-07, Method: Composition-based stats. Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 1/91 (1%) Query: 246 NVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVE 305 N + L A L ++L +S R TN I +GDLI +TE ++LR+ G K++ E Sbjct: 1321 NGRCLSSEDAKLYLFDDLGVSQRWTNKFSEVGIETVGDLIGKTEDELLRIDGIGAKAIEE 1380 Query: 306 IKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 ++ L L L + PD E+L++ Sbjct: 1381 LREGLEARNL-LYLLEPDEDEADSEDLSQLL 1410 >gi|24638177|sp|Q8SL88|RPOA_EUGST RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|19168443|gb|AAL83366.1| RNA polymerase alpha subunit [Euglena stellata] Length = 213 Score = 61.5 bits (148), Expect = 2e-07, Method: Composition-based stats. Identities = 43/180 (23%), Positives = 67/180 (37%), Gaps = 41/180 (22%) Query: 44 GNALRRVLMSSLRGAAI---------TAVQID--GVLHEISSIKGVHEDLTDIILNIKGI 92 GN LRR L+ L G + +I ++E S I+ V+ L + N + + Sbjct: 38 GNLLRRTLLKDLEGLRFGNSSIFISRSFSKIPYYHRVNEYSDIEQVNPSLLQVFSNFRNL 97 Query: 93 NL---KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN-LDVDAVVRMELT 148 ++ K I + DI N++ V+NPD + L +R+ Sbjct: 98 HIFSSKPFYRKTSYSMIKVLTSRSYFSKDILLPNNLYVVNPDVQLFEFLSKRYKLRIISE 157 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 + KG G +SPIKKV+Y VE + Y L + I TD Sbjct: 158 ICKGSGK--------------------SFSPIKKVNYVVE------GIPYASLLLEIYTD 191 >gi|301500977|ref|YP_003795442.1| RNA polymerase alpha subunit [Alveolata sp. CCMP3155] gi|300069523|gb|ADJ66630.1| RNA polymerase alpha subunit [Chromerida sp. RM11] Length = 233 Score = 61.1 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 28/109 (25%), Positives = 51/109 (46%), Gaps = 3/109 (2%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEI--SSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 NA+RR L+S + V+I+ + G + D+I ++ +++++ S Sbjct: 36 NAVRRTLLSFSTQLKLVGVKINSSRNTYPWCMFSGCRDSYLDLISRLQRLSVRIRETSLC 95 Query: 103 RV-TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 V + GP VV AG + T +E+L P+ + +L + MEL S Sbjct: 96 YVLQLKSSGPLVVVAGHMITPPTLEILTPNKYLTSLAAKCALDMELIFS 144 >gi|18978019|ref|NP_579376.1| DNA-directed RNA polymerase subunit D [Pyrococcus furiosus DSM 3638] gi|23822102|sp|Q8U0E4|RPOD_PYRFU RecName: Full=DNA-directed RNA polymerase subunit D gi|18893802|gb|AAL81771.1| DNA-directed RNA polymerase subunit d [Pyrococcus furiosus DSM 3638] Length = 261 Score = 61.1 bits (147), Expect = 2e-07, Method: Composition-based stats. Identities = 30/151 (19%), Positives = 59/151 (39%), Gaps = 9/151 (5%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEIS 73 IE +L ++E++ + +G + NALRR ++ + A+ V+ + Sbjct: 4 IEVQILEKKEDS-IKFVL----KGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFD 58 Query: 74 SIKGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNP 130 I + + + L D +++ GPG+V +GD++ D++ +NP Sbjct: 59 EIIAHRLAMIPLTTPVDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNP 118 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + I L + G G AK Sbjct: 119 NIPIVKLAEGQRLVFNAYAKLGRGKDHAKWQ 149 >gi|325829977|ref|ZP_08163435.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella sp. HGA1] gi|325488144|gb|EGC90581.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella sp. HGA1] Length = 1470 Score = 61.1 bits (147), Expect = 3e-07, Method: Composition-based stats. Identities = 18/56 (32%), Positives = 28/56 (50%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++L +S R N I + DL+ TE D+LR+ G K++ E+K L L Sbjct: 1322 DDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEELKEGLEAHDLT 1377 >gi|257790478|ref|YP_003181084.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella lenta DSM 2243] gi|317490022|ref|ZP_07948513.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA] gi|257474375|gb|ACV54695.1| DNA-directed RNA polymerase, beta' subunit [Eggerthella lenta DSM 2243] gi|316910863|gb|EFV32481.1| DNA-directed RNA polymerase [Eggerthella sp. 1_3_56FAA] Length = 1470 Score = 61.1 bits (147), Expect = 3e-07, Method: Composition-based stats. Identities = 18/56 (32%), Positives = 28/56 (50%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 ++L +S R N I + DL+ TE D+LR+ G K++ E+K L L Sbjct: 1322 DDLGVSQRWANKFSEAGIETVADLVGHTEEDLLRIEGIGVKAIEELKEGLEAHDLT 1377 >gi|310658943|ref|YP_003936664.1| RNA polymerase subunit alpha domain-containing protein [Clostridium sticklandii DSM 519] gi|308825721|emb|CBH21759.1| RNA polymerase, alpha subunit domain protein [Clostridium sticklandii] Length = 911 Score = 60.8 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 26/86 (30%), Positives = 42/86 (48%) Query: 232 INFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 I E +V N L ++E+L LSVR+ NCL+ + I Y L+ + + Sbjct: 70 IYCEIKDTQVVPKKNFIGNDGQKYLDVEIEKLCLSVRAYNCLKSDGIEYYSQLVDKLVEE 129 Query: 292 MLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ + N G+KSLVEI+ + L Sbjct: 130 LITIPNMGQKSLVEIEEKRASFQPEL 155 Score = 54.6 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 20/63 (31%), Positives = 30/63 (47%) Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 L + L+ S RS N L I +GDL+ T+ D+ + G KS+ EI GV+ Sbjct: 1 MNTHHHLDSISVLKFSARSYNALMRVGICSIGDLLSCTKDDISGIRQLGAKSIEEITGVI 60 Query: 311 GTM 313 + Sbjct: 61 DEL 63 >gi|301500891|ref|YP_003795303.1| RNA polymerase alpha subunit [Chromera velia] gi|300069437|gb|ADJ66545.1| RNA polymerase alpha subunit [Chromera velia] Length = 238 Score = 60.8 bits (146), Expect = 3e-07, Method: Composition-based stats. Identities = 24/105 (22%), Positives = 47/105 (44%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 NALRR S G ++ ++ L+E + G E + D + +K + + + Sbjct: 36 NALRRTFYSRTGGYQVSRIKTSSHLNEYLPLWGFQESIFDFLAALKMLIFRGKDYNSYIG 95 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTV 149 ++ GP ++ A IQ +I ++N +H + L R+ L + Sbjct: 96 SLQSSGPILLIAAFIQLHPNICLVNKNHYLGTLLPGFKFRLYLEI 140 >gi|295091278|emb|CBK77385.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Clostridium cf. saccharolyticum K10] Length = 1539 Score = 60.4 bits (145), Expect = 4e-07, Method: Composition-based stats. Identities = 24/120 (20%), Positives = 51/120 (42%), Gaps = 7/120 (5%) Query: 199 DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK-----EVKEDINVKSLPFN 253 K + G ++ E+ + Q G + E ++ E + + S Sbjct: 133 QKDIFELRNVGVLSREEITK--AIESIVQSGKIVYHEREEESKTIIETAPESSRLSELLP 190 Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +++++ SVR+ N L+ NI +L+Q +E D++ + N G ++ EI V+ + Sbjct: 191 EIESIRLDDVPFSVRARNALKRANIQTADELVQMSEKDIMGLRNVGAQTRDEILAVINAI 250 Score = 54.6 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 23/92 (25%), Positives = 39/92 (42%) Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYM 281 +LQ+ G+ + + +E +E L L R+TN LR I + Sbjct: 66 DVLQELNGVIAHSDVIISFFEERAKRIKEILPNVQDAPIESLGLGTRATNALRRGGIHTV 125 Query: 282 GDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 G LIQ ++ D+ + N G S EI + ++ Sbjct: 126 GALIQMSQKDIFELRNVGVLSREEITKAIESI 157 >gi|150389913|ref|YP_001319962.1| RNA polymerase subunit alpha [Alkaliphilus metalliredigens QYMF] gi|149949775|gb|ABR48303.1| RNA polymerase, alpha subunit domain protein [Alkaliphilus metalliredigens QYMF] Length = 912 Score = 60.0 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 19/66 (28%), Positives = 31/66 (46%) Query: 251 PFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVL 310 + + L LS RS N LR E I DL+ ++ D++ + G KSL EI + Sbjct: 1 MHSHNYSDSISTLNLSTRSYNTLRREGIHTTNDLLNCSKDDIINFRSVGVKSLEEIVNAI 60 Query: 311 GTMGLF 316 ++ + Sbjct: 61 DSLNKY 66 Score = 46.9 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 22/108 (20%), Positives = 49/108 (45%), Gaps = 2/108 (1%) Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + + G + E+ V + ++ + + E + + + +E Sbjct: 42 IINFRSVGVKSLEEIVN--AIDSLNKYKLEMYSENMLNKKRNHKTFVGHDGLKYIDIAIE 99 Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 L LSVR+ NCL+ ++ Y LI + +++ + N GRK+L+E++ + Sbjct: 100 NLNLSVRAFNCLKSTSVDYYSQLIDVLDEELIAIPNMGRKTLLELEHI 147 >gi|1491730|emb|CAA67855.1| orf [Musa balbisiana] Length = 67 Score = 60.0 bits (144), Expect = 5e-07, Method: Composition-based stats. Identities = 19/66 (28%), Positives = 34/66 (51%) Query: 86 ILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRM 145 +LN+K I L+ + + +I RGP VTA DI + +E+++ I NL + + Sbjct: 1 LLNLKEIVLRSNIYGVRDASICARGPKYVTAQDIISPPSVEIVDTTQHIANLTEPIDLCI 60 Query: 146 ELTVSK 151 L + + Sbjct: 61 GLQIRR 66 >gi|170694673|ref|ZP_02885824.1| RNA polymerase alpha subunit domain protein [Burkholderia graminis C4D1M] gi|170140304|gb|EDT08481.1| RNA polymerase alpha subunit domain protein [Burkholderia graminis C4D1M] Length = 77 Score = 60.0 bits (144), Expect = 6e-07, Method: Composition-based stats. Identities = 22/59 (37%), Positives = 33/59 (55%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 ++ L+L+ R TN L I +GDL + +D+L+M FG KSL E++ L G L Sbjct: 13 PLDLLDLNFRVTNRLASAGIFRVGDLCVCSASDLLKMPGFGVKSLQEVERSLQRAGRSL 71 >gi|13124813|sp|O59303|RPOD_PYRHO RecName: Full=DNA-directed RNA polymerase subunit D Length = 259 Score = 59.6 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 40/246 (16%), Positives = 81/246 (32%), Gaps = 41/246 (16%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI 75 I + ++ E+ I E G + NALRR ++ + A+ V+ + I Sbjct: 3 KIKILKKTEDSITFILE----GVSVAFANALRRTILGEVPTFAVDEVEFYENDSALFDEI 58 Query: 76 KGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 + + L D +++ GPG+V +GD++ D++ + PD Sbjct: 59 IAHRLAMIPLKTPTDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVTPDI 118 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--ITIDALYSPIKKVSYTVESA 190 I L + G G AK + I + +K++ + Sbjct: 119 PIVKLAKGQRLVFNAYAKLGRGKDHAKWQPGFTYYKYFTRVHISKKINGWEKLAKLAKKR 178 Query: 191 REGQVLDYDKLSMT-------------------------------IDTDGSITGEDSVAL 219 + +++ + ++T+G + E+ V + Sbjct: 179 GLPTKENEEEVIVETIKPFYIPKEFEEYEGKEIWEEIVPDTYVFVVETNGELPVEEIVKI 238 Query: 220 ASRILQ 225 A RIL Sbjct: 239 ALRILM 244 >gi|160886752|ref|ZP_02067755.1| hypothetical protein BACOVA_04765 [Bacteroides ovatus ATCC 8483] gi|298383577|ref|ZP_06993138.1| conserved hypothetical protein [Bacteroides sp. 1_1_14] gi|156107163|gb|EDO08908.1| hypothetical protein BACOVA_04765 [Bacteroides ovatus ATCC 8483] gi|298263181|gb|EFI06044.1| conserved hypothetical protein [Bacteroides sp. 1_1_14] Length = 248 Score = 59.6 bits (143), Expect = 6e-07, Method: Composition-based stats. Identities = 19/84 (22%), Positives = 41/84 (48%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K+ ++ ++ L + + ++++ + L I+Y+GDLIQ E ++ + Sbjct: 148 KEGLEIALDNIQAEEVHYLSQPIFSMKMTPIVRSKLESHGILYVGDLIQLNEEYLMEIWG 207 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L IK L G++ GM++ Sbjct: 208 LGPVALERIKTKLNENGVWFGMDV 231 >gi|14591408|ref|NP_143488.1| DNA-directed RNA polymerase subunit D [Pyrococcus horikoshii OT3] gi|3258066|dbj|BAA30749.1| 261aa long hypothetical DNA-directed RNA polymerase subunit D [Pyrococcus horikoshii OT3] Length = 261 Score = 59.6 bits (143), Expect = 7e-07, Method: Composition-based stats. Identities = 40/246 (16%), Positives = 81/246 (32%), Gaps = 41/246 (16%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI 75 I + ++ E+ I E G + NALRR ++ + A+ V+ + I Sbjct: 5 KIKILKKTEDSITFILE----GVSVAFANALRRTILGEVPTFAVDEVEFYENDSALFDEI 60 Query: 76 KGVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 + + L D +++ GPG+V +GD++ D++ + PD Sbjct: 61 IAHRLAMIPLKTPTDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVTPDI 120 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL--ITIDALYSPIKKVSYTVESA 190 I L + G G AK + I + +K++ + Sbjct: 121 PIVKLAKGQRLVFNAYAKLGRGKDHAKWQPGFTYYKYFTRVHISKKINGWEKLAKLAKKR 180 Query: 191 REGQVLDYDKLSMT-------------------------------IDTDGSITGEDSVAL 219 + +++ + ++T+G + E+ V + Sbjct: 181 GLPTKENEEEVIVETIKPFYIPKEFEEYEGKEIWEEIVPDTYVFVVETNGELPVEEIVKI 240 Query: 220 ASRILQ 225 A RIL Sbjct: 241 ALRILM 246 >gi|229815794|ref|ZP_04446119.1| hypothetical protein COLINT_02843 [Collinsella intestinalis DSM 13280] gi|229808710|gb|EEP44487.1| hypothetical protein COLINT_02843 [Collinsella intestinalis DSM 13280] Length = 1490 Score = 59.2 bits (142), Expect = 8e-07, Method: Composition-based stats. Identities = 18/55 (32%), Positives = 31/55 (56%) Query: 261 EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 ++L +S R TN I +GDL+ ++E D+LR+ G K++ E++ L L Sbjct: 1346 DDLGVSQRWTNKFSEVGIEVVGDLVGKSEEDLLRIDGIGAKAIEELRDGLEEHNL 1400 >gi|255560816|ref|XP_002521421.1| conserved hypothetical protein [Ricinus communis] gi|223539320|gb|EEF40911.1| conserved hypothetical protein [Ricinus communis] Length = 111 Score = 59.2 bits (142), Expect = 9e-07, Method: Composition-based stats. Identities = 16/40 (40%), Positives = 23/40 (57%) Query: 36 PRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 +G A T+G A RR L+ + G IT Q + + HE S+I Sbjct: 1 MKGQADTIGIATRRALIGEIEGTCITRAQSEKIPHEFSTI 40 >gi|224088404|ref|XP_002335097.1| predicted protein [Populus trichocarpa] gi|222832850|gb|EEE71327.1| predicted protein [Populus trichocarpa] Length = 54 Score = 59.2 bits (142), Expect = 1e-06, Method: Composition-based stats. Identities = 13/47 (27%), Positives = 31/47 (65%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL+ + NCL+ NI + DL++ ++ D++++ +F + + I Sbjct: 6 IDQLELAPKIYNCLKRSNIHTLWDLLKNSQEDLMKIEHFRIEDVKHI 52 >gi|332157864|ref|YP_004423143.1| DNA-directed RNA polymerase subunit D [Pyrococcus sp. NA2] gi|331033327|gb|AEC51139.1| DNA-directed RNA polymerase subunit D [Pyrococcus sp. NA2] Length = 259 Score = 58.8 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 29/161 (18%), Positives = 57/161 (35%), Gaps = 8/161 (4%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI 75 I + ++ E+ + E G + N+LRR ++ + A+ V+ + I Sbjct: 3 KIKILKKTEDSITFLLE----GVSVAFANSLRRTILGEVPTFAVDEVEFYENDSALFDEI 58 Query: 76 KGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 + + + L D +++ GPG+V +GD++ D++ +NP+ Sbjct: 59 IAHRLAMIPLKTPVDRFELDALELDDYTVTLSLKAEGPGIVYSGDLESDDPDVKPVNPNI 118 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 I L + G G AK I Sbjct: 119 PIVKLAKGQKLVFNAYARLGRGKDHAKWQPGFTYYKYYTKI 159 >gi|24638178|sp|Q8SL90|RPOA_EUGMY RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|19168440|gb|AAL83364.1| RNA polymerase alpha subunit [Euglena myxocylindracea] Length = 207 Score = 58.8 bits (141), Expect = 1e-06, Method: Composition-based stats. Identities = 32/193 (16%), Positives = 76/193 (39%), Gaps = 42/193 (21%) Query: 45 NALRRVLMSSLRGAAITAV--------QIDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 N +RR+L+ + ++ + + +HE + ++ V +L ++ +K I + Sbjct: 38 NLIRRILLKEIYNFKVSTISIFLFNSNKFCYKIHEFTKVEEVKNNLVSFLILLKEIKFRS 97 Query: 97 SGD---SHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDV-DAVVRMELTVSKG 152 + + V DI N+ ++L+ D+ + L+ D +++ L + K Sbjct: 98 YYKLKTKRTFALLKIKQFTQVFLTDIILPNNFKILSIDNNLIKLNSLDINLKVLLELHKS 157 Query: 153 HGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 GY ++P+KKV+Y E + + I T+ + T Sbjct: 158 KGY--------------------NFNPVKKVNYIEE----------NNVYFEIYTNQTST 187 Query: 213 GEDSVALASRILQ 225 + + + +I++ Sbjct: 188 PLEVLVKSLKIIK 200 >gi|242398333|ref|YP_002993757.1| DNA-directed RNA polymerase subunit D [Thermococcus sibiricus MM 739] gi|242264726|gb|ACS89408.1| DNA-directed RNA polymerase subunit D [Thermococcus sibiricus MM 739] Length = 271 Score = 58.5 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 8/148 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 I + ++ ++ I E G NALRR ++ + AI V+ + I Sbjct: 16 IKILEKRDDAIRFILE----GMDIAFANALRRTIIGEVPTFAIDEVEFYENDSALFDEII 71 Query: 77 GVHEDLTDIILNIKGINLKMSG--DSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHV 133 L + L+ D +++ GP +V +GD++ D++ +NP+ Sbjct: 72 AHRLSLIPLTTPFDRFELESMELEDYTVTLSLEAEGPAIVYSGDLKSDDPDVKPVNPNIP 131 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHH 161 I L + G G AK Sbjct: 132 IVKLAEGQRLVFNAYAKMGKGKDHAKWQ 159 >gi|126179746|ref|YP_001047711.1| DNA-directed RNA polymerase subunit D [Methanoculleus marisnigri JR1] gi|125862540|gb|ABN57729.1| DNA-directed RNA polymerase, subunit D [Methanoculleus marisnigri JR1] Length = 276 Score = 58.5 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 42/254 (16%), Positives = 73/254 (28%), Gaps = 55/254 (21%) Query: 24 EENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDL 82 +E G + + N LRR ++S + AI V+I D + L Sbjct: 9 DERVAKFTLS----GVSMSFANMLRRAMISEVPTLAIEDVRIYDNTSVLFDEMLAHRLGL 64 Query: 83 TDIILNIKGINLKMSGDSHKRV--------TIFKRGPGVVTAGDIQT-VNDIEVLNPDHV 133 + ++K + T+ GP V + D+ D + Sbjct: 65 IPLRTDLKRYKPRSECTCEDAGCPVCTATYTLSVEGPKTVYSSDLIPQDPDAAPADEKIP 124 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTE---NDPIGLITIDALY----SPIKKVSYT 186 I L D + +E G G AK T +I ID I + + Sbjct: 125 IIELARDQKLVLEAQAIVGTGKEHAKWQATTACGYKNYPVIAIDERCDGCGMCIDECPRS 184 Query: 187 VESAREGQ----------------------------------VLDYDKLSMTIDTDGSIT 212 V +G+ D ++ ++ DGSI Sbjct: 185 VLETAQGKIRVVEERQELCSLCRLCERACLAGGIGTEPAIHIGTDAERFIFVVEGDGSIP 244 Query: 213 GEDSVALASRILQD 226 + + A + +Q Sbjct: 245 VREIIERALQYIQK 258 >gi|198276334|ref|ZP_03208865.1| hypothetical protein BACPLE_02529 [Bacteroides plebeius DSM 17135] gi|218129455|ref|ZP_03458259.1| hypothetical protein BACEGG_01032 [Bacteroides eggerthii DSM 20697] gi|254881373|ref|ZP_05254083.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] gi|255008156|ref|ZP_05280282.1| hypothetical protein Bfra3_03391 [Bacteroides fragilis 3_1_12] gi|313145873|ref|ZP_07808066.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12] gi|198270776|gb|EDY95046.1| hypothetical protein BACPLE_02529 [Bacteroides plebeius DSM 17135] gi|217988185|gb|EEC54508.1| hypothetical protein BACEGG_01032 [Bacteroides eggerthii DSM 20697] gi|254834166|gb|EET14475.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] gi|313134640|gb|EFR52000.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12] Length = 136 Score = 58.5 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 5/80 (6%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM--- 319 + R R +I + DL Q D++R+ + GRKS+ EI+ VL L LGM Sbjct: 17 SKYEARIQRIFREFDIKTIRDLCQWPGKDLVRVRDMGRKSIEEIEDVLERYNLRLGMLGK 76 Query: 320 NLPDWPPESIEELAKKYEDK 339 L ++ IE + E++ Sbjct: 77 ELDEY--AGIENSVQDEEEE 94 >gi|317476176|ref|ZP_07935427.1| hypothetical protein HMPREF1016_02410 [Bacteroides eggerthii 1_2_48FAA] gi|316907587|gb|EFV29290.1| hypothetical protein HMPREF1016_02410 [Bacteroides eggerthii 1_2_48FAA] Length = 135 Score = 58.5 bits (140), Expect = 1e-06, Method: Composition-based stats. Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 5/80 (6%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM--- 319 + R R +I + DL Q D++R+ + GRKS+ EI+ VL L LGM Sbjct: 17 SKYEARIQRIFREFDIKTIRDLCQWPGKDLVRVRDMGRKSIEEIEEVLERYNLRLGMLGK 76 Query: 320 NLPDWPPESIEELAKKYEDK 339 L ++ IE + E++ Sbjct: 77 ELDEY--AGIENSVQDEEEE 94 >gi|296329094|ref|ZP_06871599.1| hypothetical protein HMPREF0397_1792 [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] gi|296153813|gb|EFG94626.1| hypothetical protein HMPREF0397_1792 [Fusobacterium nucleatum subsp. nucleatum ATCC 23726] Length = 979 Score = 57.7 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 4/83 (4%) Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI---KGVL 310 ++ L LS RS N L+ NI+ + DL+ ++ D+ G KS+ EI +L Sbjct: 1 MKKDTSIQILHLSKRSYNVLKKFNIITIQDLLTISKEDIKNFRGIGEKSIQEILSKIEIL 60 Query: 311 GTMGLFLGMNLPDWPPESIEELA 333 +++ + E++ + Sbjct: 61 KDYNFD-DIDISEVNVENLSKNK 82 Score = 55.4 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 27/128 (21%), Positives = 51/128 (39%), Gaps = 5/128 (3%) Query: 215 DSVALASRILQDQLGMFINFEE---PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 + + + + EE + + N ++ L LSVR+ N Sbjct: 116 ECYSELLTKTEKEFESIKYSEEIIQKEIKSIRKKPNIETAINLEKDIPIDFLGLSVRAKN 175 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 CL+ NI Y LI +TE +++ + + G +L E+ L + +F P E+ E Sbjct: 176 CLKSANIEYYSQLISKTEEELMTIKHMGVTTLKEL-QRLKFL-IFFYFGFPVVDTENKES 233 Query: 332 LAKKYEDK 339 +K ++ Sbjct: 234 KEEKISNE 241 >gi|301060344|ref|ZP_07201207.1| bacterial RNA polymerase, alpha chain C-terminal domain protein [delta proteobacterium NaphS2] gi|300445540|gb|EFK09442.1| bacterial RNA polymerase, alpha chain C-terminal domain protein [delta proteobacterium NaphS2] Length = 772 Score = 57.7 bits (138), Expect = 2e-06, Method: Composition-based stats. Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 1/75 (1%) Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN-IVYMGDLIQRTEADMLRMANF 298 E I K L + K+E++ LS R+ + L + + +GD++ T D+L + NF Sbjct: 123 ERFHQITAKDLHPDFQGAVKLEDIRLSHRTFHTLLNQGQMETIGDVMLTTCTDLLSLKNF 182 Query: 299 GRKSLVEIKGVLGTM 313 GRKSL EIK V+ ++ Sbjct: 183 GRKSLNEIKEVIRSL 197 >gi|240104023|ref|YP_002960332.1| DNA-directed RNA polymerase subunit D [Thermococcus gammatolerans EJ3] gi|239911577|gb|ACS34468.1| DNA-directed RNA polymerase subunit D (rpoD) [Thermococcus gammatolerans EJ3] Length = 260 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 46/246 (18%), Positives = 88/246 (35%), Gaps = 45/246 (18%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIKG 77 + + E+ I RG NALRR +++ + A+ V+ + I Sbjct: 6 EIFERREDAIKFIL----RGVDVPFANALRRTILAEVPTFAVDEVEFFENDSALFDEIIA 61 Query: 78 VHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVI 134 + + ++ +L D +++ GPG+V +GD+++ + ++ NP+ I Sbjct: 62 HRLAMIPLTTPVERFSLDALELDDYTVTLSLQAEGPGMVYSGDLKSDDEGVKPANPNIPI 121 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHH--------------------------------- 161 L + G G AK Sbjct: 122 VKLAEGQKLTFNAYAKLGRGKDHAKWQPGFVYYKYLTEIHVSKEVPDWEELKELAERRGL 181 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D I + TI A Y P K +Y + R + + T++T+G + E+ V++ Sbjct: 182 PVEEKKDEIIIKTIKAFYLPRKFEAYEGDKIR--EEIIPGAFVFTVETNGELPVEEIVSI 239 Query: 220 ASRILQ 225 A +IL Sbjct: 240 ALKILM 245 >gi|14520746|ref|NP_126221.1| DNA-directed RNA polymerase subunit D [Pyrococcus abyssi GE5] gi|13124531|sp|Q9V198|RPOD_PYRAB RecName: Full=DNA-directed RNA polymerase subunit D gi|5457962|emb|CAB49452.1| rpoD DNA-directed RNA polymerase, subunit D [Pyrococcus abyssi GE5] Length = 259 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 31/160 (19%), Positives = 55/160 (34%), Gaps = 8/160 (5%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 I + ++ ++ I E G NALRR ++ + A+ V+ + I Sbjct: 4 IKILKKTDDSITFILE----GVDVAFANALRRTILGEVPTFAVDEVEFYENDSALFDEII 59 Query: 77 GVHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHV 133 + + + L D +++ GPG+V +GD++ D++ NPD Sbjct: 60 AHRLAMIPLKTPVDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPANPDIP 119 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 I L + G G AK I Sbjct: 120 IVKLAKGQRLVFNAFAKLGRGKDHAKWQPGFTYYKYFTRI 159 >gi|57641438|ref|YP_183916.1| DNA-directed RNA polymerase subunit D [Thermococcus kodakarensis KOD1] gi|73917880|sp|Q5JJF4|RPOD_PYRKO RecName: Full=DNA-directed RNA polymerase subunit D gi|57159762|dbj|BAD85692.1| DNA-directed RNA polymerase, subunit D [Thermococcus kodakarensis KOD1] Length = 259 Score = 57.7 bits (138), Expect = 3e-06, Method: Composition-based stats. Identities = 44/248 (17%), Positives = 87/248 (35%), Gaps = 49/248 (19%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGV 78 + ++ + I G NALRR ++S + A+ V+ + ++ + + Sbjct: 5 KILEKRPDSIKFIVS----GVDVPFANALRRTILSEVPTFAVDEVEF--LENDSALFDEI 58 Query: 79 HEDLTDII-LNIKGINLKMS----GDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 +I L + D +++ GPG+V +GD++ + D++ NP+ Sbjct: 59 IAHRLAMIPLTTPHERFSLDALELDDYTVTLSLEAEGPGMVYSGDLKSSDGDVKPANPNI 118 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHH------------------------------- 161 I L + G G AK Sbjct: 119 PIVKLAEGQRLTFNAYARLGRGKDHAKWQPGFVYYKYLTKIHVSKDVPDWEELKELAERR 178 Query: 162 ----RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSV 217 ++ I + TI A Y P K + + R + + T++T+G + E+ V Sbjct: 179 GLPVEESDEEIVITTIKAFYLPRKFEEHMGKGIR--EEIVPGSFVFTVETNGELPVEEIV 236 Query: 218 ALASRILQ 225 ++A +IL Sbjct: 237 SIALKILM 244 >gi|254173028|ref|ZP_04879702.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Thermococcus sp. AM4] gi|214033184|gb|EEB74012.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Thermococcus sp. AM4] Length = 260 Score = 57.3 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 44/246 (17%), Positives = 85/246 (34%), Gaps = 45/246 (18%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIKG 77 + + + I RG NALRR +++ + A+ V+ + I Sbjct: 6 EILERRGDAIKFIL----RGVDVPFANALRRTILAEVPTFAVDEVEFFENDSALFDEIIA 61 Query: 78 VHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVI 134 + + ++ +L D +++ GPG+V +GD+++ + ++ NP+ I Sbjct: 62 HRLAMIPLTTPVERFSLDSLDLDDYTVTLSLQAEGPGMVYSGDLKSDDEGVKPANPNIPI 121 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHH--------------------------------- 161 L + G G AK Sbjct: 122 VKLAEGQKLTFNAYARLGRGKDHAKWQPGFVYYKYLTEIHVSKEVPDWEELKELAERRGL 181 Query: 162 --RTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 + D I + T A Y P K Y + R + + T++T+G + E+ V++ Sbjct: 182 PVEEKEDEIVIKTTKAFYLPRKFEEYEGDKIR--EEIIPGAFVFTVETNGELPVEEIVSI 239 Query: 220 ASRILQ 225 A +IL Sbjct: 240 ALKILM 245 >gi|145308100|gb|AAR05652.2| hypothetical protein bst011 [Bacteroides uniformis] Length = 137 Score = 57.3 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 27/79 (34%), Positives = 36/79 (45%), Gaps = 9/79 (11%) Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM---NLPDW 324 R RG NI + DL + D++R+ G KS+ EI+ VL L LGM L + Sbjct: 22 RIQQVCRGFNIKTIRDLCKWPGRDLVRLRGIGGKSIDEIEDVLKKYNLRLGMFNEELDKY 81 Query: 325 P------PESIEELAKKYE 337 PE EE AK + Sbjct: 82 AGIGNTTPEDKEEEAKWEQ 100 >gi|218508353|ref|ZP_03506231.1| DNA-directed RNA polymerase subunit alpha [Rhizobium etli Brasil 5] Length = 37 Score = 57.3 bits (137), Expect = 3e-06, Method: Composition-based stats. Identities = 22/40 (55%), Positives = 26/40 (65%), Gaps = 3/40 (7%) Query: 1 MIQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFA 40 MIQKNWQELIKPN +E+ R ++AEPL RGF Sbjct: 1 MIQKNWQELIKPNKVEF---SSSSRTRATLVAEPLERGFG 37 >gi|31580946|dbj|BAC77576.1| RNA polymerase alpha subunit [Nicotiana tomentosiformis] Length = 77 Score = 56.9 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 14/47 (29%), Positives = 30/47 (63%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + +I Sbjct: 29 IDQLELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKQI 75 >gi|149175722|ref|ZP_01854341.1| hypothetical protein PM8797T_31393 [Planctomyces maris DSM 8797] gi|148845441|gb|EDL59785.1| hypothetical protein PM8797T_31393 [Planctomyces maris DSM 8797] Length = 69 Score = 56.9 bits (136), Expect = 4e-06, Method: Composition-based stats. Identities = 15/49 (30%), Positives = 29/49 (59%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 +SVR+ N L+ + +GDL++ + D+L + NFG ++L E + + Sbjct: 1 MSVRTVNYLKEHKVHTIGDLVKLKQEDLLSIPNFGEQTLQECIDLFDRL 49 >gi|317121288|ref|YP_004101291.1| sigma-70 region 4 domain protein [Thermaerobacter marianensis DSM 12885] gi|315591268|gb|ADU50564.1| sigma-70 region 4 domain protein [Thermaerobacter marianensis DSM 12885] Length = 1063 Score = 56.5 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 17/63 (26%), Positives = 30/63 (47%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 + +++L LS R+ LR + +G L++ EA + R+ G +SL EI L Sbjct: 155 PDAVRNLAIDDLGLSQRAYRALRRAGVQTVGQLLELGEAGLRRLRGLGPRSLDEICHRLD 214 Query: 312 TMG 314 + Sbjct: 215 ALQ 217 >gi|31580902|dbj|BAC77553.1| RNA polymerase alpha subunit [Nicotiana sylvestris] Length = 79 Score = 56.5 bits (135), Expect = 6e-06, Method: Composition-based stats. Identities = 14/47 (29%), Positives = 29/47 (61%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 +++LEL R NCL+ NI + DL+ ++ D++++ +F + + I Sbjct: 31 IDQLELPSRIYNCLKMSNIYTLLDLLNNSQEDLMKIEHFRSEDVKRI 77 >gi|189461065|ref|ZP_03009850.1| hypothetical protein BACCOP_01712 [Bacteroides coprocola DSM 17136] gi|265753971|ref|ZP_06089326.1| conserved hypothetical protein [Bacteroides sp. 3_1_33FAA] gi|189432155|gb|EDV01140.1| hypothetical protein BACCOP_01712 [Bacteroides coprocola DSM 17136] gi|263235685|gb|EEZ21209.1| conserved hypothetical protein [Bacteroides sp. 3_1_33FAA] Length = 136 Score = 56.1 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 5/80 (6%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM--- 319 + R R +I + DL Q D++R+ + GRKS+ EI+ VL L LGM Sbjct: 17 SKYEARIQRIFREFDIKTIRDLCQWPGKDLVRVRDMGRKSIEEIEDVLERYNLRLGMPGK 76 Query: 320 NLPDWPPESIEELAKKYEDK 339 L ++ I + E++ Sbjct: 77 ELDEY--AGIGNSVQDEEEE 94 >gi|282164928|ref|YP_003357313.1| DNA-directed RNA polymerase subunit D [Methanocella paludicola SANAE] gi|282157242|dbj|BAI62330.1| DNA-directed RNA polymerase subunit D [Methanocella paludicola SANAE] Length = 262 Score = 56.1 bits (134), Expect = 7e-06, Method: Composition-based stats. Identities = 39/252 (15%), Positives = 78/252 (30%), Gaps = 47/252 (18%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI 75 + + + + + + + FA NA+RR +++ + AI V I D + Sbjct: 2 KLEILELGDRKAKFVLSEVTPAFA----NAVRRAMLADIPKMAIDYVDIYDNTSVMFDEM 57 Query: 76 KGVHEDLTDIILNIKGINLKMSGD--------SHKRVTIFKRGPGVVTAGDIQ-TVNDIE 126 L I N+ L+ D T+ GP +V + D++ + D Sbjct: 58 LAHRMGLIPIKTNLDMYKLREECDCKGEGCALCQVSFTLSAEGPCMVHSRDMKSSDPDTV 117 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK------------------------HHR 162 + + I L V + G G +K Sbjct: 118 PADDNVPIIELKERQKVVLTAVARLGRGKEHSKFQPVCPPGYKYVPIIEISDKCDSCKQC 177 Query: 163 TENDPIGLITIDA---------LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 E P G+ +D S ++ + +D ++TDGS + Sbjct: 178 VEQCPRGVFAVDKNKVVVDNPYNCSMCEECLEACDLKAIKLSIDNTAFIFMVETDGSYSA 237 Query: 214 EDSVALASRILQ 225 ++ + A ++ Sbjct: 238 QEIITRAVESIR 249 >gi|84687559|ref|ZP_01015435.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654] gi|84664468|gb|EAQ10956.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654] Length = 562 Score = 56.1 bits (134), Expect = 8e-06, Method: Composition-based stats. Identities = 24/64 (37%), Positives = 31/64 (48%) Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 + E IV +G +Q T D+LR G+KS E + L +GL LGM L W E E Sbjct: 1 MAKEGIVLVGSFVQLTAGDILRKQGLGKKSYREARATLEALGLSLGMELCGWDEELAFEA 60 Query: 333 AKKY 336 K Sbjct: 61 RKAL 64 >gi|315229895|ref|YP_004070331.1| DNA-directed RNA polymerase subunit D [Thermococcus barophilus MP] gi|315182923|gb|ADT83108.1| DNA-directed RNA polymerase subunit D [Thermococcus barophilus MP] Length = 258 Score = 55.4 bits (132), Expect = 1e-05, Method: Composition-based stats. Identities = 31/149 (20%), Positives = 57/149 (38%), Gaps = 8/149 (5%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI 75 I + ++ E+ I E + FA NALRRV++ + A+ V+ + I Sbjct: 2 KIKVLEKREDAIRFILEGVDAAFA----NALRRVIIGEVPTFAVDEVEFYENDSALFDEI 57 Query: 76 KGVHEDLTDIILNIKGINLKMS--GDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 + + L + +++ GPGVV +GD++ D++ + P+ Sbjct: 58 IAHRLAMIPLTTPYDRFELDALELDEYTVTLSLEAEGPGVVYSGDLKSDDPDVKPVTPNI 117 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHH 161 I L + + G G AK Sbjct: 118 PIVKLAEGQKLTLNAYAKLGRGKDHAKWQ 146 >gi|298483974|ref|ZP_07002144.1| conserved hypothetical protein [Bacteroides sp. D22] gi|298269883|gb|EFI11474.1| conserved hypothetical protein [Bacteroides sp. D22] Length = 245 Score = 55.0 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 21/84 (25%), Positives = 38/84 (45%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ +N L + V L ++ + L I+Y+GDLI E ++ + Sbjct: 145 KVGLEIALNNIQAEEVHYLSEPVFSLGITPSIKSHLESHGILYIGDLIHLNEQYLMEIWG 204 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L +IK L G + GM++ Sbjct: 205 IGPVTLDKIKTKLNENGAWFGMDV 228 >gi|53714106|ref|YP_100098.1| hypothetical protein BF2814 [Bacteroides fragilis YCH46] gi|224026975|ref|ZP_03645341.1| hypothetical protein BACCOPRO_03734 [Bacteroides coprophilus DSM 18228] gi|253567368|ref|ZP_04844817.1| conserved hypothetical protein [Bacteroides sp. 3_2_5] gi|255009127|ref|ZP_05281253.1| hypothetical protein Bfra3_08296 [Bacteroides fragilis 3_1_12] gi|256840343|ref|ZP_05545851.1| conserved hypothetical protein [Parabacteroides sp. D13] gi|293371316|ref|ZP_06617753.1| conserved hypothetical protein [Bacteroides ovatus SD CMC 3f] gi|294645285|ref|ZP_06723001.1| conserved hypothetical protein [Bacteroides ovatus SD CC 2a] gi|294808748|ref|ZP_06767481.1| conserved hypothetical protein [Bacteroides xylanisolvens SD CC 1b] gi|313146878|ref|ZP_07809071.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12] gi|52216971|dbj|BAD49564.1| hypothetical protein [Bacteroides fragilis YCH46] gi|224020211|gb|EEF78209.1| hypothetical protein BACCOPRO_03734 [Bacteroides coprophilus DSM 18228] gi|251943937|gb|EES84465.1| conserved hypothetical protein [Bacteroides sp. 3_2_5] gi|256737615|gb|EEU50941.1| conserved hypothetical protein [Parabacteroides sp. D13] gi|292633676|gb|EFF52231.1| conserved hypothetical protein [Bacteroides ovatus SD CMC 3f] gi|292639364|gb|EFF57666.1| conserved hypothetical protein [Bacteroides ovatus SD CC 2a] gi|294444045|gb|EFG12779.1| conserved hypothetical protein [Bacteroides xylanisolvens SD CC 1b] gi|313135645|gb|EFR53005.1| conserved hypothetical protein [Bacteroides fragilis 3_1_12] Length = 245 Score = 55.0 bits (131), Expect = 1e-05, Method: Composition-based stats. Identities = 21/84 (25%), Positives = 38/84 (45%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ +N L + V L ++ + L I+Y+GDLI E ++ + Sbjct: 145 KVGLEIALNNIQAEEVHYLSEPVFSLGITPSIKSHLESHGILYIGDLIHLNEQYLMEIWG 204 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L +IK L G + GM++ Sbjct: 205 IGPVTLDKIKTKLNENGAWFGMDV 228 >gi|289580107|ref|YP_003478573.1| RNA polymerase insert [Natrialba magadii ATCC 43099] gi|289529660|gb|ADD04011.1| RNA polymerase insert [Natrialba magadii ATCC 43099] Length = 249 Score = 54.6 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 38/242 (15%), Positives = 82/242 (33%), Gaps = 44/242 (18%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI-DGVLHE 71 +E++ + + + T N +RR +++ + AI V+ + Sbjct: 7 VEFVEREERD---ARFLV------QGITPAFANGIRRAMLADVPTMAIDTVRFVENSSVM 57 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND-IEVLNP 130 + L + G + D ++I GP +GD+ + +D ++ + Sbjct: 58 FDEQLALRLGLVPLTTPPVGEFV---EDDTVTLSIDVEGPATAYSGDLVSSDDLVQPADE 114 Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHH--------------RTENDP--------- 167 + I +L + E G AKH E+ P Sbjct: 115 NVPIIDLKDGQRLEAEADAVLDRGKDHAKHQGGVAVGYRHLQRVAAVEDLPEFEDPDRRI 174 Query: 168 -IGLITIDALYSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASR 222 G+I D P + + + + G+ + + + ++TDGS + E+ V A+ Sbjct: 175 VRGVIEEDGELVPTSEFDHDLSNRYPGKEVTLEDVPNSFVFHVETDGSFSVEELVTRAAD 234 Query: 223 IL 224 + Sbjct: 235 TI 236 >gi|224126651|ref|XP_002319890.1| predicted protein [Populus trichocarpa] gi|222858266|gb|EEE95813.1| predicted protein [Populus trichocarpa] Length = 62 Score = 54.6 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 13/52 (25%), Positives = 31/52 (59%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLG 311 +++LEL+ + NCL+ I + D ++ ++ D+++ +F + + I G+L Sbjct: 10 IDQLELAPKIYNCLKRSVIHTLWDFLKNSQEDLMKTEHFRIEDVKHIFGILK 61 >gi|265763613|ref|ZP_06092181.1| conserved hypothetical protein [Bacteroides sp. 2_1_16] gi|263256221|gb|EEZ27567.1| conserved hypothetical protein [Bacteroides sp. 2_1_16] Length = 245 Score = 54.6 bits (130), Expect = 2e-05, Method: Composition-based stats. Identities = 21/84 (25%), Positives = 39/84 (46%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ +N L + V L ++ + L I+Y+GDLI E ++ + + Sbjct: 145 KVGLEIALNNIQAEEVHYLSEPVFSLGITPSIKSHLESHGILYIGDLIHLNEQYLMEIWD 204 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L +IK L G + GM++ Sbjct: 205 IGPVTLDKIKTKLNENGAWFGMDV 228 >gi|313902029|ref|ZP_07835443.1| sigma-70 region 4 domain protein [Thermaerobacter subterraneus DSM 13965] gi|313467696|gb|EFR63196.1| sigma-70 region 4 domain protein [Thermaerobacter subterraneus DSM 13965] Length = 1070 Score = 54.2 bits (129), Expect = 2e-05, Method: Composition-based stats. Identities = 17/57 (29%), Positives = 28/57 (49%) Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 + V++L L R+ LR I +G L++ E + R+ G +SL EI L + Sbjct: 165 RPVDDLGLGQRAYRALRRAGIQTVGQLLELGEPGLQRLRGLGPRSLAEICHRLDALQ 221 Score = 42.7 bits (99), Expect = 0.084, Method: Composition-based stats. Identities = 16/80 (20%), Positives = 26/80 (32%), Gaps = 6/80 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF------LG 318 L R L+ + +G L T+ + R+ G + + L Sbjct: 253 LPRRVVTALQRAGLHTVGALAGFTQEGLRRLRGLGESGVAAVLQSLHQYRQECSRRGAFP 312 Query: 319 MNLPDWPPESIEELAKKYED 338 L DW E IE L + + Sbjct: 313 RRLEDWLQELIEPLPDRERE 332 >gi|254884141|ref|ZP_05256851.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] gi|255013657|ref|ZP_05285783.1| hypothetical protein B2_07100 [Bacteroides sp. 2_1_7] gi|254836934|gb|EET17243.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] Length = 245 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 21/84 (25%), Positives = 38/84 (45%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ +N L + V L ++ + L I+Y+GDLI E ++ + Sbjct: 145 KVGLEIALNNIQAEEVHYLSEPVFSLGITPSIKSHLESHGILYIGDLIHLNEQYLMEIWG 204 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L +IK L G + GM++ Sbjct: 205 VGPVTLEKIKTKLNENGAWFGMDV 228 >gi|118595065|ref|ZP_01552412.1| hypothetical protein MB2181_05315 [Methylophilales bacterium HTCC2181] gi|118440843|gb|EAV47470.1| hypothetical protein MB2181_05315 [Methylophilales bacterium HTCC2181] Length = 808 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 3/82 (3%) Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEEL---ELSVRSTNCLRGENIVYMGDLIQRTEAD 291 E ++ V+ I FN + K ++ +L +RSTNCLR I + DL++ ++ + Sbjct: 116 NEIEQNVEFPIGSLGSRFNMSNNKLELDVVVLDLDIRSTNCLRSRGIDKIEDLLKLSDTE 175 Query: 292 MLRMANFGRKSLVEIKGVLGTM 313 +LR+ N GR+SL I + + Sbjct: 176 LLRIDNLGRRSLKLIIDSISKL 197 >gi|149176313|ref|ZP_01854928.1| Serine/threonine protein kinase [Planctomyces maris DSM 8797] gi|148844915|gb|EDL59263.1| Serine/threonine protein kinase [Planctomyces maris DSM 8797] Length = 1405 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 26/116 (22%), Positives = 44/116 (37%), Gaps = 8/116 (6%) Query: 222 RILQDQLGMFINFEEPKKEVKEDINVKSLPF------NPALLKKVEELELSVRSTNCLRG 275 ++ L + N E E + + ++ EL L RS N L Sbjct: 773 DNAEEMLRAWRNCFEGIDEPGALSDHADETRLQELLADAEFETQIPELGLGSRSANALDR 832 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEE 331 NI+ + DL+ ++R+ G K+ EI + + LG PD P S+ + Sbjct: 833 ANILTVEDLLTVPMRRLMRLRGVGNKTRREITSAVKILRDRLG--KPDRDPSSLSD 886 >gi|212223251|ref|YP_002306487.1| DNA-directed RNA polymerase subunit D [Thermococcus onnurineus NA1] gi|212008208|gb|ACJ15590.1| DNA-directed RNA polymerase, subunit D [Thermococcus onnurineus NA1] Length = 260 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 28/147 (19%), Positives = 58/147 (39%), Gaps = 8/147 (5%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIKG 77 + ++ E+ I E G NALRR +++ + A+ V+ + I Sbjct: 6 RILEKREDSIKFIVE----GIDIPFANALRRTILAEVPTFAVDEVEFFENDSALFDEIIA 61 Query: 78 VHEDLTDIILNIKGINLKM--SGDSHKRVTIFKRGPGVVTAGDIQTVN-DIEVLNPDHVI 134 + + ++ +L D +++ GPG+V +GD+++ + ++ NP+ I Sbjct: 62 HRLAMIPLTTPVERFSLDALELDDYTVTLSLEAEGPGMVYSGDLKSDDEGVKPANPNIPI 121 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHH 161 L + + G G AK Sbjct: 122 VKLAEGQNLTLNAYAKLGRGKDHAKWQ 148 >gi|6633993|dbj|BAA88567.1| C-terminal domain of the RNA polymerase alpha subunit [synthetic construct] Length = 85 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 21/80 (26%), Positives = 30/80 (37%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 + L +EEL LS R + L+ E I + L+ D+ + Sbjct: 4 AAPEEAKEPEAPPEQEEELDLPLEELGLSTRVLHSLKEEGIESVRALLALNLKDLKNIPG 63 Query: 298 FGRKSLVEIKGVLGTMGLFL 317 G +SL EIK L G L Sbjct: 64 IGERSLEEIKEALEKKGFTL 83 >gi|237719951|ref|ZP_04550432.1| conserved hypothetical protein [Bacteroides sp. 2_2_4] gi|229450503|gb|EEO56294.1| conserved hypothetical protein [Bacteroides sp. 2_2_4] Length = 245 Score = 54.2 bits (129), Expect = 3e-05, Method: Composition-based stats. Identities = 21/84 (25%), Positives = 37/84 (44%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K ++ +N L + V L ++ L I+Y+GDLI E ++ + Sbjct: 145 KVGLEIALNNIQAEEVHYLSEPVFSLGITPSIKRHLESHGILYIGDLIHLNEQYLMEIWG 204 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G +L +IK L G + GM++ Sbjct: 205 IGPVTLDKIKTKLNENGTWFGMDV 228 >gi|228984312|ref|ZP_04144493.1| hypothetical protein bthur0001_10190 [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] gi|228775429|gb|EEM23814.1| hypothetical protein bthur0001_10190 [Bacillus thuringiensis serovar tochigiensis BGSC 4Y1] Length = 95 Score = 53.8 bits (128), Expect = 4e-05, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSSPARNALENHGIHTIEELSKYSEKEILKLHGMGPASLPKLRKALEENGLSF 94 >gi|224025038|ref|ZP_03643404.1| hypothetical protein BACCOPRO_01772 [Bacteroides coprophilus DSM 18228] gi|224018274|gb|EEF76272.1| hypothetical protein BACCOPRO_01772 [Bacteroides coprophilus DSM 18228] Length = 251 Score = 53.4 bits (127), Expect = 5e-05, Method: Composition-based stats. Identities = 20/108 (18%), Positives = 47/108 (43%) Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCL 273 + + ++D + + K ++ +N P L + + +L ++ + L Sbjct: 122 REDIRQREDTIRDMANYVDSIKSIKTGLEIAVNNIDAEEIPFLSRAITDLGITPSARERL 181 Query: 274 RGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 E I+Y+G+LI E ++ + G ++ IK L ++ GM++ Sbjct: 182 AKEGILYVGELIHLNEDYLMDIWGVGPVTIDRIKNKLNENSVWFGMDV 229 >gi|325297639|ref|YP_004257556.1| hypothetical protein Bacsa_0485 [Bacteroides salanitronis DSM 18170] gi|324317192|gb|ADY35083.1| hypothetical protein Bacsa_0485 [Bacteroides salanitronis DSM 18170] Length = 243 Score = 53.1 bits (126), Expect = 7e-05, Method: Composition-based stats. Identities = 20/84 (23%), Positives = 39/84 (46%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN 297 K+ ++ + K P L + + L + + N L + Y+GDL++R E ++ + Sbjct: 147 KEGLEIAVENKPAEEVPYLSQPLFSLGIQPSAQNHLTAYGLRYVGDLVRRDEQYLMEIWG 206 Query: 298 FGRKSLVEIKGVLGTMGLFLGMNL 321 G ++ IK L G L M++ Sbjct: 207 IGPATVERIKTKLNENGACLDMDV 230 >gi|159162213|pdb|1DOQ|A Chain A, The C-Terminal Domain Of The Rna Polymerase Alpha Subunit From Thermus Thermophilus Length = 69 Score = 52.7 bits (125), Expect = 7e-05, Method: Composition-based stats. Identities = 16/52 (30%), Positives = 23/52 (44%) Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 S R + L+ E I + L+ D+ + G +SL EIK L G L Sbjct: 16 STRVLHSLKEEGIESVRALLALNLKDLKNIPGIGERSLEEIKEALEKKGFTL 67 >gi|222094864|ref|YP_002528924.1| hypothetical protein BCQ_1202 [Bacillus cereus Q1] gi|221238922|gb|ACM11632.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Bacillus cereus Q1] Length = 95 Score = 52.3 bits (124), Expect = 1e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSSPARNALEQHGIHTIEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|196229137|ref|ZP_03128002.1| RNA polymerase alpha subunit domain protein [Chthoniobacter flavus Ellin428] gi|196226369|gb|EDY20874.1| RNA polymerase alpha subunit domain protein [Chthoniobacter flavus Ellin428] Length = 145 Score = 51.9 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 19/62 (30%), Positives = 30/62 (48%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGL 315 + +L L R N LR + +G+L D+L N G +SL +++ VLG +G Sbjct: 77 NHTPIRDLPLPTRIANGLRRMGVRTLGELTALHAEDILLSPNLGERSLDQLRHVLGLIGR 136 Query: 316 FL 317 L Sbjct: 137 SL 138 >gi|229154810|ref|ZP_04282925.1| hypothetical protein bcere0010_10050 [Bacillus cereus ATCC 4342] gi|228628758|gb|EEK85470.1| hypothetical protein bcere0010_10050 [Bacillus cereus ATCC 4342] Length = 95 Score = 51.9 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSSPARNALEHHGIHTIEELSKYSEKEILKLHGMGPASLPKLRKALEEQGLSF 94 >gi|75760174|ref|ZP_00740232.1| Hypothetical cytosolic protein [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|228899820|ref|ZP_04064066.1| hypothetical protein bthur0014_10330 [Bacillus thuringiensis IBL 4222] gi|74492338|gb|EAO55496.1| Hypothetical cytosolic protein [Bacillus thuringiensis serovar israelensis ATCC 35646] gi|228859839|gb|EEN04253.1| hypothetical protein bthur0014_10330 [Bacillus thuringiensis IBL 4222] Length = 95 Score = 51.9 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 27/53 (50%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L+ I + +L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSSPARNALQHHGIHTIEELSKYSEKEILKLHGMGPASMPKLRKALEERGLSF 94 >gi|296412916|ref|XP_002836165.1| hypothetical protein [Tuber melanosporum Mel28] gi|295629972|emb|CAZ80356.1| unnamed protein product [Tuber melanosporum] Length = 340 Score = 51.9 bits (123), Expect = 1e-04, Method: Composition-based stats. Identities = 54/265 (20%), Positives = 95/265 (35%), Gaps = 43/265 (16%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG----VLHEIS 73 I + + + ++ FA NALRR++++ + AI V+I + E Sbjct: 16 ITIKEADSRHAQIVLSNCDLAFA----NALRRIMLAEIPTIAIDIVEIQTNTSVIPDEFL 71 Query: 74 SIK-GVHE-DLTDIILNI--KGINLKMSGDSHKRVTIFK------RGPGVVTAGDIQTVN 123 + G+ D T+I + VT+ V A D+ Sbjct: 72 CHRLGMVPLDSTNIDDKLIYTRDCFCDQYCERCSVTLSLHARCTGEDNVTVYARDLVIAE 131 Query: 124 DIE-----VLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-----ENDPIGL 170 + + +P+ VIC L +R++ KG AK T E DP Sbjct: 132 GAQLGSPVINDPEGQGTVICKLRKGQELRLKCIAKKGIAKEHAKWAPTAAVGFEYDPWNK 191 Query: 171 I-TIDALYSPIKKVSY-------TVESAREGQVLDYD----KLSMTIDTDGSITGEDSVA 218 + ID Y K + E EG+ +YD + + I++ GS+ ++ + Sbjct: 192 LRHIDYWYEEDAKEEWPKSKYADWEEPPIEGEPFNYDAVPSRFYLDIESAGSLPPDEILQ 251 Query: 219 LASRILQDQLGMFINFEEPKKEVKE 243 + LQ++L I K E + Sbjct: 252 QGIKYLQEKLAAVIETFSNKNETGD 276 >gi|15678067|ref|NP_275181.1| DNA-directed RNA polymerase subunit D [Methanothermobacter thermautotrophicus str. Delta H] gi|3122766|sp|O26144|RPOD_METTH RecName: Full=DNA-directed RNA polymerase subunit D gi|2621073|gb|AAB84545.1| DNA-dependent RNA polymerase, subunit D [Methanothermobacter thermautotrophicus str. Delta H] Length = 264 Score = 51.9 bits (123), Expect = 2e-04, Method: Composition-based stats. Identities = 50/268 (18%), Positives = 86/268 (32%), Gaps = 57/268 (21%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLG--NALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 I L ++ + + + T+ NA+RR+ M + AI V + ++ Sbjct: 3 IALKEKTDTEMVFVVS------GVTVPFINAIRRICMMEVPKLAIEYVNMY--RNDAKMF 54 Query: 76 KGVHEDLTDIILNIKGINLKMS-------------GDSHKRVTIFKRGPGVVTAGDIQT- 121 V ++ S + +T+ K+GPGVV +GD+ + Sbjct: 55 DEVLAHRLGLVPLAADPEFAESLKMPEECDCEEYCSECSVSLTLRKKGPGVVYSGDLVSE 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT--------- 172 ++ + PD + L D + +E G G AK T Sbjct: 115 TPAVKPVYPDIPLVKLGDDDELELEAVAQLGVGREHAKWEPTTACAYKYYPRIEFSEDCD 174 Query: 173 -----IDA-------------------LYSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 I+A S K + + K I+TD Sbjct: 175 ECLECIEACPRDVLGEESGKPVVVDLENCSMCKSCVRACDKRAIDVGYEEGKFIFRIETD 234 Query: 209 GSITGEDSVALASRILQDQLGMFINFEE 236 GS+ +D + A IL+D+ I F E Sbjct: 235 GSVDPKDVLLKACDILRDKAEQVITFCE 262 >gi|229171887|ref|ZP_04299456.1| hypothetical protein bcere0006_10040 [Bacillus cereus MM3] gi|228611597|gb|EEK68850.1| hypothetical protein bcere0006_10040 [Bacillus cereus MM3] Length = 95 Score = 51.9 bits (123), Expect = 2e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 27/53 (50%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L+ I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSSPARNALQHHGIHTIEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|124486064|ref|YP_001030680.1| DNA-directed RNA polymerase subunit D [Methanocorpusculum labreanum Z] gi|124363605|gb|ABN07413.1| DNA-directed RNA polymerase, subunit D [Methanocorpusculum labreanum Z] Length = 275 Score = 51.5 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 34/206 (16%), Positives = 67/206 (32%), Gaps = 20/206 (9%) Query: 24 EENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHE 80 +++ T NALRR ++ + AI ++I D + Sbjct: 9 DDSVARFTI------HGATPAFANALRRSMIGEVPTLAIEDIRIYDNTSVLFDEMLAHRL 62 Query: 81 DLTDIILNIKGINLKMSGD--------SHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPD 131 L I ++ + T+ GP +VT+GD+ + ++ ++ + Sbjct: 63 GLIPIKTDLSQYVPRSECSCGGEGCPHCTVMFTLSVEGPKMVTSGDLISMDENVVPVHNN 122 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKV-SYTVESA 190 I L + V +E +G AK T + + E Sbjct: 123 IPIVKLWENQKVVLEAVAEVNYGKEHAKWQPTLACGYSEYPVITIKDTCDGCGKCVAECP 182 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDS 216 R+ L D +S+ + +G +D Sbjct: 183 RDVLELTKDTVSIRV-VNGESKEKDC 207 >gi|154151761|ref|YP_001405379.1| DNA-directed RNA polymerase subunit D [Candidatus Methanoregula boonei 6A8] gi|154000313|gb|ABS56736.1| DNA-directed RNA polymerase [Methanoregula boonei 6A8] Length = 276 Score = 51.5 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 45/278 (16%), Positives = 85/278 (30%), Gaps = 57/278 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSI- 75 I ++ GFA N+ RR ++ + AI V+I D + Sbjct: 3 IEFASLDDTVARFTLSGAQPGFA----NSFRRAMIGEVPTLAIEDVRIYDNTSALFDEML 58 Query: 76 ------KGVHEDLTDIILNIKGINLKMSGDSHKRV--TIFKRGPGVVTAGDIQT-VNDIE 126 + DLT + +G V T+ GP +VT+ D+ Sbjct: 59 AHRLGLIPIRTDLTSYSTQ-GDCSCGGAGCPSCTVTYTLSVEGPKLVTSSDLIPQDPQAA 117 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-----ENDPIGLITI--DALYSP 179 ++ + I L + +E G V AK T +N P+ I+ DA Sbjct: 118 PVSDNIPIVKLIKGQKLVIEARAVLNKGKVHAKWQPTLVCGYKNYPVITISPTCDACGMC 177 Query: 180 IKKV--------SYTVESA--------------------REGQVL------DYDKLSMTI 205 + + VE G+ + D+ ++ Sbjct: 178 VDECPRTILALKGKKVEVIEGRLPDCSMCKLCERACLASGIGEEPAIRISAEPDRYIFSV 237 Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKE 243 ++DGS+ ++ + A ++ Q ++ Sbjct: 238 ESDGSLPVKEIMVQALGFVKAQAEELEKQTSEISGEEK 275 >gi|206976556|ref|ZP_03237462.1| conserved domain protein [Bacillus cereus H3081.97] gi|206745239|gb|EDZ56640.1| conserved domain protein [Bacillus cereus H3081.97] Length = 95 Score = 51.5 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSSPARNALEHHGIHTIEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|218896178|ref|YP_002444589.1| hypothetical protein BCG9842_B4147 [Bacillus cereus G9842] gi|218543350|gb|ACK95744.1| conserved domain protein [Bacillus cereus G9842] Length = 95 Score = 51.5 bits (122), Expect = 2e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSSPARNALEHHGIHTIEELSKYSEKEILKLHGMGPASMPKLRKALEERGLSF 94 >gi|312137109|ref|YP_004004446.1| RNA polymerase insert [Methanothermus fervidus DSM 2088] gi|311224828|gb|ADP77684.1| RNA polymerase insert [Methanothermus fervidus DSM 2088] Length = 264 Score = 51.1 bits (121), Expect = 2e-04, Method: Composition-based stats. Identities = 46/267 (17%), Positives = 82/267 (30%), Gaps = 51/267 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 +V+ +E + G + NALRR M+ + AI ++I + Sbjct: 3 VVVNKENNTEIKFTID----GVDTSFVNALRRASMTEVPKLAIEYIRIVTNTSRMYDEML 58 Query: 77 GVHEDLTDIILNIKGI----------NLKMSGDSHKRVTIFKRGPGVVTAGDIQT-VNDI 125 L + N K + K T+ K+GP VV +GD+ +I Sbjct: 59 AHRLGLIPLRSNEKIVGNLLMPEECDCDKYCAKCSVSFTLKKQGPCVVYSGDLVPSDPEI 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY 185 + + + I L+ D + +E G G AK T + Sbjct: 119 KPVYENIPIIKLEEDEKIELEAIAQLGLGKKHAKWRPTTACGYKYYPKIIIKDTCDNCQA 178 Query: 186 TVESAREG----------------------------------QVLDYDKLSMTIDTDGSI 211 +E + Q +D +K ++TDGS+ Sbjct: 179 CIEECPKDVLKANKDTIKIENIEACSLCRACERICENESISVQYID-NKFIFKMETDGSM 237 Query: 212 TGEDSVALASRILQDQLGMFINFEEPK 238 + + A + + I F E + Sbjct: 238 PPREILNKACDSIIKKADEIIKFCEGE 264 >gi|302671247|ref|YP_003831207.1| RNA polymerase alpha subunit C terminal domain-containing protein [Butyrivibrio proteoclasticus B316] gi|302395720|gb|ADL34625.1| RNA polymerase alpha subunit C terminal domain-containing protein [Butyrivibrio proteoclasticus B316] Length = 125 Score = 51.1 bits (121), Expect = 3e-04, Method: Composition-based stats. Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 2/67 (2%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR--TEADMLRMANFGRKSLVEIKGV 309 + +E LEL VR+ N L+ +G+L + + ++ ++ N G KS EI Sbjct: 36 NSQMSETPIESLELGVRAYNSLKRAGYSTIGELAESIASGTEISKIRNCGTKSCREIMEK 95 Query: 310 LGTMGLF 316 L Sbjct: 96 LFLYQYS 102 >gi|4140450|gb|AAD04060.1| DNA-directed RNA polymerase alpha chain [Chlamydia trachomatis] Length = 46 Score = 51.1 bits (121), Expect = 3e-04, Method: Composition-based stats. Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 2/45 (4%) Query: 297 NFGRKSLVEIKGVLGTMGLFLGMNLPDWPP--ESIEELAKKYEDK 339 NFG+KSL EIK L M L LGM+L + ++++E K Y +K Sbjct: 1 NFGKKSLCEIKNKLKEMKLELGMDLSQFGVGLDNVKEKMKWYAEK 45 >gi|254573314|ref|XP_002493766.1| RNA polymerase II third largest subunit B44, part of central core [Pichia pastoris GS115] gi|238033565|emb|CAY71587.1| RNA polymerase II third largest subunit B44, part of central core [Pichia pastoris GS115] gi|328354411|emb|CCA40808.1| DNA-directed RNA polymerase II subunit RPB3 .5 [Pichia pastoris CBS 7435] Length = 304 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 47/243 (19%), Positives = 85/243 (34%), Gaps = 42/243 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKG 91 +L N+LRR +++ + AI V+I + + H + I V ED+ ++ + Sbjct: 26 LSLANSLRRTMLAEVPTLAIDLVEIKMNTSVLADEFISHRLGLIPLVSEDVEEMKYSRDC 85 Query: 92 INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP--------------DHVI--C 135 + + + R G D+ + + I+V P D I C Sbjct: 86 TCEDYCDECSVVLELSARHEGEEGTTDVYSSSLIKVSGPGNLNVGEPVRRDDYDQGILLC 145 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKH------------HRTENDPIGLITIDALYS-PIKK 182 L + + KG AK H +DA P K Sbjct: 146 KLRNHQELNIRCIAKKGIAKEHAKWSPCSAIAFEYDPHNKLKHTDFWFEVDAKKEWPDSK 205 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 + E + G+V DY ++ MT++T GS+ + + LQ++L + E Sbjct: 206 YATWEEPPKPGEVFDYKAKPNRFYMTVETTGSLKANQVFSRGIKTLQEKLANVLFELENS 265 Query: 239 KEV 241 + Sbjct: 266 RPA 268 >gi|255316715|ref|ZP_05358298.1| hypothetical protein CdifQCD-7_20312 [Clostridium difficile QCD-76w55] Length = 70 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 19/54 (35%), Positives = 28/54 (51%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + +L+LS + N L NI + L T D+L++ G KSL EIK L + Sbjct: 1 MNQLKLSKKIVNHLIKANIDSIESLKTMTSNDLLKINGIGPKSLEEIKQALSLL 54 >gi|147919298|ref|YP_686966.1| DNA-directed RNA polymerase subunit D [uncultured methanogenic archaeon RC-I] gi|110622362|emb|CAJ37640.1| DNA-directed RNA polymerase, subunit D [uncultured methanogenic archaeon RC-I] Length = 262 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 42/256 (16%), Positives = 83/256 (32%), Gaps = 50/256 (19%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEI 72 +E I L + + + + FA N LRR +++ + AI V I D Sbjct: 2 KLEIIELK---DRKAKFVLTDVTPAFA----NGLRRAMIADVPKMAIDYVDIYDNTSVLF 54 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGD--------SHKRVTIFKRGPGVVTAGDIQ-TVN 123 + + L + N+ L+ + +++ GP VV + D++ + Sbjct: 55 DEMLALRLGLIPLKTNLDMYQLQSECECKGAGCSLCQVTLSVSAEGPCVVHSSDMKSSDP 114 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGH-------------GYVPAK----------- 159 + ++ + I L V T G GY Sbjct: 115 ETVPVDNNIPIIELKQGQKVVASGTARLGFTKEHAKYQPVCAAGYKNVPIVTVSDKCDQC 174 Query: 160 HHRTENDPIGLITIDAL---------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 + P G+ I+ S K ++ D T++TDGS Sbjct: 175 KACIDECPRGVFKIEKNKLVVTDQYKCSMCKLCVDVCDAGAIDVSADKKAFIFTVETDGS 234 Query: 211 ITGEDSVALASRILQD 226 + ++ + A++ ++D Sbjct: 235 YSAQEIITRAAKSMKD 250 >gi|320161915|ref|YP_004175140.1| 50S ribosomal protein L31 [Anaerolinea thermophila UNI-1] gi|319995769|dbj|BAJ64540.1| 50S ribosomal protein L31 [Anaerolinea thermophila UNI-1] Length = 158 Score = 50.4 bits (119), Expect = 4e-04, Method: Composition-based stats. Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 3/77 (3%) Query: 244 DINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD---LIQRTEADMLRMANFGR 300 + +L + + L L R T L I +G L+++ EA +L + FGR Sbjct: 73 EQKKAREEARTSLERPIASLNLGTRPTEALAKAGITTVGQVIALLEQGEAALLNVEGFGR 132 Query: 301 KSLVEIKGVLGTMGLFL 317 K+L+++K L +G L Sbjct: 133 KALIDLKKTLRGLGYQL 149 >gi|229028912|ref|ZP_04185013.1| hypothetical protein bcere0028_10160 [Bacillus cereus AH1271] gi|228732483|gb|EEL83364.1| hypothetical protein bcere0028_10160 [Bacillus cereus AH1271] Length = 95 Score = 50.0 bits (118), Expect = 5e-04, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSSPARNALEHHGIHTIEELSKYSEKEILKLHGMGPASMPKLRKALEEAGLSF 94 >gi|224025021|ref|ZP_03643387.1| hypothetical protein BACCOPRO_01755 [Bacteroides coprophilus DSM 18228] gi|224018257|gb|EEF76255.1| hypothetical protein BACCOPRO_01755 [Bacteroides coprophilus DSM 18228] Length = 89 Score = 49.6 bits (117), Expect = 6e-04, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L IV + DL ++TE ++ + K+L IK +L GL GM+ + Sbjct: 23 IRKALMQAGIVTVEDLCRKTEEELSSIPFIKGKNLQAIKDMLAEKGLHTGMSQEE 77 >gi|325972213|ref|YP_004248404.1| RNA polymerase subunit alpha domain protein [Spirochaeta sp. Buddy] gi|324027451|gb|ADY14210.1| RNA polymerase alpha subunit domain protein [Spirochaeta sp. Buddy] Length = 395 Score = 49.6 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 23/115 (20%), Positives = 44/115 (38%), Gaps = 9/115 (7%) Query: 218 ALASRILQDQLGMFINF---------EEPKKEVKEDINVKSLPFNPALLKKVEELELSVR 268 + A L+ QL + + + E++ L ++ L+L+ R Sbjct: 273 SKALYFLKRQLNILVPWGATFINLSDYLSSSELEVIKKAIQTLPGAIYLIPIQFLDLTNR 332 Query: 269 STNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 + NC I +G + T D+ NFG+KSL E++ + + + D Sbjct: 333 ANNCCLNAEITTVGMFSKMTLFDIASSRNFGKKSLEELQSKTKNLIDYFNITGED 387 >gi|87307624|ref|ZP_01089768.1| DNA-directed RNA polymerase, alpha subunit [Blastopirellula marina DSM 3645] gi|87289794|gb|EAQ81684.1| DNA-directed RNA polymerase, alpha subunit [Blastopirellula marina DSM 3645] Length = 124 Score = 49.6 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 17/74 (22%), Positives = 28/74 (37%) Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 EVK + + L L + N L I +GDL T D+L + N G Sbjct: 38 EVKSQRRELCDEYALPREVPLARLNLEPQILNALEYCEINTVGDLQGVTYEDLLSVPNLG 97 Query: 300 RKSLVEIKGVLGTM 313 + E++ + + Sbjct: 98 QSRASEVRDSVRQL 111 >gi|186683568|ref|YP_001866764.1| RNA polymerase subunit alpha [Nostoc punctiforme PCC 73102] gi|186466020|gb|ACC81821.1| RNA polymerase, alpha subunit domain protein [Nostoc punctiforme PCC 73102] Length = 258 Score = 49.6 bits (117), Expect = 7e-04, Method: Composition-based stats. Identities = 21/88 (23%), Positives = 34/88 (38%), Gaps = 1/88 (1%) Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E+IN + P +E L L + L+ + + DL + + + Sbjct: 165 NSNVHPVEEINGDNKPNGVVDENSIESLNLKRNTYTALKDAKVNTIEDLNKYGVTGLRTL 224 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 N G KS+ +I L G+ L LPD Sbjct: 225 KNLGNKSVSQIVEALLFRGIELP-ELPD 251 >gi|302348806|ref|YP_003816444.1| DNA-directed RNA polymerase subunit D [Acidilobus saccharovorans 345-15] gi|302329218|gb|ADL19413.1| DNA-directed RNA polymerase subunit D [Acidilobus saccharovorans 345-15] Length = 287 Score = 49.2 bits (116), Expect = 8e-04, Method: Composition-based stats. Identities = 30/165 (18%), Positives = 55/165 (33%), Gaps = 26/165 (15%) Query: 16 EYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSI 75 + + + + +R + E P + GNALRR+ +S + A+ V +E S Sbjct: 4 QKVSIVELGNSRITVSMEGFPVAY----GNALRRLALSEVPTMAVDFVYFY--DNESSVY 57 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKR-------------VTIFKRGPGV------VTA 116 + +++ L+ G + V + P V A Sbjct: 58 DEIIAHRLGLLVLRSDEALRKYGSPEECSNASENDSHCFAQVYLEYEVPQDAASGVYVKA 117 Query: 117 GDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 D++ DI + P+ I L + + G GY K Sbjct: 118 SDLKFSDPDIRPIYPETPIVYLAPGQRIHLVGYARLGRGYEHGKW 162 >gi|329121465|ref|ZP_08250089.1| RNA polymerase subunit alpha [Dialister micraerophilus DSM 19965] gi|327469380|gb|EGF14850.1| RNA polymerase subunit alpha [Dialister micraerophilus DSM 19965] Length = 899 Score = 49.2 bits (116), Expect = 9e-04, Method: Composition-based stats. Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 1/66 (1%) Query: 249 SLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTE-ADMLRMANFGRKSLVEIK 307 ++ LELS R+ NCLR + +G LI+ + D+ + GR S+ E++ Sbjct: 1 MEMKFITKDDFIDVLELSTRTNNCLRRAEVHTIGSLIEYAKNNDLSMIYGMGRLSVEEVE 60 Query: 308 GVLGTM 313 VL + Sbjct: 61 RVLKEL 66 >gi|313891416|ref|ZP_07825032.1| RNA polymerase, alpha subunit C-terminal domain protein [Dialister microaerophilus UPII 345-E] gi|313120191|gb|EFR43367.1| RNA polymerase, alpha subunit C-terminal domain protein [Dialister microaerophilus UPII 345-E] Length = 897 Score = 49.2 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 1/55 (1%) Query: 260 VEELELSVRSTNCLRGENIVYMGDLIQRTE-ADMLRMANFGRKSLVEIKGVLGTM 313 ++ LELS R+ NCLR + +G LI+ + D+ + GR S+ E++ VL + Sbjct: 10 IDVLELSTRTNNCLRRAEVHTIGSLIEYAKNNDLSMIYGMGRLSVEEVERVLKEL 64 >gi|228919963|ref|ZP_04083317.1| hypothetical protein bthur0011_9830 [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] gi|228964187|ref|ZP_04125310.1| hypothetical protein bthur0004_10400 [Bacillus thuringiensis serovar sotto str. T04001] gi|228795537|gb|EEM43021.1| hypothetical protein bthur0004_10400 [Bacillus thuringiensis serovar sotto str. T04001] gi|228839676|gb|EEM84963.1| hypothetical protein bthur0011_9830 [Bacillus thuringiensis serovar huazhongensis BGSC 4BD1] Length = 95 Score = 49.2 bits (116), Expect = 0.001, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 27/53 (50%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L+ I + +L + +E ++L+M G SL +++ L GL Sbjct: 42 LSSPARNALQHHGIQTIEELSKYSEKEILKMHGMGPASLPKLRRALEESGLSF 94 >gi|50307587|ref|XP_453773.1| hypothetical protein [Kluyveromyces lactis NRRL Y-1140] gi|49642907|emb|CAH00869.1| KLLA0D16170p [Kluyveromyces lactis] Length = 307 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 47/262 (17%), Positives = 91/262 (34%), Gaps = 41/262 (15%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDII----LNI 89 L N+LRRV++S + AI +V+I+ + H + I D+ ++ Sbjct: 29 LANSLRRVMISEIPTLAIDSVEIETNTTVLADEFIAHRLGLIPLQSADIDQVVYCRDCYC 88 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHV-----------ICNLD 138 + + S + V A D+Q +D++ N H IC L Sbjct: 89 EDHCDRCSVELILHAIGESESTTNVYAKDLQITSDLKGRNIGHPIIQDREANGVLICKLR 148 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT------IDALYSPIKKVSY------- 185 +R++ KG AK + D Y + + Sbjct: 149 KGQEIRVKCIAKKGISKEHAKWSPSAAIEFEYDPWNKLKHTDYWYEQDARDEWPQSKNCE 208 Query: 186 TVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 + E + DY + + +++ GSIT E V + LQD++ + + + Sbjct: 209 FEDPPNEDEDFDYRAKPNTFYINVESVGSITSEQVVVRGIKTLQDKVADILFSLKKMDQE 268 Query: 242 KEDINVKSLPFNPALLKKVEEL 263 K + ++ + + +EE Sbjct: 269 KVNFAAGAVSTHVSQQVPMEED 290 >gi|166714716|gb|ABY88083.1| RpoA [Stenotrophomonas sp. LMG 980] Length = 66 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 19/57 (33%), Positives = 30/57 (52%) Query: 195 VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D DKL + I+T+G+I E++V A+ I DQL +F +F + + N P Sbjct: 1 RTDLDKLVIDIETNGTIDAEEAVRTAADITSDQLSVFGDFTHRDRGAAKPANNGVDP 57 >gi|52144187|ref|YP_082641.1| hypothetical protein BCZK1040 [Bacillus cereus E33L] gi|51977656|gb|AAU19206.1| conserved hypothetical protein [Bacillus cereus E33L] Length = 95 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRAALEKKGLSF 94 >gi|163939036|ref|YP_001643920.1| hypothetical protein BcerKBAB4_1042 [Bacillus weihenstephanensis KBAB4] gi|163861233|gb|ABY42292.1| conserved hypothetical protein [Bacillus weihenstephanensis KBAB4] Length = 92 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGIHTLEELSKYSEKEILKLHGIGPASLPKLRAALEDKGLSF 91 >gi|30261250|ref|NP_843627.1| hypothetical protein BA_1143 [Bacillus anthracis str. Ames] gi|47526412|ref|YP_017761.1| hypothetical protein GBAA_1143 [Bacillus anthracis str. 'Ames Ancestor'] gi|49184082|ref|YP_027334.1| hypothetical protein BAS1062 [Bacillus anthracis str. Sterne] gi|65318521|ref|ZP_00391480.1| COG0202: DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Bacillus anthracis str. A2012] gi|165873095|ref|ZP_02217713.1| conserved domain protein [Bacillus anthracis str. A0488] gi|167635403|ref|ZP_02393717.1| conserved domain protein [Bacillus anthracis str. A0442] gi|167640197|ref|ZP_02398463.1| conserved domain protein [Bacillus anthracis str. A0193] gi|170688124|ref|ZP_02879336.1| conserved domain protein [Bacillus anthracis str. A0465] gi|170707653|ref|ZP_02898105.1| conserved domain protein [Bacillus anthracis str. A0389] gi|177655489|ref|ZP_02936932.1| conserved domain protein [Bacillus anthracis str. A0174] gi|190566674|ref|ZP_03019591.1| conserved domain protein [Bacillus anthracis Tsiankovskii-I] gi|196036241|ref|ZP_03103640.1| conserved domain protein [Bacillus cereus W] gi|227816012|ref|YP_002816021.1| hypothetical protein BAMEG_3438 [Bacillus anthracis str. CDC 684] gi|228913818|ref|ZP_04077443.1| hypothetical protein bthur0012_10560 [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|228926281|ref|ZP_04089355.1| hypothetical protein bthur0010_10010 [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|229602118|ref|YP_002865673.1| hypothetical protein BAA_1226 [Bacillus anthracis str. A0248] gi|254682689|ref|ZP_05146550.1| hypothetical protein BantC_02400 [Bacillus anthracis str. CNEVA-9066] gi|254725482|ref|ZP_05187264.1| hypothetical protein BantA1_23996 [Bacillus anthracis str. A1055] gi|254734107|ref|ZP_05191820.1| hypothetical protein BantWNA_02898 [Bacillus anthracis str. Western North America USA6153] gi|254740249|ref|ZP_05197941.1| hypothetical protein BantKB_04364 [Bacillus anthracis str. Kruger B] gi|254753589|ref|ZP_05205625.1| hypothetical protein BantV_14033 [Bacillus anthracis str. Vollum] gi|254758686|ref|ZP_05210713.1| hypothetical protein BantA9_10299 [Bacillus anthracis str. Australia 94] gi|30254864|gb|AAP25113.1| conserved domain protein [Bacillus anthracis str. Ames] gi|47501560|gb|AAT30236.1| conserved domain protein [Bacillus anthracis str. 'Ames Ancestor'] gi|49178009|gb|AAT53385.1| conserved domain protein [Bacillus anthracis str. Sterne] gi|164711149|gb|EDR16708.1| conserved domain protein [Bacillus anthracis str. A0488] gi|167511798|gb|EDR87178.1| conserved domain protein [Bacillus anthracis str. A0193] gi|167529231|gb|EDR91984.1| conserved domain protein [Bacillus anthracis str. A0442] gi|170127428|gb|EDS96303.1| conserved domain protein [Bacillus anthracis str. A0389] gi|170668019|gb|EDT18770.1| conserved domain protein [Bacillus anthracis str. A0465] gi|172080088|gb|EDT65184.1| conserved domain protein [Bacillus anthracis str. A0174] gi|190562226|gb|EDV16194.1| conserved domain protein [Bacillus anthracis Tsiankovskii-I] gi|195991216|gb|EDX55185.1| conserved domain protein [Bacillus cereus W] gi|227004702|gb|ACP14445.1| conserved domain protein [Bacillus anthracis str. CDC 684] gi|228833378|gb|EEM78941.1| hypothetical protein bthur0010_10010 [Bacillus thuringiensis serovar pondicheriensis BGSC 4BA1] gi|228845757|gb|EEM90783.1| hypothetical protein bthur0012_10560 [Bacillus thuringiensis serovar pulsiensis BGSC 4CC1] gi|229266526|gb|ACQ48163.1| conserved domain protein [Bacillus anthracis str. A0248] Length = 95 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|159041731|ref|YP_001540983.1| RNA polymerase insert [Caldivirga maquilingensis IC-167] gi|157920566|gb|ABW01993.1| RNA polymerase insert [Caldivirga maquilingensis IC-167] Length = 305 Score = 48.8 bits (115), Expect = 0.001, Method: Composition-based stats. Identities = 27/158 (17%), Positives = 56/158 (35%), Gaps = 19/158 (12%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + Q ++ + E + +L N+LRR+L++ + AI V + D + Sbjct: 7 VKVLQYSDDYLKFVVEGVKP----SLINSLRRILITDVPVLAIDRVIVLDNTTVMYDEVL 62 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRV---------TIFKRGPGVVT---AGDIQT-VN 123 + + N++ + K+ + V + + V A D+ Sbjct: 63 AHRLSMIPLKTNLEKLP-KIEECEDELVDPSLCQVRYQLSIKANDQVVSVYAKDLIPDDP 121 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 D + PD +I + V+ +E G AK Sbjct: 122 DFAPVYPDTLIVKMSKGQVLSIEAYAKLGRARDHAKWQ 159 >gi|229101825|ref|ZP_04232540.1| hypothetical protein bcere0019_9910 [Bacillus cereus Rock3-28] gi|228681618|gb|EEL35780.1| hypothetical protein bcere0019_9910 [Bacillus cereus Rock3-28] Length = 92 Score = 48.4 bits (114), Expect = 0.001, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEECGLSF 91 >gi|324325259|gb|ADY20519.1| hypothetical protein YBT020_06365 [Bacillus thuringiensis serovar finitimus YBT-020] Length = 95 Score = 48.4 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + +L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSSPARNALEHHGIQTIEELSKYSEKEILKLHGMGPTSMPKLRKALEESGLSF 94 >gi|229056868|ref|ZP_04196264.1| hypothetical protein bcere0026_9850 [Bacillus cereus AH603] gi|228720396|gb|EEL71969.1| hypothetical protein bcere0026_9850 [Bacillus cereus AH603] Length = 92 Score = 48.4 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGIHTLEELSKYSEKEILKLHGIGPASLPKLRTALEDKGLSF 91 >gi|284165822|ref|YP_003404101.1| RNA polymerase insert [Haloterrigena turkmenica DSM 5511] gi|284015477|gb|ADB61428.1| RNA polymerase insert [Haloterrigena turkmenica DSM 5511] Length = 249 Score = 48.4 bits (114), Expect = 0.002, Method: Composition-based stats. Identities = 36/217 (16%), Positives = 76/217 (35%), Gaps = 35/217 (16%) Query: 40 AHT--LGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 T N +RR +++ + AI V+ + + L + +G Sbjct: 23 GVTPGFANGIRRAMLADVPTMAIDTVRFVENSSVMFDEQLALRLGLVPLTTPPEGEF--- 79 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQTVND-IEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 D ++I GP +GD+ + +D ++ + + I +L D + E +G Sbjct: 80 GEDETVTLSIDVEGPATAYSGDLVSSDDLVQPADENVPIIDLKDDQRLEAEADAVLDYGK 139 Query: 156 VPAKHH--------------------RTENDPIG----LITIDALYSPIKKVSYTVESAR 191 AKH E + +I D P + + + + Sbjct: 140 DHAKHQGGVAVGYRHLQRVEVVGDLPEFEEEESRIVRGVIEDDGELVPTSEFDHDLSNRY 199 Query: 192 EGQVLDYDKL----SMTIDTDGSITGEDSVALASRIL 224 G+ ++ + + ++TDGS + E+ V A+ + Sbjct: 200 PGKEVEIEDVPNAFVFHVETDGSFSVEELVTRAADSI 236 >gi|218902339|ref|YP_002450173.1| hypothetical protein BCAH820_1221 [Bacillus cereus AH820] gi|228932518|ref|ZP_04095399.1| hypothetical protein bthur0009_9960 [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] gi|228944851|ref|ZP_04107214.1| hypothetical protein bthur0007_10180 [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|229120766|ref|ZP_04250009.1| hypothetical protein bcere0016_10750 [Bacillus cereus 95/8201] gi|218538056|gb|ACK90454.1| conserved domain protein [Bacillus cereus AH820] gi|228662771|gb|EEL18368.1| hypothetical protein bcere0016_10750 [Bacillus cereus 95/8201] gi|228814879|gb|EEM61137.1| hypothetical protein bthur0007_10180 [Bacillus thuringiensis serovar monterrey BGSC 4AJ1] gi|228827208|gb|EEM72961.1| hypothetical protein bthur0009_9960 [Bacillus thuringiensis serovar andalousiensis BGSC 4AW1] Length = 95 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|229160195|ref|ZP_04288194.1| hypothetical protein bcere0009_9900 [Bacillus cereus R309803] gi|228623156|gb|EEK79983.1| hypothetical protein bcere0009_9900 [Bacillus cereus R309803] Length = 92 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L + G SL +++ L GL Sbjct: 39 LSAPARRALEHHGIHTVEELSKYSEKEILNLHGMGPASLPKLRKALEENGLSF 91 >gi|292656898|ref|YP_003536795.1| DNA-directed RNA polymerase subunit D [Haloferax volcanii DS2] gi|291371468|gb|ADE03695.1| DNA-directed RNA polymerase subunit D [Haloferax volcanii DS2] Length = 259 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 29/146 (19%), Positives = 55/146 (37%), Gaps = 10/146 (6%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + E+ R +A RG L N +RR +++ + +I V+ + + Sbjct: 7 VEFIEREDRRARFVA----RGLTPALANGIRRAMVADVPTFSIDTVRFVENTSVMFDEMI 62 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV-LNPDHVIC 135 G+ L + + V + GP +GDI++ +D+ V + + I Sbjct: 63 GLRLGLVPLTTPLDD----FEPGDTVTVALEVDGPATAYSGDIESADDMVVPADENIPII 118 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHH 161 L + E GHG AK+ Sbjct: 119 ELKEGQRLEFEADAVLGHGKDHAKNQ 144 >gi|229114676|ref|ZP_04244090.1| hypothetical protein bcere0017_9730 [Bacillus cereus Rock1-3] gi|228668741|gb|EEL24169.1| hypothetical protein bcere0017_9730 [Bacillus cereus Rock1-3] Length = 95 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|166714714|gb|ABY88082.1| RpoA [Stenotrophomonas sp. LMG 10996] Length = 67 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 19/58 (32%), Positives = 30/58 (51%) Query: 194 QVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 D DKL + I+T+G+I E++V A+ I DQL +F +F + + N P Sbjct: 1 HRTDLDKLVIDIETNGTIDAEEAVRTAADIPSDQLSVFGDFTHRDRGAAKPANNGVDP 58 >gi|229095726|ref|ZP_04226705.1| hypothetical protein bcere0020_9780 [Bacillus cereus Rock3-29] gi|228687559|gb|EEL41458.1| hypothetical protein bcere0020_9780 [Bacillus cereus Rock3-29] Length = 92 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEEGGLSF 91 >gi|217958720|ref|YP_002337268.1| hypothetical protein BCAH187_A1298 [Bacillus cereus AH187] gi|229137930|ref|ZP_04266529.1| hypothetical protein bcere0013_10550 [Bacillus cereus BDRD-ST26] gi|217066098|gb|ACJ80348.1| conserved domain protein [Bacillus cereus AH187] gi|228645587|gb|EEL01820.1| hypothetical protein bcere0013_10550 [Bacillus cereus BDRD-ST26] Length = 95 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|310794498|gb|EFQ29959.1| RNA polymerase Rpb3/RpoA insert domain-containing protein [Glomerella graminicola M1.001] Length = 339 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 43/234 (18%), Positives = 87/234 (37%), Gaps = 41/234 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 + N+LRRV+ + + AI V+I+ + H + I +D+ ++ Sbjct: 36 LSFANSLRRVIQAEVPVIAIDLVEIEANTSVLADEFIAHRLGLIPLQSKDVNSLLYTRDC 95 Query: 92 INLKMSGDSHKRVTIFKRG----PGVVTAGDIQTVN--------DIEVLNPD---HVICN 136 + + ++T+ R V A D+ + + +L+P+ +IC Sbjct: 96 DCEQYCDNCSVKLTLHARCSSDDTMKVYASDLIVDSFRQNGTVGNPVILDPEGQGSLICK 155 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHR------TENDPIGLITIDALYS-------PIKKV 183 L +++ KG AK + L +D Y P K Sbjct: 156 LRKGQELKISCIAKKGIAKEHAKWMPTSAVGFEYDPHNKLHHLDMWYEEDAKAEWPDSKY 215 Query: 184 SYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 + + +EG DYD K ++ GS+ + + +ILQ++L + ++ Sbjct: 216 AKMEDPPQEGDPFDYDAVPGKFYFEVEGVGSLEPDQIIQEGIKILQEKLALTLH 269 >gi|19075824|ref|NP_588324.1| RNA polymerase II subunit 3 [Schizosaccharomyces pombe 972h-] gi|13124820|sp|P37382|RPB3_SCHPO RecName: Full=DNA-directed RNA polymerase II subunit RPB3; Short=RNA polymerase II subunit 3; Short=RNA polymerase II subunit B3; AltName: Full=DNA-directed RNA polymerase II 33 kDa polypeptide gi|256599717|pdb|3H0G|C Chain C, Rna Polymerase Ii From Schizosaccharomyces Pombe gi|256599729|pdb|3H0G|O Chain O, Rna Polymerase Ii From Schizosaccharomyces Pombe gi|2465184|dbj|BAA22566.1| polymerase II third largest subunit (subunit 3) [Schizosaccharomyces pombe] gi|3790255|emb|CAA21444.1| RNA polymerase II subunit 3 [Schizosaccharomyces pombe] Length = 297 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 46/271 (16%), Positives = 89/271 (32%), Gaps = 54/271 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQID----GVLHEI---------------SSIKGVHEDLT 83 + N+LRRV+++ + AI V+I+ + E V + T Sbjct: 28 VANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHRLGMIPLDSSNIDEPPPVGLEYT 87 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH--------VIC 135 K S + G + A D+ ++ + +P +IC Sbjct: 88 RNCD-CDQYCPKCSVELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPLIC 146 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT--------------IDALYSPIK 181 L + + + KG AK T DA + K Sbjct: 147 KLRKEQEISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFENDADAEWPKSK 206 Query: 182 KVSYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 + E REG+ ++ + M +++ GSI + + RILQ++L + + + Sbjct: 207 NADWE-EPPREGEPFNFQEEPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDLDE 265 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVR 268 ++ + N ++ N E+ S Sbjct: 266 EQPTQLSANELNMEEN-------AEMNWSPY 289 >gi|88604132|ref|YP_504310.1| DNA-directed RNA polymerase subunit D [Methanospirillum hungatei JF-1] gi|88189594|gb|ABD42591.1| DNA-directed RNA polymerase, subunit D [Methanospirillum hungatei JF-1] Length = 272 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 38/167 (22%), Positives = 59/167 (35%), Gaps = 14/167 (8%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG-----VLHE 71 I EEN + P FA NALRR ++S + AI V+I Sbjct: 2 KIEFSSLEENAASFVLSDAPIAFA----NALRRAMVSEVMTFAIEDVKIYDNTSALFDEI 57 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSG----DSHKRVTIFKRGPGVVTAGDIQT-VNDIE 126 ++ G+ +TD + +G +T+ GPGVV +GD+ + + Sbjct: 58 LTHRLGLIPLVTDPDSFVPRSQCSCNGAGCPRCTVTLTMSVEGPGVVMSGDLISQDAVVR 117 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 + I L+ + V +E G AK T I Sbjct: 118 PAEDNIPIVKLEKNQKVVIEAQAYMERGMEHAKWSPTTVCGYKNYPI 164 >gi|300711111|ref|YP_003736925.1| DNA-directed RNA polymerase subunit D [Halalkalicoccus jeotgali B3] gi|299124794|gb|ADJ15133.1| DNA-directed RNA polymerase subunit D [Halalkalicoccus jeotgali B3] Length = 248 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 37/244 (15%), Positives = 79/244 (32%), Gaps = 48/244 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIK 76 + + + ++ + RG N +RR +++ + +I +V+ I+ + Sbjct: 7 VEIIERDDRSARFLV----RGATPAFANGIRRAMLADVPTLSIDSVRFIENSSVMFNE-- 60 Query: 77 GVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTA---GDIQTVNDIEVLNPD 131 + L + + L D + VT+ G TA + + +E + + Sbjct: 61 -------QLALRLGLVPLSTPEDYELGEDVTLALDVEGPATAYSGDLVSSDEQVEPADRN 113 Query: 132 HVICNLDVDAVVRMEL--TVSKGH-----------GYVPAKHHRTENDPIGLITIDAL-- 176 I L + +E + G GY E D +A Sbjct: 114 VPIIELKEGQRLELEADAVLDVGREHAKHQGGVAVGYRHLVRVNIEGDREEFADEEANIV 173 Query: 177 ----------YSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASR 222 + + + + G+ L + + ++TDGS+T + V A+ Sbjct: 174 RGVVETDEGELVLTDEFDHDLTNRYPGKELRLEDVPDAFVFHVETDGSMTASELVDRAAA 233 Query: 223 ILQD 226 L D Sbjct: 234 SLGD 237 >gi|13541396|ref|NP_111084.1| DNA-directed RNA polymerase subunit D [Thermoplasma volcanium GSS1] gi|20978715|sp|Q97B93|RPOD_THEVO RecName: Full=DNA-directed RNA polymerase subunit D gi|14324779|dbj|BAB59706.1| DNA-directed RNA polymerase D [Thermoplasma volcanium GSS1] Length = 271 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 52/271 (19%), Positives = 91/271 (33%), Gaps = 61/271 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + + + + + A NALRR L++ + AI V EI +G Sbjct: 3 VKIFKLSDKYMSFEIDGITPSQA----NALRRTLINDIPKLAIENVTFH--HGEIRDAEG 56 Query: 78 VHEDLT------DIILNIKGINLKMS----------------GDSHKRVTIFKRGPGVVT 115 D + + + I LK +I K GP V Sbjct: 57 NVYDSSLPLFDEMVAHRLGLIPLKTDLSLNFRDQCSCGGKGCSLCTVTYSINKIGPASVM 116 Query: 116 AGDIQTVN--DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---------- 163 +GDIQ ++ D+ ++PD I L + + G AK T Sbjct: 117 SGDIQAISHPDLVPVDPDIPIVKLGAKQAILITAEAILGTAKEHAKWQVTSGVAYKYHRE 176 Query: 164 ---------------ENDPIGLITIDA---LYS---PIKKVSYTVESAREGQVLDYDKLS 202 E P +++ D +++ +S ES D + Sbjct: 177 FEVNKKLFEDWAKIKERCPKSVLSEDENTIVFTDDYGCNDLSILFESDGVQIKEDDSRFI 236 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFIN 233 +TDGS+T E++++ A L D+ G+ + Sbjct: 237 FHFETDGSLTAEETLSYALNRLMDRWGILVE 267 >gi|1834323|dbj|BAA09316.1| RNA polymerase II subunit 3 [Schizosaccharomyces pombe] Length = 296 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 46/271 (16%), Positives = 89/271 (32%), Gaps = 54/271 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQID----GVLHEI---------------SSIKGVHEDLT 83 + N+LRRV+++ + AI V+I+ + E V + T Sbjct: 28 VANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHRLGMIPLDSSNIDEPPPVGLEYT 87 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH--------VIC 135 K S + G + A D+ ++ + +P +IC Sbjct: 88 RNCD-CDQYCPKCSVELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPLIC 146 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT--------------IDALYSPIK 181 L + + + KG AK T DA + K Sbjct: 147 KLRKEQEISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFENDADAEWPKSK 206 Query: 182 KVSYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 + E REG+ ++ + M +++ GSI + + RILQ++L + + + Sbjct: 207 NADWE-EPPREGEPFNFQEEPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDLDE 265 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVR 268 ++ + N ++ N E+ S Sbjct: 266 EQPTQLSANELNMEEN-------AEMNWSPY 289 >gi|307594234|ref|YP_003900551.1| RNA polymerase insert [Vulcanisaeta distributa DSM 14429] gi|307549435|gb|ADN49500.1| RNA polymerase insert [Vulcanisaeta distributa DSM 14429] Length = 302 Score = 48.1 bits (113), Expect = 0.002, Method: Composition-based stats. Identities = 40/219 (18%), Positives = 75/219 (34%), Gaps = 25/219 (11%) Query: 45 NALRRVLMSSLRGAAI--------TAVQIDGVL-HEISSIKGVHEDLTDI--ILNIKGIN 93 N+LRRVL+S + AI T+V D VL H +S + + DL + I + Sbjct: 27 NSLRRVLISDVPVLAIDEVIILDNTSVLYDEVLAHRLSMMP-IKTDLRKLPKIEECEQEL 85 Query: 94 LKMSGDSHKR-VTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVSK 151 + S + + + + P +V + D++ ++ + D I L + +E Sbjct: 86 VDPSLCQVRFELNVEAKEPMIVYSRDLKSDDPEVRPVYEDIPIVKLVPGQKIVLEAYAKL 145 Query: 152 GHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 G AK + + K +E ++ I DGSI Sbjct: 146 GRARNHAKWQAGLASYYYYPKVSVVGKADDKCRVCLEVCNG---------ALEIKEDGSI 196 Query: 212 TGEDSVALA--SRILQDQLGMFINFEEPKKEVKEDINVK 248 D + +QL + + + + + Sbjct: 197 IINDVLKCTFNKWKTCEQLCPALKVDWDENKYVFWVESF 235 >gi|1834322|dbj|BAA09315.1| RNA polymerase II subunit 3 [Schizosaccharomyces pombe] Length = 296 Score = 47.7 bits (112), Expect = 0.002, Method: Composition-based stats. Identities = 46/271 (16%), Positives = 89/271 (32%), Gaps = 54/271 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQID----GVLHEI---------------SSIKGVHEDLT 83 + N+LRRV+++ + AI V+I+ + E V + T Sbjct: 28 VANSLRRVVLAEIPTVAIDLVEINVNTSVMPDEFLAHRLDMIPLDSSNIDEPPPVGLEYT 87 Query: 84 DIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH--------VIC 135 K S + G + A D+ ++ + +P +IC Sbjct: 88 RNCD-CDQYCPKCSVELFLNAKCTGEGTMEIYARDLVVSSNSSLGHPILADPKSRGPLIC 146 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT--------------IDALYSPIK 181 L + + + KG AK T DA + K Sbjct: 147 KLRKEQEISLRCIAKKGIAKEHAKWSPTSAVAFEYDPWNKLQHTDYWFENDADAEWPKSK 206 Query: 182 KVSYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEP 237 + E REG+ ++ + M +++ GSI + + RILQ++L + + + Sbjct: 207 NADWE-EPPREGEPFNFQEEPRRFYMDVESVGSIPPNEIMVQGLRILQEKLAVLVRDLDE 265 Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVR 268 ++ + N ++ N E+ S Sbjct: 266 EQPTQLSANELNMEEN-------AEMNWSPY 289 >gi|71031382|ref|XP_765333.1| DNA-directed RNA polymerase I [Theileria parva strain Muguga] gi|68352289|gb|EAN33050.1| DNA-directed RNA polymerase I, putative [Theileria parva] Length = 303 Score = 47.7 bits (112), Expect = 0.002, Method: Composition-based stats. Identities = 31/151 (20%), Positives = 57/151 (37%), Gaps = 16/151 (10%) Query: 38 GFAHTLGNALRRVLMSSLRGAAITAVQID---GV------LHEISSIK-GVHEDLTDIIL 87 G +L NALRR+L+S + A+ VQI GV H + I + DL + Sbjct: 51 GLDVSLANALRRILISEVPTLAVETVQIYQNTGVIQDELLAHRLGLIPFAIDPDLFNFKS 110 Query: 88 NIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP------DHVICNLDVDA 141 N K +++ + + + + + + + + NP D +I L Sbjct: 111 NFKTNCEEINDKNSVCFKLKVKYNKFDQSDYLSSNSLMFKDNPPKPVYDDILITKLAPGQ 170 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 + + + + KG G V +K + Sbjct: 171 EIDLNMYLEKGIGKVHSKWSPVSTAVYKFMP 201 >gi|228906867|ref|ZP_04070736.1| hypothetical protein bthur0013_10430 [Bacillus thuringiensis IBL 200] gi|228852871|gb|EEM97656.1| hypothetical protein bthur0013_10430 [Bacillus thuringiensis IBL 200] Length = 95 Score = 47.7 bits (112), Expect = 0.003, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEILKLHGMGPASLPKLRKALEERGLSF 94 >gi|269784633|ref|NP_001161428.1| DNA-directed RNA polymerase II subunit RPB3 [Danio rerio] gi|28278474|gb|AAH46047.1| Polymerase (RNA) II (DNA directed) polypeptide C [Danio rerio] gi|122890481|emb|CAM14256.1| polymerase (RNA) II (DNA directed) polypeptide C [Danio rerio] Length = 275 Score = 47.7 bits (112), Expect = 0.003, Method: Composition-based stats. Identities = 49/259 (18%), Positives = 92/259 (35%), Gaps = 57/259 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + + E +T + N++RRV MS + AI VQID Sbjct: 9 VKITELSDENVKFVIE-------NTDLAVANSIRRVFMSEVPTIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 V H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFVAHRVGLIPLTSDDIVDKMQYSRDCTCDDFCPECSVELTLDVRCTEDQTRHVTSRDLL 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDILLVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +AL YS I++ + G+ ++ +++ GS Sbjct: 182 VAFEYDPDNALRHTVYPIPQEWPKSEYSEIEEDGVQAQYDPNGKP---ERFYYNVESCGS 238 Query: 211 ITGEDSVALASRILQDQLG 229 + E V A +L+ +L Sbjct: 239 LRPETIVMSALAMLKKKLS 257 >gi|49480015|ref|YP_035379.1| hypothetical protein BT9727_1042 [Bacillus thuringiensis serovar konkukian str. 97-27] gi|49331571|gb|AAT62217.1| conserved hypothetical protein [Bacillus thuringiensis serovar konkukian str. 97-27] Length = 95 Score = 47.3 bits (111), Expect = 0.003, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEYHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|160944373|ref|ZP_02091601.1| hypothetical protein FAEPRAM212_01883 [Faecalibacterium prausnitzii M21/2] gi|158444155|gb|EDP21159.1| hypothetical protein FAEPRAM212_01883 [Faecalibacterium prausnitzii M21/2] Length = 1010 Score = 47.3 bits (111), Expect = 0.003, Method: Composition-based stats. Identities = 15/44 (34%), Positives = 23/44 (52%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 LS R+ N L NI+ + L + +E ++ M G K+L EI Sbjct: 9 TNLSTRAINILARNNILTLSQLKECSEKELRSMRGLGGKTLDEI 52 Score = 41.9 bits (97), Expect = 0.13, Method: Composition-based stats. Identities = 12/56 (21%), Positives = 25/56 (44%) Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 N ++ E+++S R + L + L++ D + AN G K++ I+ Sbjct: 85 NSLSYHQITEIDMSARGFHYLTLMGCTTIAQLVRLKREDFQKTANIGEKTIEIIEE 140 >gi|331084582|ref|ZP_08333680.1| hypothetical protein HMPREF0992_02604 [Lachnospiraceae bacterium 6_1_63FAA] gi|330400652|gb|EGG80259.1| hypothetical protein HMPREF0992_02604 [Lachnospiraceae bacterium 6_1_63FAA] Length = 917 Score = 47.3 bits (111), Expect = 0.004, Method: Composition-based stats. Identities = 19/78 (24%), Positives = 36/78 (46%), Gaps = 1/78 (1%) Query: 238 KKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ-RTEADMLRMA 296 +++ + + +EEL LSVR+ N R NI + LI+ D+ + Sbjct: 72 EEDFEITEADLIEEKDVQEDFPIEELGLSVRALNAFRRVNIHTLNSLIEFLATNDISEIK 131 Query: 297 NFGRKSLVEIKGVLGTMG 314 N G K++ E + ++ +G Sbjct: 132 NVGAKTIQETEELMRRVG 149 >gi|168184418|ref|ZP_02619082.1| bacterial RNA polymerase, alpha chain C domain superfamily [Clostridium botulinum Bf] gi|182672578|gb|EDT84539.1| bacterial RNA polymerase, alpha chain C domain superfamily [Clostridium botulinum Bf] Length = 69 Score = 46.9 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 EL LS+R+ N LR I + DL ++ + + G SL +I+ L + Sbjct: 11 ELNLSIRAYNSLRNMGINTLEDLSTYSKKQLYQFKGIGIVSLRKIEKGLDKKNMK 65 >gi|224025020|ref|ZP_03643386.1| hypothetical protein BACCOPRO_01754 [Bacteroides coprophilus DSM 18228] gi|224018256|gb|EEF76254.1| hypothetical protein BACCOPRO_01754 [Bacteroides coprophilus DSM 18228] Length = 146 Score = 46.9 bits (110), Expect = 0.004, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 26/57 (45%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 + VR + I + DL +++ ++ +KS+ I+ +LG L LGM Sbjct: 17 KQYGVRVQRIFQTNGIFTVRDLCSQSKQELRHTRYLSKKSISMIEKILGKYALRLGM 73 >gi|85082680|ref|XP_956964.1| DNA-directed RNA polymerase II 33 kDa polypeptide [Neurospora crassa OR74A] gi|7801032|emb|CAB91428.1| probable DNA-directed RNA polymerase II chain RPB3 [Neurospora crassa] gi|28918046|gb|EAA27728.1| DNA-directed RNA polymerase II 33 kDa polypeptide [Neurospora crassa OR74A] Length = 337 Score = 46.9 bits (110), Expect = 0.005, Method: Composition-based stats. Identities = 47/276 (17%), Positives = 92/276 (33%), Gaps = 45/276 (16%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + Q + R FA N+LRRV+++ + AI V+I+ Sbjct: 17 VVKISQADNTRVKFELSNTELSFA----NSLRRVMLAEIPTIAIDLVEIEANSSVLADEF 72 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVN 123 + H + I E + ++ + + + + + G V A D+ V Sbjct: 73 IAHRLGLIPLNAEGIEQLLYSRDCDCDEYCEHCSVTLNLHAKCTGDDIMQVCARDLVPVG 132 Query: 124 D-IE------VLNPDH----VICNLDVDAVVRMELTVSKGHGYVPAKHHR------TEND 166 D + ++N +I L ++++ KG +K + Sbjct: 133 DRVNQVLGSPIINDPEGQGPLILKLRHGQEIKLQCIAKKGIAKEHSKWAPSAAIGFEYDP 192 Query: 167 PIGLITIDALYSPIKKVSY-------TVESAREGQVLDYD----KLSMTIDTDGSITGED 215 L +D Y K + E +EG+ DYD + ++T G I + Sbjct: 193 HNKLHHLDLWYEQDPKKEWPPSEYADWEEPPQEGEPFDYDAVPQRFYYNVETAGPIPPDA 252 Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 V +++Q +L I+ + N P Sbjct: 253 IVTEGIKVIQQKLAGLIHELTESDGGENGYNGPRSP 288 >gi|167517689|ref|XP_001743185.1| hypothetical protein [Monosiga brevicollis MX1] gi|163778284|gb|EDQ91899.1| predicted protein [Monosiga brevicollis MX1] Length = 276 Score = 46.9 bits (110), Expect = 0.005, Method: Composition-based stats. Identities = 47/229 (20%), Positives = 79/229 (34%), Gaps = 45/229 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---VLH-EISSIK----GVHEDLTDIILNIKGINL 94 L N+ RRV+++ + AI AV I VLH E + + + + D + L Sbjct: 34 LANSFRRVMIAEVPTMAIDAVHIAKNTSVLHDEFLAHRLGLIPLTSEAADKFYYPRDCTL 93 Query: 95 KMSG--DSHKRVTIFKRGPGV----VTAGDI--QTVNDIEVLNP-----------DHVIC 135 G +T+ G VT D+ Q D + P VIC Sbjct: 94 CEMGCDHCQVMLTLDVEGHTEEPTHVTTDDLISQAAGDFMAVKPISAREESNIRNPIVIC 153 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL---------------YSPI 180 L +++ KG G AK T +AL +S + Sbjct: 154 KLAKGQRIQLTAFAKKGFGKEHAKWCPTAGIAFEYDPDNALRHTFFEVPSMWPKSEFSTL 213 Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + + E +G+ Y MT+++ G++ + A L ++L Sbjct: 214 PEGEHEAEYDYKGKPSTY---FMTVESTGALPAPLILFSALESLHEKLS 259 >gi|297831708|ref|XP_002883736.1| hypothetical protein ARALYDRAFT_899418 [Arabidopsis lyrata subsp. lyrata] gi|297329576|gb|EFH59995.1| hypothetical protein ARALYDRAFT_899418 [Arabidopsis lyrata subsp. lyrata] Length = 79 Score = 46.9 bits (110), Expect = 0.005, Method: Composition-based stats. Identities = 18/61 (29%), Positives = 34/61 (55%) Query: 201 LSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV 260 L + I T+GS+T ++++ ASR L + F++ EE ++ + + +LPF P + V Sbjct: 4 LFLEIWTNGSLTPKEALHEASRNLINLFIPFLHVEEETFYLENNQHQVTLPFFPFHNRLV 63 Query: 261 E 261 Sbjct: 64 N 64 >gi|218931178|ref|NP_001135345.1| DNA-directed RNA polymerase II subunit RPB3 [Salmo salar] gi|209734758|gb|ACI68248.1| DNA-directed RNA polymerase II subunit RPB3 [Salmo salar] gi|223647266|gb|ACN10391.1| DNA-directed RNA polymerase II subunit RPB3 [Salmo salar] gi|223673145|gb|ACN12754.1| DNA-directed RNA polymerase II subunit RPB3 [Salmo salar] Length = 275 Score = 46.5 bits (109), Expect = 0.005, Method: Composition-based stats. Identities = 46/254 (18%), Positives = 88/254 (34%), Gaps = 45/254 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + + + + E ++ N++RRV MS + AI +QID Sbjct: 8 IVKITELTDENVKFVIENTD----LSVANSIRRVFMSEVATIAIDWIQIDANSSVIHDEF 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IFKR 109 + H + I +D+ D + + ++++ + D + VT + Sbjct: 64 IAHRVGLIPLTSDDVVDKMQYSRDCTCDDFCPECSVELTLDVRCTEDQTRHVTSRDLLSN 123 Query: 110 GPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 124 HPRVIPVTSKSRDNDPNDYVEQDDILLVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVS 183 Query: 168 IGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITGED 215 +AL + K Y+ A ++ ++T GS+ E Sbjct: 184 FEYDPDNALRHTVYPRPEEWPKSEYSEIEEDEVQAPFDPNGKPERFYYNVETCGSLRPET 243 Query: 216 SVALASRILQDQLG 229 V A +L+ +L Sbjct: 244 IVMSALAVLKKKLS 257 >gi|225716034|gb|ACO13863.1| DNA-directed RNA polymerase II subunit RPB3 [Esox lucius] Length = 275 Score = 46.5 bits (109), Expect = 0.005, Method: Composition-based stats. Identities = 46/254 (18%), Positives = 88/254 (34%), Gaps = 45/254 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + + + + E ++ N++RRV MS + AI +QID Sbjct: 8 IVKITELTDENVKFVIENTD----LSVANSIRRVFMSEVATIAIDWIQIDANSSVIHDEF 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IFKR 109 + H + I +D+ D + + ++++ + D + VT + Sbjct: 64 IAHRVGLIPLTSDDVVDKMQYSRDCTCDDFCPECSVELTLDVRCTEDQTRHVTSRDLLSN 123 Query: 110 GPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 124 HPRVIPVTSKSRDNDPNDYVEQDDILLVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVS 183 Query: 168 IGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITGED 215 +AL + K Y+ A ++ ++T GS+ E Sbjct: 184 FEYDPDNALRHTVYPRPEEWPKSEYSEIEEDEVQAPFDPNGKPERFYYNVETCGSLRPET 243 Query: 216 SVALASRILQDQLG 229 V A +L+ +L Sbjct: 244 IVMSALAVLKKKLS 257 >gi|229195443|ref|ZP_04322211.1| hypothetical protein bcere0001_10120 [Bacillus cereus m1293] gi|228587983|gb|EEK46033.1| hypothetical protein bcere0001_10120 [Bacillus cereus m1293] Length = 95 Score = 46.5 bits (109), Expect = 0.005, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LSV + L I + +L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSVPARRALEHHGIHTVEELSKYSEKEVLKLHGMGPASMPKLRKALEEQGLSF 94 >gi|169834663|ref|YP_001693317.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum B1 str. Okra] gi|169835032|ref|YP_001715849.1| DNA-directed RNA polymerase subunit alpha [Clostridium botulinum A3 str. Loch Maree] gi|229587412|ref|YP_002860450.1| dna-directed rna polymerase alpha chain [Clostridium botulinum Ba4 str. 657] gi|169123211|gb|ACA47046.1| dna-directed rna polymerase alpha chain (rnap alphasubunit) (transcriptase alpha chain) (rna polymerase subunit alpha) [Clostridium botulinum B1 str. Okra] gi|169409139|gb|ACA57549.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum A3 str. Loch Maree] gi|229260347|gb|ACQ51384.1| DNA-directed RNA polymerase, alpha subunit [Clostridium botulinum Ba4 str. 657] Length = 69 Score = 46.5 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 262 ELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLF 316 EL LS+R+ N LR I + DL ++ + + G SL +I+ L + Sbjct: 11 ELNLSIRAYNSLRNMGINTLEDLSMYSKKQLYQFKGIGIVSLRKIEKGLDKKNMK 65 >gi|150401521|ref|YP_001325287.1| RNA polymerase insert [Methanococcus aeolicus Nankai-3] gi|150014224|gb|ABR56675.1| RNA polymerase insert [Methanococcus aeolicus Nankai-3] Length = 197 Score = 46.5 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 36/178 (20%), Positives = 59/178 (33%), Gaps = 19/178 (10%) Query: 29 LMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILN 88 G + +ALRR+++SS+ AI V + S + +I Sbjct: 17 KFTIG----GAPISFSSALRRIMVSSVPTYAIENVYFY--ENSSSMYDEILAHRLALIPI 70 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 + D R +I K GP V + D+++ +D V + I L + +E Sbjct: 71 TGKPVI---SDEVVRFSIMKEGPCTVYSADLESESDSMVAFDNIPIVKLKEGQKLELECE 127 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTID 206 G G + +A Y IK GQ+ D L I+ Sbjct: 128 ALVGVG----------KNHAKWQPCNASYKLIKDNEVEFSVESHGQMDSEDILISAIE 175 >gi|319641231|ref|ZP_07995930.1| hypothetical protein HMPREF9011_01527 [Bacteroides sp. 3_1_40A] gi|317387104|gb|EFV67984.1| hypothetical protein HMPREF9011_01527 [Bacteroides sp. 3_1_40A] Length = 159 Score = 46.5 bits (109), Expect = 0.006, Method: Composition-based stats. Identities = 14/57 (24%), Positives = 28/57 (49%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 ++R N +I + +L + D++ + G +S+ ++ +LG GL LGM Sbjct: 17 EPYALRIRNVCNSHDIATIRELCLHSNWDLIHFRHLGERSIAHMEEMLGNFGLRLGM 73 >gi|262384570|ref|ZP_06077704.1| predicted protein [Bacteroides sp. 2_1_33B] gi|262293863|gb|EEY81797.1| predicted protein [Bacteroides sp. 2_1_33B] Length = 193 Score = 46.1 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 4/67 (5%) Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD----MLRMANFGRKSLVEIK 307 N L V + +L R+ N LR I + DL++ T+ +L+ FG SL +K Sbjct: 112 MNVLSLSLVSDFDLDTRTINMLRKMEIYTLEDLLRYTKDKGLQVLLKYRGFGAHSLALLK 171 Query: 308 GVLGTMG 314 L G Sbjct: 172 ESLIKKG 178 >gi|218232408|ref|YP_002365927.1| hypothetical protein BCB4264_A1194 [Bacillus cereus B4264] gi|229042984|ref|ZP_04190715.1| hypothetical protein bcere0027_10400 [Bacillus cereus AH676] gi|218160365|gb|ACK60357.1| conserved domain protein [Bacillus cereus B4264] gi|228726324|gb|EEL77550.1| hypothetical protein bcere0027_10400 [Bacillus cereus AH676] Length = 95 Score = 46.1 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|228938360|ref|ZP_04100971.1| hypothetical protein bthur0008_10260 [Bacillus thuringiensis serovar berliner ATCC 10792] gi|228971239|ref|ZP_04131868.1| hypothetical protein bthur0003_10190 [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228977848|ref|ZP_04138230.1| hypothetical protein bthur0002_10550 [Bacillus thuringiensis Bt407] gi|228781866|gb|EEM30062.1| hypothetical protein bthur0002_10550 [Bacillus thuringiensis Bt407] gi|228788474|gb|EEM36424.1| hypothetical protein bthur0003_10190 [Bacillus thuringiensis serovar thuringiensis str. T01001] gi|228821306|gb|EEM67320.1| hypothetical protein bthur0008_10260 [Bacillus thuringiensis serovar berliner ATCC 10792] gi|326938869|gb|AEA14765.1| hypothetical protein CT43_CH1076 [Bacillus thuringiensis serovar chinensis CT-43] Length = 95 Score = 46.1 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|328853564|gb|EGG02702.1| hypothetical protein MELLADRAFT_72730 [Melampsora larici-populina 98AG31] Length = 359 Score = 46.1 bits (108), Expect = 0.007, Method: Composition-based stats. Identities = 43/273 (15%), Positives = 83/273 (30%), Gaps = 60/273 (21%) Query: 9 LIKPNNIE----YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 L P +I+ + + + +E + E G L N+LRR +M+ L AI +V+ Sbjct: 8 LEPPQSIDGSNLQVKVTELDERHAAFVVE----GVDLALANSLRRTIMADLTTVAIHSVE 63 Query: 65 IDG---------VLHEISSIKGVHEDLTDIILNIKG--INLKMSGDSHKRVTIFKRG--- 110 + + H + + + EDL + N + L D + + + Sbjct: 64 FEENTSVLPDEMIAHRLGLMPLMSEDLDKYLKNWQRDCTCLSFCDDCSIELVLSVKSTLP 123 Query: 111 --PGVVTAGDIQTVN--------------DIEVLNPDHV---ICNLDVDAVVRMELTVSK 151 VT+ D+ + N + I L V+++ K Sbjct: 124 GETLEVTSKDLVITPREDGGDRGDVGKPVQFTLPNGEQPGVLITKLRKGQEVKLKCRAIK 183 Query: 152 GHGYVPAKHHR------TENDPIGLITID----------ALYSPIKKVSYT---VESARE 192 G AK + L D A + K + ++ Sbjct: 184 GIAQEHAKWSAVSTIGFEYDPHNRLGHTDLWYEVGTDARAEWPLTKNAKFERPPLDDEPV 243 Query: 193 GQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 + +++ G++ ED V L Sbjct: 244 DFTTKPSRFYFDVESAGNLRPEDIVVKGIESLI 276 >gi|304314287|ref|YP_003849434.1| DNA-directed RNA polymerase, subunit D [Methanothermobacter marburgensis str. Marburg] gi|302587746|gb|ADL58121.1| DNA-directed RNA polymerase, subunit D [Methanothermobacter marburgensis str. Marburg] Length = 264 Score = 46.1 bits (108), Expect = 0.008, Method: Composition-based stats. Identities = 53/260 (20%), Positives = 87/260 (33%), Gaps = 61/260 (23%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLG--NALRRVLMSSLRGAAITAVQ--------IDG 67 I L ++ + + + T+ NA+RR+ M + AI V D Sbjct: 3 IALKEKTDTEMVFVVT------GVTVPFINAIRRICMMEVPKLAIEYVNMYRNDARMFDE 56 Query: 68 VL-HEISSIKGVHEDLTDIILNIK---GINLKMS-GDSHKRVTIFKRGPGVVTAGD-IQT 121 VL H + + + D + I +K + + + T+ K+GPGVV + D + Sbjct: 57 VLAHRLGLVP-LKAD-PEFIEGLKMPEECDCEEYCSECSVSFTLKKKGPGVVYSRDLLSE 114 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT--------- 172 +E + PD + L + V +E G G AK T Sbjct: 115 TPAVEPVYPDIPLVKLGDEDEVELEAVAQLGVGRDHAKWEPTTACAYKYYPMITFTEECD 174 Query: 173 -----IDA-------------------LYSPIKKV--SYTVESAREGQVLDYDKLSMTID 206 +DA S K + + G K I+ Sbjct: 175 ECLECVDACPRGVLGDESGKPEVLDVENCSMCKSCVRACDKGAIIVGYEE--GKFIFRIE 232 Query: 207 TDGSITGEDSVALASRILQD 226 TDGS+ +D + A IL+D Sbjct: 233 TDGSVDPQDVLLKACDILRD 252 >gi|229143848|ref|ZP_04272267.1| hypothetical protein bcere0012_10130 [Bacillus cereus BDRD-ST24] gi|296501841|ref|YP_003663541.1| hypothetical protein BMB171_C1005 [Bacillus thuringiensis BMB171] gi|228639609|gb|EEK96020.1| hypothetical protein bcere0012_10130 [Bacillus cereus BDRD-ST24] gi|296322893|gb|ADH05821.1| hypothetical protein BMB171_C1005 [Bacillus thuringiensis BMB171] Length = 95 Score = 46.1 bits (108), Expect = 0.008, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 26/53 (49%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ VL GL Sbjct: 42 LSAPARRALEHRGIQTVEELSKYSEKEILKLHGMGPASLPKLRKVLEESGLSF 94 >gi|206968409|ref|ZP_03229365.1| conserved domain protein [Bacillus cereus AH1134] gi|228951607|ref|ZP_04113711.1| hypothetical protein bthur0006_10240 [Bacillus thuringiensis serovar kurstaki str. T03a001] gi|229068797|ref|ZP_04202093.1| hypothetical protein bcere0025_10070 [Bacillus cereus F65185] gi|229078430|ref|ZP_04210991.1| hypothetical protein bcere0023_10990 [Bacillus cereus Rock4-2] gi|229177657|ref|ZP_04305034.1| hypothetical protein bcere0005_10240 [Bacillus cereus 172560W] gi|206737329|gb|EDZ54476.1| conserved domain protein [Bacillus cereus AH1134] gi|228605847|gb|EEK63291.1| hypothetical protein bcere0005_10240 [Bacillus cereus 172560W] gi|228704852|gb|EEL57277.1| hypothetical protein bcere0023_10990 [Bacillus cereus Rock4-2] gi|228714305|gb|EEL66184.1| hypothetical protein bcere0025_10070 [Bacillus cereus F65185] gi|228808068|gb|EEM54583.1| hypothetical protein bthur0006_10240 [Bacillus thuringiensis serovar kurstaki str. T03a001] Length = 95 Score = 46.1 bits (108), Expect = 0.008, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEILKLHGMGPASLPKLRRALEESGLSF 94 >gi|228957512|ref|ZP_04119264.1| hypothetical protein bthur0005_10310 [Bacillus thuringiensis serovar pakistani str. T13001] gi|228802104|gb|EEM48969.1| hypothetical protein bthur0005_10310 [Bacillus thuringiensis serovar pakistani str. T13001] Length = 95 Score = 45.7 bits (107), Expect = 0.009, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEQRGIQTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|226287322|gb|EEH42835.1| DNA-directed RNA polymerases I and III subunit RPAC1 [Paracoccidioides brasiliensis Pb18] Length = 380 Score = 45.7 bits (107), Expect = 0.010, Method: Composition-based stats. Identities = 37/193 (19%), Positives = 61/193 (31%), Gaps = 53/193 (27%) Query: 33 EPLPRGFAH-----TLGNALRRVLMSSLRGAAITAVQIDG----VLHEI----------- 72 EP F+ ++ NA RR+L+S + AI V I + E+ Sbjct: 60 EPYEASFSLIGVDASIANAFRRILISEIPSLAIETVYIHNNTSVIQDEVLAHRLGLVPLT 119 Query: 73 SSIKGVH-------------------EDLTDIILNIK-------------GINLKMSGDS 100 S +G++ D I+L++ LK+ + Sbjct: 120 GSPEGINWLRWFRQPNEGDPSSGSELADYNTIVLHLNVECKKNPKASPDEQDPLKLYSHA 179 Query: 101 HKRVT-IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 H I + G A + I NPD ++ L + +E+ KG G AK Sbjct: 180 HVYAKDITFQPVGRQEAYFPEPDGGIRPTNPDILLAKLRPGQKIDIEMHCVKGIGADHAK 239 Query: 160 HHRTENDPIGLIT 172 L+ Sbjct: 240 FSPVATASYRLLP 252 >gi|257388632|ref|YP_003178405.1| RNA polymerase insert [Halomicrobium mukohataei DSM 12286] gi|257170939|gb|ACV48698.1| RNA polymerase insert [Halomicrobium mukohataei DSM 12286] Length = 259 Score = 45.7 bits (107), Expect = 0.010, Method: Composition-based stats. Identities = 32/249 (12%), Positives = 79/249 (31%), Gaps = 49/249 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIK 76 + + + + RG + N +RR +++ + ++ V+ I+ Sbjct: 7 VEFVERSDREARFLV----RGISPAFANGIRRAMIADVPTFSVDTVRVIENSSVMFDEQI 62 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVIC 135 G+ L + ++ + ++I GP +GD+ + + + + + I Sbjct: 63 GLRLGLVPLTTDLDDFEV----GDEVTLSIDVSGPETAYSGDLVSSDSLVGPADDNIPII 118 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHH--------------------RTENDPIGLI---- 171 +L + +E G AKH E+D ++ Sbjct: 119 DLKDGQRLEVEADAVLDRGREHAKHQGGVAVGYRHLQRVEVVGDKGEFEDDETHILRGVI 178 Query: 172 -----------TIDALYSPIKKVSYTVESAREGQVLD----YDKLSMTIDTDGSITGEDS 216 D ++ + G+ L+ + ++TDGS++ E+ Sbjct: 179 EEQAAEHVDGDADDGDLVLTEEFDSDLTKRYPGKELEVHDVENAFVFHVETDGSLSVEEL 238 Query: 217 VALASRILQ 225 A ++ Sbjct: 239 TLRAVDSIR 247 >gi|242093528|ref|XP_002437254.1| hypothetical protein SORBIDRAFT_10g023655 [Sorghum bicolor] gi|241915477|gb|EER88621.1| hypothetical protein SORBIDRAFT_10g023655 [Sorghum bicolor] Length = 66 Score = 45.7 bits (107), Expect = 0.011, Method: Composition-based stats. Identities = 17/60 (28%), Positives = 29/60 (48%) Query: 202 SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVE 261 + I T+GS+T ++++ SR L D FI+ EE +E+ N + PF + Sbjct: 7 FLEIWTNGSLTPKEALYETSRNLIDLFLPFIHTEEEGTNFEENKNRLTPPFLTFQKRFTN 66 >gi|254167082|ref|ZP_04873935.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Aciduliprofundum boonei T469] gi|197623938|gb|EDY36500.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Aciduliprofundum boonei T469] Length = 273 Score = 45.7 bits (107), Expect = 0.011, Method: Composition-based stats. Identities = 44/271 (16%), Positives = 86/271 (31%), Gaps = 62/271 (22%) Query: 20 LGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI--------DGVL 69 + + ++ + T + NALRR L++ + AI V +G + Sbjct: 5 ILEVQDRYIKFEIK------GITPSVANALRRTLINDIPKLAIHKVIFHHGQIRDMEGNV 58 Query: 70 HEISS--IKGVHEDLTDIILNIKGINLKMSGDSHKRV-----------TIFKRGPGVVTA 116 ++ S+ + +I +N+K + T+ K GP V + Sbjct: 59 YDSSTPLFDEIIAHRLGLIPLPTDLNMKFRDECDHPPDEGCPLCTVTYTLNKHGPATVYS 118 Query: 117 GDIQTVND--IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------------- 161 GD+ V D + ++P I L + +E G AK Sbjct: 119 GDLIPVGDEKFKPVDPLIPIVKLKEHQAILLEAEAIMGTAKEHAKWQVTSGVSYKYHREI 178 Query: 162 ------------RTENDPIGLITIDALY------SPIKKVSYTVESAREGQVLDYDKLSM 203 ++ P +I D + P K+++ + D Sbjct: 179 KVNKKDSELWEKVKKSCPKNVIKEDDKFIIFTDDMPCKEIAEILSFENPEITEDDSWFIF 238 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINF 234 +TDGS+ D++ A + L+ + Sbjct: 239 EFETDGSLKAIDTLEYAIKRLKTRFNTLREH 269 >gi|303389576|ref|XP_003073020.1| DNA-directed RNA polymerase II subunit Rpb3 [Encephalitozoon intestinalis ATCC 50506] gi|303302164|gb|ADM11660.1| DNA-directed RNA polymerase II subunit Rpb3 [Encephalitozoon intestinalis ATCC 50506] Length = 240 Score = 45.4 bits (106), Expect = 0.011, Method: Composition-based stats. Identities = 36/190 (18%), Positives = 60/190 (31%), Gaps = 23/190 (12%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + + R G+A NALRR+L+S + AI V+I+ + Sbjct: 4 LSIEELTPERIRFTLSNTTVGYA----NALRRILISEVPTIAIDMVEIERNNTVL--PDE 57 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVT---------IFKRGPG----VVTAGDIQTVND 124 V +I LK + I VV+ DI + Sbjct: 58 VLAHRLGLIPVYSKRELKYKDECSCSGFCSECSVVFEIDVVHTEDALRVVSTRDIICDEE 117 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 V+ +I L D ++ KG G AK +A ++ + Sbjct: 118 DVVVKSGPIITKLARDQGLKARCIGRKGIGRTHAKWSPVSAISFEYDKDNAR----RETN 173 Query: 185 YTVESAREGQ 194 Y E + E + Sbjct: 174 YWFEESIEEE 183 >gi|196037707|ref|ZP_03105018.1| conserved domain protein [Bacillus cereus NVH0597-99] gi|196044418|ref|ZP_03111654.1| conserved domain protein [Bacillus cereus 03BB108] gi|225863094|ref|YP_002748472.1| hypothetical protein BCA_1183 [Bacillus cereus 03BB102] gi|229183445|ref|ZP_04310670.1| hypothetical protein bcere0004_10180 [Bacillus cereus BGSC 6E1] gi|301052779|ref|YP_003790990.1| hypothetical protein BACI_c11710 [Bacillus anthracis CI] gi|196025057|gb|EDX63728.1| conserved domain protein [Bacillus cereus 03BB108] gi|196031949|gb|EDX70545.1| conserved domain protein [Bacillus cereus NVH0597-99] gi|225786045|gb|ACO26262.1| conserved domain protein [Bacillus cereus 03BB102] gi|228600029|gb|EEK57624.1| hypothetical protein bcere0004_10180 [Bacillus cereus BGSC 6E1] gi|300374948|gb|ADK03852.1| conserved hypothetical protein [Bacillus cereus biovar anthracis str. CI] Length = 95 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHNVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|15790216|ref|NP_280040.1| DNA-directed RNA polymerase II [Halobacterium sp. NRC-1] gi|169235945|ref|YP_001689145.1| DNA-directed RNA polymerase subunit D [Halobacterium salinarum R1] gi|13124517|sp|Q9HQJ4|RPOD_HALSA RecName: Full=DNA-directed RNA polymerase subunit D gi|229564264|sp|B0R4Y2|RPOD_HALS3 RecName: Full=DNA-directed RNA polymerase subunit D gi|10580674|gb|AAG19520.1| DNA-directed RNA polymerase II [Halobacterium sp. NRC-1] gi|167727011|emb|CAP13797.1| DNA-directed RNA polymerase subunit D [Halobacterium salinarum R1] Length = 248 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 41/243 (16%), Positives = 81/243 (33%), Gaps = 47/243 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + ++ + + FA N +RR ++ + +I V+ + Sbjct: 8 VEFVDRDDREARFVVRNITPAFA----NGIRRAILVDVPTLSIDTVRFVENSSVMFDEQL 63 Query: 77 GVHEDLTDIILNIKGINLKMSGDS----HKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPD 131 G+ + + L D + + GPG +GD+ ++E + + Sbjct: 64 GLR---------LGLVPLTTPEDYAAGEAVTLALDVEGPGTAYSGDLVSNDPEVEAADEN 114 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHH---------------------RTENDPI-- 168 I L D + +E GHG AKH ++DP Sbjct: 115 IPIIELKDDQRLELEADAVMGHGRDHAKHQGGVAVGYRHLQRVHVVGDSPEYADDDPQML 174 Query: 169 -GLITIDALYSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASRI 223 G+I D P + + G+ ++ + + +++DGS+ E+ V A Sbjct: 175 RGVIEEDDELVPTDDFDNDLTTRYPGKEVEIEDVDGAFVFHVESDGSMPVEELVLRAVDT 234 Query: 224 LQD 226 L D Sbjct: 235 LVD 237 >gi|169836384|ref|ZP_02869572.1| DNA-directed RNA polymerase alpha chain [candidate division TM7 single-cell isolate TM7a] Length = 74 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 3/71 (4%) Query: 117 GDIQTVNDIEVLNPDHVICNLDVD-AVVRMELTVSKGHGYVPAKHHRTE--NDPIGLITI 173 GDIQ+ D+E++NP+ VIC +D A ++L + G GY+ + +I + Sbjct: 1 GDIQSHADVEIINPEQVICTVDDPSAKAVIDLVIDSGRGYLSIEDSSETRLTISRSIIAL 60 Query: 174 DALYSPIKKVS 184 DA SP+ +V+ Sbjct: 61 DASISPVIRVT 71 >gi|118476727|ref|YP_893878.1| hypothetical protein BALH_1007 [Bacillus thuringiensis str. Al Hakam] gi|118415952|gb|ABK84371.1| conserved hypothetical protein [Bacillus thuringiensis str. Al Hakam] Length = 97 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 44 LSAPARRALEHHGIHNVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 96 >gi|219852957|ref|YP_002467389.1| DNA-directed RNA polymerase subunit D [Methanosphaerula palustris E1-9c] gi|219547216|gb|ACL17666.1| RNA polymerase insert [Methanosphaerula palustris E1-9c] Length = 273 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 33/192 (17%), Positives = 61/192 (31%), Gaps = 21/192 (10%) Query: 45 NALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILNIKGINLKMS------ 97 NA+RR + S + AI ++I D + L + N + + Sbjct: 26 NAIRRAMCSEVPKLAIEDIKIYDNTSALFDEMLAHRIGLVPLKTN-SDLYVSADRCTCEG 84 Query: 98 ---GDSHKRVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 T+ GPG+V + D+ + ++ I L+ V +E Sbjct: 85 AGCDRCSTMYTLSVEGPGMVYSRDLIPSDPEAVPVDEKIPIVKLEKGQKVVIEARAEMNL 144 Query: 154 GYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 G V AK T N + + + V+ D L + G +T Sbjct: 145 GKVHAKWQPTINCGYKNYPVITVETHCDACGTCVDQCP------RDVLVLK---GGVLTV 195 Query: 214 EDSVALASRILQ 225 E+ + + + Sbjct: 196 EEGKLESCSLCK 207 >gi|261403745|ref|YP_003247969.1| RNA polymerase insert [Methanocaldococcus vulcanius M7] gi|261370738|gb|ACX73487.1| RNA polymerase insert [Methanocaldococcus vulcanius M7] Length = 191 Score = 45.4 bits (106), Expect = 0.012, Method: Composition-based stats. Identities = 44/197 (22%), Positives = 79/197 (40%), Gaps = 34/197 (17%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 NA+RR+++S + AI V I + + +++ L + I K D+ Sbjct: 28 NAIRRIMISEVPTFAIEDVYI------YENSSSMDDEILAHRLGLIPIKGKPLLDTEIIT 81 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 T+ K GP V + D+++ N EV + I L +++E G G V AK Sbjct: 82 FTLEKEGPCTVYSSDLKSENG-EVAFKNIPIVKLGKGQRIKIECEAVPGIGKVHAKWQ-- 138 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 +A+Y + L D++ ++T G I E + A +I Sbjct: 139 --------PCNAVY----------------KQLSEDEVEFFVETFGQIDAEQILKEAVKI 174 Query: 224 LQDQLGMFINFEEPKKE 240 L+D+ F+ E ++ Sbjct: 175 LRDKADSFLQQLETIEQ 191 >gi|229108700|ref|ZP_04238310.1| hypothetical protein bcere0018_9810 [Bacillus cereus Rock1-15] gi|228674730|gb|EEL29964.1| hypothetical protein bcere0018_9810 [Bacillus cereus Rock1-15] Length = 95 Score = 45.4 bits (106), Expect = 0.013, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHRGIQTVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|229149445|ref|ZP_04277681.1| hypothetical protein bcere0011_10070 [Bacillus cereus m1550] gi|228634087|gb|EEK90680.1| hypothetical protein bcere0011_10070 [Bacillus cereus m1550] Length = 95 Score = 45.4 bits (106), Expect = 0.013, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEILKLHGMGHASLPKLRRALEESGLSF 94 >gi|84489668|ref|YP_447900.1| DNA-directed RNA polymerase subunit D [Methanosphaera stadtmanae DSM 3091] gi|121731854|sp|Q2NFZ6|RPOD_METST RecName: Full=DNA-directed RNA polymerase subunit D gi|84372987|gb|ABC57257.1| RpoD [Methanosphaera stadtmanae DSM 3091] Length = 270 Score = 45.4 bits (106), Expect = 0.014, Method: Composition-based stats. Identities = 45/272 (16%), Positives = 83/272 (30%), Gaps = 54/272 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 I + ++++ R + + E G T N +RR+ + + AI V I + Sbjct: 3 IEIREKDDERAVFVVE----GVDDTFINTIRRICLVEIPTLAIEDVNIYKNDAKMFDEVL 58 Query: 77 GVHEDLTDIILNIKGINLKMSGDSH---KRVTIFK---------RGPGVVTAGDIQ-TVN 123 L I+ ++ + D + + +V + D++ Sbjct: 59 AHRLGLIPIVTDLDSYVMPSECDCESGCQHCRVSFLLKEKCEEGNDSKIVYSKDLKSDDP 118 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT---IDA----- 175 ++ + I L V +E G G AK T ID Sbjct: 119 AVKPVYDTIPIVRLREGEEVELEAIAELGLGSEHAKWQATTTCGYKYYPKIEIDTEKVND 178 Query: 176 --------------------------LYSPIKKVSYTVESAREGQVLDYD--KLSMTIDT 207 S + E V+D++ K I+T Sbjct: 179 LEEYVEECPRNVLQIEDDTLVVGNIENCSTCRTCQRLSEKDDNAIVVDFEESKYIFKIET 238 Query: 208 DGSITGEDSVALASRILQDQLGMFINFEEPKK 239 DGS+ D + +A IL ++ INF ++ Sbjct: 239 DGSLKPFDVLTIACDILSEKADNIINFVNEEE 270 >gi|320166369|gb|EFW43268.1| polymerase II polypeptide C [Capsaspora owczarzaki ATCC 30864] Length = 270 Score = 45.4 bits (106), Expect = 0.014, Method: Composition-based stats. Identities = 48/269 (17%), Positives = 90/269 (33%), Gaps = 40/269 (14%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID---GVLH-EI 72 + + + + + ++ N+LRRV ++ + AI VQ D VLH E Sbjct: 8 VVQILELTPDNVRFVLSKTE----LSVANSLRRVCIAEVPTMAIDLVQFDENSSVLHDEF 63 Query: 73 SSIK----GVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 + + + + + + +T+ GP V A D+++ ++ Sbjct: 64 VAHRLGLLPLASETAGEFDYLAECDCDGGCNRCTVSLTLEAEGPCSVVARDLRSSDE--S 121 Query: 128 LNP------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-----ENDPIGL 170 + P D V+ L +++ KG G AK + T E DP Sbjct: 122 VVPISQRDASGSEQHDVVLVKLGAGQRIKLTAIAKKGIGKEHAKWNPTCGVSMEYDPDNK 181 Query: 171 ITIDALYSPIKKVSYTVESAREGQ-------VLDYDKLSMTIDTDGSITGEDSVALASRI 223 + Y P + GQ DK + ++ G I D V A + Sbjct: 182 LRHTTYYDPQNWPQSHLSELPAGQCEAPFDINAKADKFWLNVEASGVIPPADIVLNAISV 241 Query: 224 LQDQLG-MFINFEEPKKEVKEDINVKSLP 251 L+ +L + F + + + P Sbjct: 242 LKQKLKTLADAFSTEVSQQSDWTQPQHQP 270 >gi|325187132|emb|CCA21673.1| DNAdirected RNA polymerase I and III subunit RPAC1 p [Albugo laibachii Nc14] Length = 343 Score = 45.4 bits (106), Expect = 0.015, Method: Composition-based stats. Identities = 36/190 (18%), Positives = 61/190 (32%), Gaps = 38/190 (20%) Query: 14 NIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-------- 65 I+ L +E L+ +P ++ NALRR+L+S + AI V I Sbjct: 42 QIQIKHLDDQEMEFDLIGVDP-------SIANALRRILLSEVPTMAIEHVYIWNNSSIIQ 94 Query: 66 -DGVLH------------EISSIKGVHEDLTDIILNIK-GINLKMSGDSHKRVTIFKRGP 111 + + H E E I +++ D ++ K Sbjct: 95 DEVLAHRLGLIPLLVDPREFQHFPEDEEAEATDENTIVFKLDVTCRSDPNEPENSSKASH 154 Query: 112 GVVTAGDIQTVND---------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR 162 V + D++ V I ++ D +I L + +E KG G AK Sbjct: 155 SSVYSRDLEWVPQGNQEERFTSIRPVSEDILIAKLRPGQSIALEAHCRKGIGRDHAKFSP 214 Query: 163 TENDPIGLIT 172 L+ Sbjct: 215 VSTASYRLLP 224 >gi|229090185|ref|ZP_04221433.1| hypothetical protein bcere0021_10170 [Bacillus cereus Rock3-42] gi|228693121|gb|EEL46834.1| hypothetical protein bcere0021_10170 [Bacillus cereus Rock3-42] Length = 95 Score = 45.0 bits (105), Expect = 0.016, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIHNVEELSKYSEKEILKLHGMGPASLPKLRKALEESGLSF 94 >gi|322369534|ref|ZP_08044099.1| DNA-directed RNA polymerase subunit D [Haladaptatus paucihalophilus DX253] gi|320551266|gb|EFW92915.1| DNA-directed RNA polymerase subunit D [Haladaptatus paucihalophilus DX253] Length = 248 Score = 45.0 bits (105), Expect = 0.016, Method: Composition-based stats. Identities = 38/239 (15%), Positives = 81/239 (33%), Gaps = 38/239 (15%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIK 76 + E + + + FA N +RR +++ + +I ++ I+ Sbjct: 7 VEFIDRGERKARFLVRNVTPAFA----NGIRRAMIADVPTLSIDTLRVIENSSVMFDEQI 62 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND-IEVLNPDHVIC 135 G+ L + +++ GPG +GD+ + ++ ++ + + I Sbjct: 63 GLRLGLVPLTTPPGE----FEEGDTVTLSLDVSGPGTAFSGDLISSDEMVQPADDNIPII 118 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRT---------------------ENDPI---GLI 171 +L + +E G G AKH E +P G I Sbjct: 119 DLKEGQRLELEADAVLGSGKDHAKHQGGVAVGYRHLQRVEVVGDRDEFGEEEPRILRGTI 178 Query: 172 TIDALYSPIKKVSYTVESAREGQVLD----YDKLSMTIDTDGSITGEDSVALASRILQD 226 D P + + + G+ ++ + +++DGS T E+ V A L + Sbjct: 179 EDDGELVPTETFDHDLSQRFPGKEVEVHDVPNAFVFDVESDGSFTVEELVTQAVDSLTE 237 >gi|302908578|ref|XP_003049900.1| predicted protein [Nectria haematococca mpVI 77-13-4] gi|256730836|gb|EEU44187.1| predicted protein [Nectria haematococca mpVI 77-13-4] Length = 335 Score = 45.0 bits (105), Expect = 0.016, Method: Composition-based stats. Identities = 40/227 (17%), Positives = 76/227 (33%), Gaps = 44/227 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGIN 93 NALRRV+ + + AI V+I + + H + I + + N + + Sbjct: 38 FANALRRVIQAEVPTIAIDLVEIEINSSVLADEFIAHRLGLIP-LDSKGVGELNNSRDCD 96 Query: 94 LKMSGD-SHKRVTIFKRGP----GVVTAGDIQTVNDI-------EVLNPDHV---ICNLD 138 + + + + + V A D+ + +P+ I L Sbjct: 97 CEQYCEQCSVTLNLHAKCTSDEIMKVYARDLVVDGRHANSVGSPVITDPEGYGCLIAKLR 156 Query: 139 VDAVVRMELTVSKGHGYVPAKHHR------TENDPIGLITIDALYS---------PIKKV 183 D +++ KG AK + L +D + P K Sbjct: 157 KDQELKITCIAKKGIAKEHAKWMPTSAVGFEYDPHNKLHHLDMWFENDTDPEVEWPKSKY 216 Query: 184 SYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQD 226 + + +EG+ DYD + ++T GS+ + V R+LQ Sbjct: 217 AQWEDPPQEGEPFDYDAVPNRFYFEVETSGSMEPDQIVQSGIRVLQQ 263 >gi|168697904|ref|ZP_02730181.1| protein kinase [Gemmata obscuriglobus UQM 2246] Length = 1390 Score = 45.0 bits (105), Expect = 0.017, Method: Composition-based stats. Identities = 22/106 (20%), Positives = 41/106 (38%) Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNC 272 + A +L+ F P + +++ V EL L R+TN Sbjct: 756 ARERHDNADEMLRAWRDCFAAIGPPDAGELNEEELRARLEGATFDSSVHELGLGTRATNA 815 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L N++ + D++ + +LR+ G K+ EI + + LG Sbjct: 816 LDRANMLTVEDMLSVSMRRLLRLRGVGNKTRREIASAVKILRARLG 861 >gi|19074310|ref|NP_585816.1| DNA-DIRECTED RNA POLYMERASE II THIRD CHAIN [Encephalitozoon cuniculi GB-M1] gi|19068952|emb|CAD25420.1| DNA-DIRECTED RNA POLYMERASE II THIRD CHAIN [Encephalitozoon cuniculi GB-M1] Length = 240 Score = 45.0 bits (105), Expect = 0.017, Method: Composition-based stats. Identities = 30/156 (19%), Positives = 48/156 (30%), Gaps = 19/156 (12%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + + G+A NALRR+L+S + AI V+I+ + Sbjct: 4 LTVEELTPEHIRFTLSNTTVGYA----NALRRILISEVPTIAIDMVEIERNNTVL--PDE 57 Query: 78 VHEDLTDIILNIKGINLKMSGDSHKRVT---------IFKRGPG----VVTAGDIQTVND 124 V +I LK + I V+ DI + Sbjct: 58 VLAHRLGLIPIYSKRELKYKEECSCSGFCSECSVVFEIDVVHTDDTLRTVSTRDIVCDEE 117 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 ++ VI L D ++ KG G AK Sbjct: 118 DVIIKSGPVITKLARDQGLKARCIGRKGVGKTHAKW 153 >gi|257076683|ref|ZP_05571044.1| DNA-directed RNA polymerase subunit D [Ferroplasma acidarmanus fer1] Length = 269 Score = 45.0 bits (105), Expect = 0.017, Method: Composition-based stats. Identities = 45/270 (16%), Positives = 88/270 (32%), Gaps = 61/270 (22%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAV-----QI---DGV 68 + + ++N + T + N++RR L++ + AI V +I DG Sbjct: 2 KILELKDNFIRFSID------GITPAIANSIRRTLINDIPKLAIENVIYHHGEIRDADGN 55 Query: 69 LHEISS--IKGVHEDLTDIILNIKGINLKMSGDSHKRV----------TIFKRGPGVVTA 116 +++ S + +I +++ + +I K GPG+V + Sbjct: 56 VYDSSLPLFDEILASRIGLIPLKTDLSMNFRDECSCGGKGCDLCTVTYSINKLGPGMVYS 115 Query: 117 GDI--QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGL---- 170 DI ++ V +P I L + + + G G AK T Sbjct: 116 SDIMPVNNPELTVTDPLIPIVELKKNQAMLVTCEAILGRGKEHAKWQATSGVSYKYHRNF 175 Query: 171 ----ITIDA--------------------LYS---PIKKVSYTVESAREGQVLDYDKLSM 203 +D L++ P +S +E D K Sbjct: 176 HVNKAALDNWQFYKDTCPKSVLSENDTTILFTDDIPCSYLSQLMERDGVVVEEDSTKFIF 235 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFIN 233 +TDGS+ D ++ A L+++ + Sbjct: 236 KFETDGSLKASDVLSYALHRLENRFTALME 265 >gi|291390190|ref|XP_002711589.1| PREDICTED: DNA directed RNA polymerase II polypeptide C [Oryctolagus cuniculus] Length = 275 Score = 45.0 bits (105), Expect = 0.017, Method: Composition-based stats. Identities = 48/256 (18%), Positives = 90/256 (35%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + N + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKLQNSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|225677934|gb|EEH16218.1| DNA-directed RNA polymerases I and III subunit RPAC1 [Paracoccidioides brasiliensis Pb03] Length = 345 Score = 45.0 bits (105), Expect = 0.017, Method: Composition-based stats. Identities = 37/215 (17%), Positives = 64/215 (29%), Gaps = 54/215 (25%) Query: 12 PNNIEYIVLGQEEENRTLMIA-EPLPRGFAH-----TLGNALRRVLMSSLRGAAITAVQI 65 P + + EP F+ ++ NA RR+L++ + AI V I Sbjct: 3 PRIASLEEINDRKNLIVTFHKNEPYEASFSLIGVDASIANAFRRILIAEIPSLAIETVYI 62 Query: 66 DG----VLHEI-----------SSIKGVH-------------------EDLTDIILNIK- 90 + E+ S +G++ D I+L++ Sbjct: 63 HNNTSVIQDEVLAHRLGLVPLTGSPEGINWLRWFRQPNEGDPSSGSELADYNTIVLHLNV 122 Query: 91 ------------GINLKMSGDSHKRVT-IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNL 137 LK+ +H I + G A + I NPD ++ L Sbjct: 123 KCKKNPKASPDEQDPLKLYSHAHVYAKDITFQPVGRQEAYFPEPDGGIRPTNPDILLAKL 182 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 + +E+ KG G AK L+ Sbjct: 183 RPGQKIDIEMHCVKGIGADHAKFSPVATASYRLLP 217 >gi|325103580|ref|YP_004273234.1| hypothetical protein Pedsa_0840 [Pedobacter saltans DSM 12145] gi|324972428|gb|ADY51412.1| hypothetical protein Pedsa_0840 [Pedobacter saltans DSM 12145] Length = 93 Score = 45.0 bits (105), Expect = 0.018, Method: Composition-based stats. Identities = 12/56 (21%), Positives = 27/56 (48%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++L+ + L I + L +E ++L++ G+ ++ ++K L T GL Sbjct: 37 IQLAAPARRALENAGIDTLNKLSLYSEKEILKLHGIGKTAIPKLKEALLTKGLTFN 92 >gi|209730678|gb|ACI66208.1| DNA-directed RNA polymerase II subunit RPB3 [Salmo salar] Length = 275 Score = 45.0 bits (105), Expect = 0.018, Method: Composition-based stats. Identities = 46/254 (18%), Positives = 85/254 (33%), Gaps = 45/254 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + + + + E ++ N++RRV MS + AI +QID Sbjct: 8 IVKITELTDENVKFVIENTD----LSVANSIRRVFMSEVATIAIDWIQIDANSSVIHDEF 63 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINL---------------KMSGDSHKRVT---IFKR 109 + H + I +D+ D + + + + D + VT + Sbjct: 64 IAHRVGLIPLTSDDVVDKMQYSRDCTCDDFCPECSVELTLDARCTEDQTRHVTSRDLLSN 123 Query: 110 GPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 124 HPRVIPVTSKSRDNDPNDYVEQDDILLVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVS 183 Query: 168 IGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITGED 215 +AL + K Y+ A ++ ++T GS+ E Sbjct: 184 FEYDPDNALRHTVYPRPEEWPKSEYSEIEEDEVQAPFDPNGKPERFYYNVETCGSLRPET 243 Query: 216 SVALASRILQDQLG 229 V A +L+ +L Sbjct: 244 IVMSALAVLKKKLS 257 >gi|6172230|dbj|BAA85898.1| RNA-polymerase D [Halobacterium salinarum] Length = 249 Score = 45.0 bits (105), Expect = 0.018, Method: Composition-based stats. Identities = 41/244 (16%), Positives = 80/244 (32%), Gaps = 48/244 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + ++ + + FA N +RR ++ + +I V+ + Sbjct: 8 VEFVDRDDREARFVVRNITPAFA----NGIRRAILVDVPTLSIDTVRFVENSSVMFDEQL 63 Query: 77 GVHEDLTDIILNIKGINLKMSGDSH---KRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDH 132 G+ + + L D + + GPG GD+ ++E + + Sbjct: 64 GLR---------LGLVPLTTPEDYPAGEVTLALDVEGPGTAYPGDLVSNDPEVEAADENI 114 Query: 133 VICNLDVDAVVRMELTVSKGHGYVPAKHH-----------------------RTENDPI- 168 I L D + +E GHG AKH ++DP Sbjct: 115 PIIELKDDQRLELEADAVDGHGRDHAKHQGGVAVGYRHLQLQRVHVVGDSPEYADDDPQM 174 Query: 169 --GLITIDALYSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASR 222 G+I D P + + G+ ++ + + +++DGS+ E+ V A Sbjct: 175 LRGVIEEDDELVPTDDFDNDLTTRYPGKEVEIEDVDGAFVFHVESDGSMPVEELVLRAVD 234 Query: 223 ILQD 226 L D Sbjct: 235 TLVD 238 >gi|48478294|ref|YP_024000.1| DNA-directed RNA polymerase subunit D [Picrophilus torridus DSM 9790] gi|55976419|sp|Q6KZP5|RPOD_PICTO RecName: Full=DNA-directed RNA polymerase subunit D gi|48430942|gb|AAT43807.1| DNA-directed RNA polymerase subunit D [Picrophilus torridus DSM 9790] Length = 271 Score = 45.0 bits (105), Expect = 0.019, Method: Composition-based stats. Identities = 40/267 (14%), Positives = 88/267 (32%), Gaps = 64/267 (23%) Query: 20 LGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI--------DGVL 69 + + ++N T + N++RR L++ + AI V +G + Sbjct: 4 IIELKDNYIKFSIS------GITPAIANSIRRTLINDIPKLAIENVVFHHGEIRDSEGNV 57 Query: 70 HE-----ISSIKGVHEDLTDIILNIKGINLKMSGD--------SHKRVTIFKRGPGVVTA 116 ++ + + L + ++K +N + + +I K GP V + Sbjct: 58 YDSSLPLFDEVVALRLGLIPLKTDLK-MNFRDQCSCNGEGCDLCTVKYSINKLGPADVFS 116 Query: 117 GDIQT--VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------------- 161 D+ D++ ++P I L + + G G AK Sbjct: 117 SDLIPINNPDLKPVDPMIPIVKLKKGQAMLVTCEAIMGRGKDHAKWQVTSGVSYKYHREF 176 Query: 162 ------------RTENDPIGLITIDAL---YSPIKKVSY----TVESAREGQVLDYDKLS 202 + P +I+ + ++ + Y E + D K Sbjct: 177 KINKNELENWSFYKDKCPKSVISENENEITFTDDVECRYLQQLFDEKSGVTITEDDTKFI 236 Query: 203 MTIDTDGSITGEDSVALASRILQDQLG 229 +TDGS+T +++ A + L+++ Sbjct: 237 FQFETDGSLTAIETLDYALKRLKERFN 263 >gi|300681098|sp|P0CG28|RPOD_METAC RecName: Full=DNA-directed RNA polymerase subunit D Length = 266 Score = 44.6 bits (104), Expect = 0.020, Method: Composition-based stats. Identities = 40/253 (15%), Positives = 84/253 (33%), Gaps = 49/253 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + + + + + FA N +RR +++ + AI V + D Sbjct: 5 VDILELSDRSAKFVLSNVSTAFA----NGIRRAMVADVPTLAIEYVNLYDNTSVLYDEQL 60 Query: 77 GVHEDLTDIILNIKGINLKMSGD---------SHKRVTIFKRGPGVVTAGDIQT-VNDIE 126 + L + +I+ + D +T+ GPG V + D+ + I+ Sbjct: 61 ALRLSLIPLATDIETYLPQAECDVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQ 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP------- 179 +P+ I L + +E G+G K + + + + Sbjct: 121 PADPNVPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVACGYKNMPVITIENCDACGHCA 180 Query: 180 --IKKVSYTVESARE----------------GQVLDYDKLSMT---------IDTDGSIT 212 K +VE A QV D + + + +++DGS T Sbjct: 181 AECPKGIISVEEAGAKIAEEDIMKCSICRLCEQVCDINAIKVDFYENSFVFTMESDGSYT 240 Query: 213 GEDSVALASRILQ 225 +D V A+ +++ Sbjct: 241 AKDLVLNAANVIK 253 >gi|325968486|ref|YP_004244678.1| RNA polymerase insert [Vulcanisaeta moutnovskia 768-28] gi|323707689|gb|ADY01176.1| RNA polymerase insert [Vulcanisaeta moutnovskia 768-28] Length = 317 Score = 44.6 bits (104), Expect = 0.020, Method: Composition-based stats. Identities = 42/275 (15%), Positives = 81/275 (29%), Gaps = 38/275 (13%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI-DGVLHE 71 + + + ++ + + + T L NALRRV +S + AI V I D Sbjct: 18 VVLVKVIEKSDLYMKAVVD------GITPPLINALRRVFISDVPVLAIDEVIILDNTSVL 71 Query: 72 ISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV-----------TIFKRGPGVVTAGDIQ 120 + + I ++K + K+ + V + + P VV D++ Sbjct: 72 YDEVLAHRLSMIPIKTDLKKLP-KIEECEQELVDPSLCQVRFELNVEAKEPVVVYGRDLK 130 Query: 121 -TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSP 179 ++ + D I L + +E G AK + + Sbjct: 131 SDDPEVRPVYEDVPIVKLVPGQKIVLEAYAKLGRARNHAKWQAGLAAYYYYPKVSVVDKA 190 Query: 180 IKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKK 239 K E ++ I DGSI D + + E+ Sbjct: 191 NDKCMTCTEICNG---------ALEIKDDGSIMIHDVLKCT-------FNKWKTCEQVCS 234 Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLR 274 +K D + F + ++ L+ Sbjct: 235 ALKVDWDENKYVFWVESFGNMPVEDMVREGFRILK 269 >gi|171186411|ref|YP_001795330.1| RNA polymerase insert [Thermoproteus neutrophilus V24Sta] gi|229564213|sp|B1YC30|RPOD_THENV RecName: Full=DNA-directed RNA polymerase subunit D gi|170935623|gb|ACB40884.1| RNA polymerase insert [Thermoproteus neutrophilus V24Sta] Length = 262 Score = 44.6 bits (104), Expect = 0.021, Method: Composition-based stats. Identities = 27/129 (20%), Positives = 47/129 (36%), Gaps = 12/129 (9%) Query: 45 NALRRVLMSSLRGAAI-TAVQIDGVLHEISSIKGVHEDLTDIILNIK--------GINLK 95 N+LRRV++S L AI T + ++ + L + ++ L Sbjct: 27 NSLRRVIISELPVMAIDTVIVVNNTSVMYDEMLAHRLGLIPLTTPLQSLPPIEDCESGLA 86 Query: 96 MSGDSHKRVTIFKRGPGVVT--AGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + R T+ G VT +GD+ + D+ ++ D I L + +E G Sbjct: 87 DPSECTVRFTLQVNADGEVTVYSGDLVSERPDVVPVHKDIPIVKLVKGQSIVLEAYAKLG 146 Query: 153 HGYVPAKHH 161 AK Sbjct: 147 RARGHAKWQ 155 >gi|327312665|ref|YP_004328102.1| hypothetical protein HMPREF9137_0370 [Prevotella denticola F0289] gi|326944759|gb|AEA20644.1| hypothetical protein HMPREF9137_0370 [Prevotella denticola F0289] Length = 488 Score = 44.6 bits (104), Expect = 0.023, Method: Composition-based stats. Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 1/90 (1%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + +E +E + + + L V+ L LSVR+ N L I G++ + A Sbjct: 377 SVVKDESLRETRNQVVDINSHVAELLNTPVQNLNLSVRAINVLNVIGISTFGEIPKIDAA 436 Query: 291 -DMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +L++ N GRK++ +I+ +G GL LGM Sbjct: 437 VTLLKVRNSGRKTVHDIEVFIGKFGLQLGM 466 >gi|315607208|ref|ZP_07882212.1| DNA-directed RNA polymerase subunit alpha [Prevotella buccae ATCC 33574] gi|315251262|gb|EFU31247.1| DNA-directed RNA polymerase subunit alpha [Prevotella buccae ATCC 33574] Length = 488 Score = 44.6 bits (104), Expect = 0.023, Method: Composition-based stats. Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 1/90 (1%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + +E +E + + + L V+ L LSVR+ N L I G++ + A Sbjct: 377 SVVKDESLRETRNQVVDINSHVAELLNTPVQNLNLSVRAINVLNVIGISTFGEIPKIDAA 436 Query: 291 -DMLRMANFGRKSLVEIKGVLGTMGLFLGM 319 +L++ N GRK++ +I+ +G GL LGM Sbjct: 437 VTLLKVRNSGRKTVHDIEVFIGKFGLQLGM 466 >gi|221043080|dbj|BAH13217.1| unnamed protein product [Homo sapiens] Length = 424 Score = 44.6 bits (104), Expect = 0.025, Method: Composition-based stats. Identities = 50/291 (17%), Positives = 100/291 (34%), Gaps = 51/291 (17%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I + +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSY-----TVESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYLELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 E V A L+ +L + ++ ++ S + VE+ + Sbjct: 242 ETIVLSALSGLKKKLTNKEAERDMLPSPEQTLSPLSKMPHSVPQPLVEKTD 292 >gi|76802059|ref|YP_327067.1| DNA-directed RNA polymerase subunit D [Natronomonas pharaonis DSM 2160] gi|121723150|sp|Q3IQT6|RPOD_NATPD RecName: Full=DNA-directed RNA polymerase subunit D gi|76557924|emb|CAI49508.1| DNA-directed RNA polymerase subunit D [Natronomonas pharaonis DSM 2160] Length = 247 Score = 44.2 bits (103), Expect = 0.025, Method: Composition-based stats. Identities = 40/237 (16%), Positives = 82/237 (34%), Gaps = 47/237 (19%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHE 80 +E + RG N LRR +++ + +I +++ + Sbjct: 11 DRDERSARFLV----RGVTPAFANGLRRAMIADVPTLSIDTLRVVENSSVMFDE------ 60 Query: 81 DLTDIILNIKGINLKMSGDSH--KRVTIFKRGPGVVTA--GDIQTVND-IEVLNPDHVIC 135 + L + + L D + VT+ G TA GD+ + +D ++ + + I Sbjct: 61 ---QLALRLGLVPLTTPDDYEPGETVTLAIDVEGPATAYSGDLVSSDDKVQPADENIPII 117 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHH--------------------RTENDPIG----LI 171 L D + +E + G G AKH E+D +I Sbjct: 118 ELKDDQQLELEADATLGRGKDHAKHQGGVAVGYRHLQRVEVVGEKGEFEDDEPEILRGVI 177 Query: 172 TIDALYSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASRIL 224 D + + G+ ++ +++ ++TDGS+ E+ V A+ + Sbjct: 178 EEDGDLIETGEFDNDLSQRYPGKEVEVEEVPNAFVFDVETDGSMPVEELVLKAAESI 234 >gi|42780320|ref|NP_977567.1| hypothetical protein BCE_1246 [Bacillus cereus ATCC 10987] gi|42736239|gb|AAS40175.1| conserved domain protein [Bacillus cereus ATCC 10987] Length = 95 Score = 44.2 bits (103), Expect = 0.026, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + L + +E ++L++ G S+ +++ L GL Sbjct: 42 LSAPARRALEHHGIYTVEKLSKYSEKEILKLHGMGPASMPKLRKALEESGLSF 94 >gi|73667627|ref|YP_303642.1| DNA-directed RNA polymerase subunit D [Methanosarcina barkeri str. Fusaro] gi|72394789|gb|AAZ69062.1| DNA-directed RNA polymerase, subunit D [Methanosarcina barkeri str. Fusaro] Length = 266 Score = 44.2 bits (103), Expect = 0.028, Method: Composition-based stats. Identities = 37/255 (14%), Positives = 81/255 (31%), Gaps = 53/255 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + + + + + FA N +RR +++ + AI V + + Sbjct: 5 VDILELSDRSAKFVLSKVSTSFA----NGIRRAMIADVPTLAIEYVNLYENTSVLYDEQL 60 Query: 77 GVHEDLTDIILNIKGINLKMSGD---------SHKRVTIFKRGPGVVTAGDIQT-VNDIE 126 + L ++ +++ + D +T+ GP V + D+ + I+ Sbjct: 61 ALRLSLIPLVTDVETYVPQAECDVCGGEGCPACEVSLTLSAEGPCTVYSRDLISSDPKIQ 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI------DAL---- 176 +P+ I L + +E G+G K + + DA Sbjct: 121 PADPNIPIVELKKGQKLVLEALAHMGYGRDSVKWQAGVACGYKNVPVITIENCDACGHCA 180 Query: 177 ------------------------YSPIKKVS--YTVESAREGQVLDYDKLSMTIDTDGS 210 S K + + + G D + T+++DGS Sbjct: 181 AECPKGIIRFEESGAKVSSEDVLKCSLCKLCEQVCDIHAIKIG--FDENAFVFTMESDGS 238 Query: 211 ITGEDSVALASRILQ 225 T +D AS +++ Sbjct: 239 YTAKDLALNASNVIK 253 >gi|47221930|emb|CAF98942.1| unnamed protein product [Tetraodon nigroviridis] Length = 275 Score = 44.2 bits (103), Expect = 0.028, Method: Composition-based stats. Identities = 47/259 (18%), Positives = 91/259 (35%), Gaps = 57/259 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + + E +T + N++RRV MS + AI +QID Sbjct: 9 VKITELTDENVKFVIE-------NTDLAVANSIRRVFMSEVPTIAIDWIQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 V H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFVAHRVGLIPLTSDDIVDKLQYSRDCTCDDFCPECSVELTLDVRCTEDQTRHVTSRDLL 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDILVVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITID---------------ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 + + YS I++ G+ +K +++ GS Sbjct: 182 VSFEYDPDNVLRHTVYPRPEEWPKSEYSEIEEDEIQAPFDPNGKP---EKFFYNVESCGS 238 Query: 211 ITGEDSVALASRILQDQLG 229 + E+ V A +L+ +L Sbjct: 239 LRPENIVMSALAVLKKKLS 257 >gi|222480231|ref|YP_002566468.1| RNA polymerase insert [Halorubrum lacusprofundi ATCC 49239] gi|222453133|gb|ACM57398.1| RNA polymerase insert [Halorubrum lacusprofundi ATCC 49239] Length = 250 Score = 44.2 bits (103), Expect = 0.028, Method: Composition-based stats. Identities = 35/236 (14%), Positives = 78/236 (33%), Gaps = 39/236 (16%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHE 80 + ++ ++ L FA N +RR +++ + +I V+ + + G+ Sbjct: 12 ERDDRSARVLIRGLTPAFA----NGIRRAMIADVPTFSIDTVRFVENSSVMFDEMIGLRL 67 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDV 139 L + + + + + GP +GDI+ +EV + + I L Sbjct: 68 GLIPLKTPLDDFEV----GDEVTLALDVEGPATAYSGDIESADPLVEVADDNIPIIELKE 123 Query: 140 DAVVRMELTVSKGHGYVPAKHH--------------------RTENDPIGLI-----TID 174 + E G AKH ++D ++ T D Sbjct: 124 GQRLEFEADAVLDTGKEHAKHQGGVSVGYRHLQRVSVEGDLGEFDDDEPRILRGVIETPD 183 Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITGEDSVALASRILQD 226 + + G+ + + + I+TDGS + E+ + A +++ Sbjct: 184 GEIELTDEFDNDLSERFPGKEVSVEDVPGAFVFHIETDGSFSVEELLLRAIDSIEE 239 >gi|213405883|ref|XP_002173713.1| DNA-directed RNA polymerase II subunit RPB3 [Schizosaccharomyces japonicus yFS275] gi|212001760|gb|EEB07420.1| DNA-directed RNA polymerase II subunit RPB3 [Schizosaccharomyces japonicus yFS275] Length = 308 Score = 44.2 bits (103), Expect = 0.030, Method: Composition-based stats. Identities = 44/269 (16%), Positives = 88/269 (32%), Gaps = 55/269 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---------DGV 68 + + +N + +L N+LRRV++ + AI V+I + + Sbjct: 7 VTIKNIGKNSVEFVLSNTD----LSLANSLRRVVLGEIPTVAIDLVEISVNTSVMPDEFL 62 Query: 69 LHEISSIK----GVHEDLTDIILNIKGINLKMS-GDSHKRVTIFKRGPG----VVTAGDI 119 H + I + E + + + +++ + G V A D+ Sbjct: 63 AHRLGMIPLNSNNIDEPPPVGLEYTRNCDCDQYCNKCSVELSLNAKCTGDGTMEVYARDL 122 Query: 120 QTVNDIEVLNPDH--------VICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLI 171 ++ + P +I L + V + KG AK T Sbjct: 123 VVDSNSTLGQPVLADARSHGPLILKLRKEQEVSLRCIAKKGIAKEHAKWSPTAAVSFEYD 182 Query: 172 TIDALYSPIKKVSYTV-----------------ESAREGQVLDYD----KLSMTIDTDGS 210 ++ +K Y E REG+ DY+ K M ++ GS Sbjct: 183 P----WNKLKHTDYWFETDADEEWPKSKNADWEEPPREGETFDYNAQPRKFYMEVEGVGS 238 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKK 239 I + R+LQ++L + + + ++ Sbjct: 239 IPPNQIILQGIRVLQEKLAVLVRDLDEEQ 267 >gi|229010531|ref|ZP_04167733.1| hypothetical protein bmyco0001_9890 [Bacillus mycoides DSM 2048] gi|229166076|ref|ZP_04293838.1| hypothetical protein bcere0007_10500 [Bacillus cereus AH621] gi|228617385|gb|EEK74448.1| hypothetical protein bcere0007_10500 [Bacillus cereus AH621] gi|228750729|gb|EEM00553.1| hypothetical protein bmyco0001_9890 [Bacillus mycoides DSM 2048] Length = 92 Score = 44.2 bits (103), Expect = 0.031, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGITTEAELSKYSEKEILKLHGIGPASLPKLRAALEDKGLSF 91 >gi|225874866|ref|YP_002756325.1| transcription termination factor NusA [Acidobacterium capsulatum ATCC 51196] gi|225794228|gb|ACO34318.1| transcription termination factor NusA [Acidobacterium capsulatum ATCC 51196] Length = 548 Score = 43.8 bits (102), Expect = 0.033, Method: Composition-based stats. Identities = 17/90 (18%), Positives = 32/90 (35%), Gaps = 3/90 (3%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++L ++ + E +K + + + E EL L Sbjct: 328 VRLAAKLLGWKIDI---KSEEEKRQEVEQQMGGFAQGGTATAIEEVKELGESIIQKLVAA 384 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I + L T + + G K+L +I Sbjct: 385 GITTVESLADMTPEQLEEIPGIGEKTLEKI 414 >gi|241667733|ref|ZP_04755311.1| transcription elongation factor NusA [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254876277|ref|ZP_05248987.1| transcription elongation factor nusA [Francisella philomiragia subsp. philomiragia ATCC 25015] gi|254842298|gb|EET20712.1| transcription elongation factor nusA [Francisella philomiragia subsp. philomiragia ATCC 25015] Length = 489 Score = 43.8 bits (102), Expect = 0.033, Method: Composition-based stats. Identities = 27/166 (16%), Positives = 61/166 (36%), Gaps = 11/166 (6%) Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDG--SITGEDSVALASR---ILQDQLGMFINFE 235 V Y + S D ++++ +T+ + ++S++ A + I ++ Sbjct: 284 DMVQYAINSLSPVDSEDILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWK 343 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + + K VE L++ L E I + DL ++L + Sbjct: 344 INVLSDTEQEEKQMS----IVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEI 399 Query: 296 ANFGRKSLVEIKGVLGTMGLF--LGMNLPDWPPESIEELAKKYEDK 339 F + + E++ + L LG P +++ + ++ DK Sbjct: 400 EGFDEEIVDELQERAKAVILSQALGGKKPAEDLLNMQGMNQELADK 445 >gi|30019294|ref|NP_830925.1| hypothetical protein BC1139 [Bacillus cereus ATCC 14579] gi|29894837|gb|AAP08126.1| hypothetical Cytosolic Protein [Bacillus cereus ATCC 14579] Length = 95 Score = 43.8 bits (102), Expect = 0.033, Method: Composition-based stats. Identities = 14/53 (26%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL ++K VL L Sbjct: 42 LSAPARRALEHRGIQTVEELSKYSEKEILKLHGMGPASLPKLKKVLEESWLSF 94 >gi|221114057|ref|XP_002158521.1| PREDICTED: similar to predicted protein [Hydra magnipapillata] Length = 273 Score = 43.8 bits (102), Expect = 0.033, Method: Composition-based stats. Identities = 45/270 (16%), Positives = 88/270 (32%), Gaps = 54/270 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---VLH-EI- 72 + + + ++ I E ++ N+LRR+ ++ + AI VQI+ VLH E Sbjct: 9 VKILEWTDDNLKFILENTD----LSVANSLRRIFIAEVPTIAIDWVQIENNTSVLHDEFI 64 Query: 73 SSIKGVH-----EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 + G+ E + + + + + + T+ + G T T D+ Sbjct: 65 AHRIGLIPLTSDEKVDKMCYSRDCTCSEFCDECSVKFTLDVKCTGETTR--HVTSRDLIS 122 Query: 128 LNP--------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 +P + VI L +++ KG G AK + T Sbjct: 123 EDPKVIPVTSRIKDDDTGYGETDEIVIVKLRKGQELKLHAFAKKGFGKEHAKWNPTAGVS 182 Query: 168 IGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSIT 212 +AL YS + + Y + DK +++ GS+ Sbjct: 183 FEYDPDNALRHTTFARPDQWPKSEYSQLDEDQYEAPYDIHAKA---DKFYFNVESCGSLK 239 Query: 213 GEDSVALASRILQDQLGMFINFEEPKKEVK 242 E+ V +L+ +L + Sbjct: 240 PENIVMTGISVLKKKLSELQTHHSHEIAAD 269 >gi|257053585|ref|YP_003131418.1| RNA polymerase insert [Halorhabdus utahensis DSM 12940] gi|256692348|gb|ACV12685.1| RNA polymerase insert [Halorhabdus utahensis DSM 12940] Length = 247 Score = 43.8 bits (102), Expect = 0.034, Method: Composition-based stats. Identities = 26/142 (18%), Positives = 48/142 (33%), Gaps = 10/142 (7%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIKGVHE 80 + E + RG N +RR +++ + +I V+ I+ G+ Sbjct: 10 ERGEREARFLV----RGVTPAFANGVRRAMIADVPTFSIDNVRVIENSSVMFDEQIGLRL 65 Query: 81 DLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDV 139 L + + + + + +GP +GD+ +E PD I L Sbjct: 66 GLVPLTTPVGEFEI----GDEVTLALDVQGPDTAYSGDLVGNDEMVEPAEPDVPIIELKD 121 Query: 140 DAVVRMELTVSKGHGYVPAKHH 161 D + +E G AKH Sbjct: 122 DQRLELEADAVLDKGREHAKHQ 143 >gi|229016491|ref|ZP_04173432.1| hypothetical protein bcere0030_10650 [Bacillus cereus AH1273] gi|229022700|ref|ZP_04179224.1| hypothetical protein bcere0029_10490 [Bacillus cereus AH1272] gi|228738512|gb|EEL88984.1| hypothetical protein bcere0029_10490 [Bacillus cereus AH1272] gi|228744758|gb|EEL94819.1| hypothetical protein bcere0030_10650 [Bacillus cereus AH1273] Length = 92 Score = 43.8 bits (102), Expect = 0.034, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGITTEAELSKYSEKEILKLHGIGPASLPKLRAALADKGLSF 91 >gi|229132032|ref|ZP_04260895.1| hypothetical protein bcere0014_9750 [Bacillus cereus BDRD-ST196] gi|228651432|gb|EEL07404.1| hypothetical protein bcere0014_9750 [Bacillus cereus BDRD-ST196] Length = 92 Score = 43.8 bits (102), Expect = 0.034, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I +L + +E ++L++ G SL +++ L GL Sbjct: 39 LSAPARRALEHHGITTEAELSKYSEKEILKLHGIGPASLPKLRAALEDKGLSF 91 >gi|326797608|ref|YP_004315427.1| hypothetical protein Sph21_0174 [Sphingobacterium sp. 21] gi|326548372|gb|ADZ76757.1| hypothetical protein Sph21_0174 [Sphingobacterium sp. 21] Length = 97 Score = 43.8 bits (102), Expect = 0.035, Method: Composition-based stats. Identities = 11/45 (24%), Positives = 20/45 (44%) Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 L + I + L +E ++L + G S+ ++K L GL Sbjct: 51 LENQGITTLRKLASFSEKEILSLHGMGPGSIPKLKQKLEEKGLAF 95 >gi|47567602|ref|ZP_00238313.1| hypothetical protein cytosolic protein [Bacillus cereus G9241] gi|47555797|gb|EAL14137.1| hypothetical protein cytosolic protein [Bacillus cereus G9241] Length = 95 Score = 43.8 bits (102), Expect = 0.035, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 24/55 (43%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++ ++ G SL +++ L GL Sbjct: 40 SPLSAPARRALEHHGIQTVEELSKYSEKEISKLHGMGPASLPKLRKALEESGLSF 94 >gi|167627171|ref|YP_001677671.1| transcription elongation factor NusA [Francisella philomiragia subsp. philomiragia ATCC 25017] gi|167597172|gb|ABZ87170.1| transcription elongation factor [Francisella philomiragia subsp. philomiragia ATCC 25017] Length = 489 Score = 43.8 bits (102), Expect = 0.036, Method: Composition-based stats. Identities = 27/166 (16%), Positives = 61/166 (36%), Gaps = 11/166 (6%) Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDG--SITGEDSVALASR---ILQDQLGMFINFE 235 V Y + S D ++++ +T+ + ++S++ A + I ++ Sbjct: 284 DMVQYAINSLSPVDSEDILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASALIGWK 343 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + + K VE L++ L E I + DL ++L + Sbjct: 344 INVLSDTEQEEKQMS----IVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRDELLEI 399 Query: 296 ANFGRKSLVEIKGVLGTMGLF--LGMNLPDWPPESIEELAKKYEDK 339 F + + E++ + L LG P +++ + ++ DK Sbjct: 400 EGFDEEIVDELQERAKAVILSQALGGKKPAEDLLNMQGMNQELADK 445 >gi|55376999|ref|YP_134849.1| DNA-directed RNA polymerase subunit D [Haloarcula marismortui ATCC 43049] gi|1350858|sp|Q00813|RPOD_HALMA RecName: Full=DNA-directed RNA polymerase subunit D gi|148773|gb|AAA73212.1| ribosomal protein HmaRp-alpha subunit [Haloarcula marismortui] gi|55229724|gb|AAV45143.1| DNA-directed RNA polymerase subunit D [Haloarcula marismortui ATCC 43049] Length = 259 Score = 43.8 bits (102), Expect = 0.039, Method: Composition-based stats. Identities = 35/232 (15%), Positives = 69/232 (29%), Gaps = 51/232 (21%) Query: 40 AHT--LGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSIKGVHEDLTDIILNIKGINLKM 96 T N +RR +++ + +I V+ I+ + G+ L + ++ + Sbjct: 23 GITPAFANGIRRAMVADVPTFSIDTVRVIENTSVMFNEQIGLRLGLVPLTTDLDDFEI-- 80 Query: 97 SGDSHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGY 155 +++ GP + D+ + +E + + I +L + +E G Sbjct: 81 --GDEVTLSLSVDGPSTAYSSDLVSSDPMVEAADDNIPIIDLKEGQRLEVEADAVLDTGR 138 Query: 156 VPAKHHR--------------------------------TENDPIGLITIDAL------- 176 AKH E DA Sbjct: 139 EHAKHQGGVAVGYRHLQQVEVVGDLGEFEDDDPNILRGVIEEQAAEHAAGDATNGELVAT 198 Query: 177 --YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQD 226 + + Y + V + ++TDGS T E+ V A L+D Sbjct: 199 DEFDNDLRNRYPGKDVEVSDVPN--AFVFHVETDGSFTTEELVLRAVETLRD 248 >gi|229189332|ref|ZP_04316352.1| hypothetical protein bcere0002_10140 [Bacillus cereus ATCC 10876] gi|228594126|gb|EEK51925.1| hypothetical protein bcere0002_10140 [Bacillus cereus ATCC 10876] Length = 95 Score = 43.8 bits (102), Expect = 0.040, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++ ++ G SL +++ L GL Sbjct: 42 LSAPARRALEHHGIQTVEELSKYSEKEISKLHGMGPASLPKLRKALEESGLSF 94 >gi|269928870|ref|YP_003321191.1| helix-hairpin-helix motif protein [Sphaerobacter thermophilus DSM 20745] gi|269788227|gb|ACZ40369.1| helix-hairpin-helix motif protein [Sphaerobacter thermophilus DSM 20745] Length = 72 Score = 43.8 bits (102), Expect = 0.041, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 27/59 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 L+ + L G + DL + TE +L++ G K+L +++ L GL + D Sbjct: 14 LAQPARRALLGAGYTRLEDLTRVTEDQLLQLHGIGPKALAQLREALAARGLAFAADTDD 72 >gi|337497|gb|AAA36586.1| RNA polymerase subunit hRPB 33 [Homo sapiens] gi|2920709|emb|CAA11842.1| RNA polymerase II subunit [Homo sapiens] gi|2920711|emb|CAA11843.1| RNA polymerase subunit [Homo sapiens] Length = 275 Score = 43.8 bits (102), Expect = 0.042, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 91/256 (35%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I + +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRTTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|307352912|ref|YP_003893963.1| DNA-directed RNA polymerase [Methanoplanus petrolearius DSM 11571] gi|307156145|gb|ADN35525.1| DNA-directed RNA polymerase [Methanoplanus petrolearius DSM 11571] Length = 274 Score = 43.4 bits (101), Expect = 0.044, Method: Composition-based stats. Identities = 39/235 (16%), Positives = 69/235 (29%), Gaps = 51/235 (21%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG-----VLHEISSIKGVHEDLTDIILNIKGINLKMS 97 N RR ++ + AI V I ++ G+ TD+ +K Sbjct: 24 FANTFRRTMIGEVPTLAIEDVLIYDNNSALFDEMLAHRLGLIPIKTDLSEYVKKSECSCG 83 Query: 98 GD----SHKRVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 G+ T+ GPG V + D+ +N D + L+ D V +E Sbjct: 84 GEGCSSCQAIFTLSVEGPGTVHSSDLIPADPRATPVNMDIPVVKLEKDQKVVLEARAELN 143 Query: 153 HGYVPAKHHRTENDPIGLITI-------DAL----------------------------Y 177 G AK T + DA Sbjct: 144 IGDEHAKWEPTLACGYKAYPVITIDDRCDACGNCVEECPRNVLRVGKKSVEIADGKLEDC 203 Query: 178 SPIKKVSYTVESAREGQV------LDYDKLSMTIDTDGSITGEDSVALASRILQD 226 S + ++ G D + +++DGS+ ++ + A I++D Sbjct: 204 SMCRLCEKACMASGIGDRPAISVKPDNTRFLFVVESDGSLPVKEIMTCALGIMKD 258 >gi|256810443|ref|YP_003127812.1| RNA polymerase insert [Methanocaldococcus fervens AG86] gi|256793643|gb|ACV24312.1| RNA polymerase insert [Methanocaldococcus fervens AG86] Length = 191 Score = 43.4 bits (101), Expect = 0.045, Method: Composition-based stats. Identities = 43/192 (22%), Positives = 77/192 (40%), Gaps = 32/192 (16%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 NA+RR+++S + AI V I + S + +I IKG L + Sbjct: 28 NAIRRIMISEVPTYAIEDVYI--FENSSSMDDEIIAHRLGLIP-IKGKPL--LENEIITF 82 Query: 105 TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 T+ K GP V + D+++ N EV + I L +++E G G V AK Sbjct: 83 TLEKEGPCTVYSSDLKSENG-EVAFKNIPIVKLGNGQKIQIECEAVPGIGKVHAKWQ--- 138 Query: 165 NDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRIL 224 +A+Y + + D++ ++T G + E+ + A +IL Sbjct: 139 -------PCNAVY----------------KQISEDEVEFFVETFGQMEAEEILEEAVKIL 175 Query: 225 QDQLGMFINFEE 236 +++ F+ E Sbjct: 176 KNKAESFLQQLE 187 >gi|255714803|ref|XP_002553683.1| KLTH0E04598p [Lachancea thermotolerans] gi|238935065|emb|CAR23246.1| KLTH0E04598p [Lachancea thermotolerans] Length = 328 Score = 43.4 bits (101), Expect = 0.045, Method: Composition-based stats. Identities = 44/232 (18%), Positives = 81/232 (34%), Gaps = 51/232 (21%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 T+ N+LRRV+++ + AI +V+++ + H + I D+ D+I + Sbjct: 27 ITMANSLRRVMIAEIPTLAIDSVEVETNTSVLADEFISHRLGLIPLQSSDINDLIY-CRD 85 Query: 92 INLKMSGD-SHKRVTIFKRGPGV----VTAGDIQTVNDIEVLNPDHV-----------IC 135 + D +T+ G V A D+ V+++ N H IC Sbjct: 86 CYCEDHCDRCSVVLTLQAVGESESTTNVYAKDLVIVSNLMGRNIGHPIIQDKDGNGVLIC 145 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYT--------- 186 L ++++ KG AK ++ +K Y Sbjct: 146 KLRKGQELKLKCVAKKGISKEHAKWSPAAAIEFEYDP----WNKLKHTDYWHETDAAAEW 201 Query: 187 --------VESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQD 226 + E + DY+ M ++T GS+T + V + LQD Sbjct: 202 PQSKNCEYEDPPNEDEAFDYNAKPTTFYMNVETVGSLTVDQVVIRGMKTLQD 253 >gi|145231693|ref|XP_001399321.1| DNA-directed RNA polymerase II subunit RPB3 [Aspergillus niger CBS 513.88] gi|134056224|emb|CAK37482.1| unnamed protein product [Aspergillus niger] Length = 338 Score = 43.4 bits (101), Expect = 0.047, Method: Composition-based stats. Identities = 40/265 (15%), Positives = 88/265 (33%), Gaps = 50/265 (18%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 N+LRRV++S + AI V+++ + H + I + ++ + + Sbjct: 35 FANSLRRVMLSEIPTMAIDLVEVEKNTSVLPDEFLAHRLGLIPLISKNCDQDVEYTRDCE 94 Query: 94 LKMSG-DSHKRVTIFKRGPGV----VTAGDIQTVND-----I---EVLNPDHV---ICNL 137 + +++ R G V A D+ + + +L+P+ IC L Sbjct: 95 CEDHCARCSVTLSLHARCTGDDIMRVYARDLVVSGERANEWVGNPVILDPEGNGPLICKL 154 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE--------- 188 ++M KG AK T ++ ++ V Y E Sbjct: 155 RRGQELKMTCIAKKGIAKEHAKWMPTSAIGFEYDP----HNNLRHVDYWYEEDPAKEWPV 210 Query: 189 --------SAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 A Q DYD + +++ G++ + + +LQ +L I+ Sbjct: 211 SANAGWEQPAPPDQPFDYDAQPNSFYIDVESIGTLEPDMIIQQGITVLQRKLASVISSLS 270 Query: 237 PKKEVKEDINVKSLPFNPALLKKVE 261 + + + + ++ + Sbjct: 271 GTEGADRNGVMGGDDEDMMGVRSPD 295 >gi|325958565|ref|YP_004290031.1| DNA-directed RNA polymerase subunit D [Methanobacterium sp. AL-21] gi|325329997|gb|ADZ09059.1| DNA-directed RNA polymerase subunit D [Methanobacterium sp. AL-21] Length = 262 Score = 43.4 bits (101), Expect = 0.048, Method: Composition-based stats. Identities = 48/252 (19%), Positives = 83/252 (32%), Gaps = 49/252 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 I + Q++E L E G NA+RR+ + AI V+I Sbjct: 3 IDIKQKDETHLLFAIE----GVDDAFINAIRRISTVEVPTMAIETVEILKNDAKIFDEAL 58 Query: 77 GVHEDLTDIILNIKGINLKMSGDSH-------KRVTIFKRGPGVVTAGDIQT-VNDIEVL 128 L + +++ + L D + + ++GP V +GD+Q+ D+ + Sbjct: 59 AHRLGLVPLKTDLESMVLASDCDCEDYCPTCSVTLLLKEKGPKTVYSGDLQSQDPDVVPV 118 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT---IDALY-------- 177 + + L V + G G +K T ID+ Sbjct: 119 HDTIPLLKLKEGQEVELIAVAKLGIGLEHSKWQPTTTCAYKYYPKITIDSDKCESCGLCA 178 Query: 178 SPIKKVSYTV-ESAREGQVLDYD------------------------KLSMTIDTDGSIT 212 S + Y E A +++D + K TI+TDGS++ Sbjct: 179 SECPRAVYEFDEKANTLEIVDIENCSMCKTCVRGCEAGAITVEGEKGKYLFTIETDGSLS 238 Query: 213 GEDSVALASRIL 224 E + A IL Sbjct: 239 PEKVLTTACEIL 250 >gi|159897791|ref|YP_001544038.1| hypothetical protein Haur_1262 [Herpetosiphon aurantiacus ATCC 23779] gi|159890830|gb|ABX03910.1| hypothetical protein Haur_1262 [Herpetosiphon aurantiacus ATCC 23779] Length = 75 Score = 43.4 bits (101), Expect = 0.048, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 23/57 (40%) Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMN 320 +LS + L +G L Q + ++ ++ G K + +++ L GL Sbjct: 14 KLSQPALRALHNAGYHSLGQLTQVSARELGKLHGMGPKGIRQLREALAAKGLAFADE 70 >gi|196004242|ref|XP_002111988.1| hypothetical protein TRIADDRAFT_24132 [Trichoplax adhaerens] gi|190585887|gb|EDV25955.1| hypothetical protein TRIADDRAFT_24132 [Trichoplax adhaerens] Length = 274 Score = 43.4 bits (101), Expect = 0.049, Method: Composition-based stats. Identities = 40/267 (14%), Positives = 86/267 (32%), Gaps = 51/267 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + I E ++ N+LRR+ ++++ AI VQ + Sbjct: 9 VTIPDLTNENVKFILENTD----LSVANSLRRIFIANVPTLAIDWVQFVNNTSVLSDEFI 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVTI-----FK 108 H + I +++ D + + ++++ + D + VT Sbjct: 65 AHRLGLIPLTCDEVIDRLQYSRDCNCVEHCPECSVEFTLDVRCNDDQTRHVTTRDLISSD 124 Query: 109 RGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 VT + D +I L ++++ KG G AK + T + Sbjct: 125 SRVVPVTTRYGEDDTVYGDQEDDILIAKLRRGQEIKIKAYAKKGLGTEHAKWNPTASVAF 184 Query: 169 GLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 +A+ YS + + +Y DK + ++T GS+ Sbjct: 185 EYDPDNAMRHTTYPKPEEWPKSEYSNLPEDNYEASYDP---QTVADKFYLNVETSGSLRP 241 Query: 214 EDSVALASRILQDQLGMFINFEEPKKE 240 E+ V L+++L ++ Sbjct: 242 ENIVLSGISTLKNKLSELQLHFSHEQS 268 >gi|71894578|ref|YP_278686.1| DNA ligase [Mycoplasma synoviae 53] gi|123734274|sp|Q4A5J6|DNLJ_MYCS5 RecName: Full=DNA ligase; AltName: Full=Polydeoxyribonucleotide synthase [NAD+] gi|71851366|gb|AAZ43975.1| DNA ligase [Mycoplasma synoviae 53] Length = 697 Score = 43.4 bits (101), Expect = 0.050, Method: Composition-based stats. Identities = 21/115 (18%), Positives = 40/115 (34%), Gaps = 4/115 (3%) Query: 225 QDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDL 284 + + + I + +L + + + N L I + DL Sbjct: 510 IKFFAGKSQENKKINNILQSIEKAKDAYLRNVLAALGIKGIGNIAANLLTN-KITKLSDL 568 Query: 285 IQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 T+ D+L + FG KS+ +K L + +L + E++ L K K Sbjct: 569 NNLTDEDLLSIDTFGEKSIENLKEFLSS---EKNQDLIKFLDENLNYLNSKKSSK 620 >gi|126460700|ref|YP_001056978.1| DNA-directed RNA polymerase, subunit D [Pyrobaculum calidifontis JCM 11548] gi|166229320|sp|A3MXZ5|RPOD_PYRCJ RecName: Full=DNA-directed RNA polymerase subunit D gi|126250421|gb|ABO09512.1| DNA-directed RNA polymerase, subunit D [Pyrobaculum calidifontis JCM 11548] Length = 258 Score = 43.4 bits (101), Expect = 0.050, Method: Composition-based stats. Identities = 48/264 (18%), Positives = 86/264 (32%), Gaps = 47/264 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI-TAVQIDGVLHEISSI 75 + + ++ + + E +P +L N+LRRV++S L AI + V ++ + Sbjct: 3 KVSIVEKSQFFAKAVVEGVPP----SLINSLRRVIISELPVLAIDSVVVVNNTSVMYDEM 58 Query: 76 KGVHEDLTDIILNIK--------GINLKMSGDSHKRVTI--FKRGPGVVTAGDIQTV-ND 124 L + +K L + R+T+ G VV AGD+ D Sbjct: 59 LAHRLGLIPLTTPLKDLPPIEDCESGLVDPSECTVRLTLQVNATGDVVVYAGDLVADRPD 118 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVS 184 + + D I L V +E G AK + +K+ Sbjct: 119 VAPVYKDIPIVKLVEGQSVVVEAYAKLGRARDHAKWQAALASYYYYPKV-----VVKREE 173 Query: 185 YTVESAREGQVL--------------------------DYDKLSMTIDTDGSITGEDSVA 218 + L + DK I++ G+ E ++ Sbjct: 174 CREMCKEVCRNLENPLECTFNKATTCKEMCGGGIVVEWEKDKYVFWIESFGNYDAETALR 233 Query: 219 LASRILQDQLGMFINFEEPKKEVK 242 A RIL+ + F++ K E K Sbjct: 234 EAFRILKKKFEDFLDALSRKAEAK 257 >gi|126650396|ref|ZP_01722624.1| hypothetical protein BB14905_18620 [Bacillus sp. B14905] gi|126593046|gb|EAZ87028.1| hypothetical protein BB14905_18620 [Bacillus sp. B14905] Length = 107 Score = 43.4 bits (101), Expect = 0.055, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 28/55 (50%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + N L E I + +L + TE D+L++ G S+ ++ +L GL Sbjct: 47 SKLSSPARNALIHEGIDTLHELSKYTEKDVLKIHGIGPASIPMMRALLEEEGLSF 101 >gi|327438397|dbj|BAK14762.1| hypothetical protein SSIL_0339 [Solibacillus silvestris StLB046] Length = 97 Score = 43.0 bits (100), Expect = 0.059, Method: Composition-based stats. Identities = 15/53 (28%), Positives = 23/53 (43%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + L TE ++L++ G +L +K L GL Sbjct: 43 LSSPACNALINAGITELAQLADYTEKEILKLHGIGPATLPTLKHALLEKGLDF 95 >gi|45358885|ref|NP_988442.1| DNA-directed RNA polymerase subunit D [Methanococcus maripaludis S2] gi|45047751|emb|CAF30878.1| DNA-directed RNA polymerase, subunit D [Methanococcus maripaludis S2] Length = 180 Score = 43.0 bits (100), Expect = 0.059, Method: Composition-based stats. Identities = 40/160 (25%), Positives = 64/160 (40%), Gaps = 14/160 (8%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S + AI V + S V +I IKG+ + SGD +T Sbjct: 14 ALRRIMISEVPTYAIENVYFY--ENTSSMYDEVLAHRLGLIP-IKGVPV--SGDEVIVLT 68 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I K GP V + D+++ + + I L D + +E G G + AK N Sbjct: 69 ISKEGPCTVYSSDLKSESGEPAF-ENIPIVKLAEDQKLELETEALVGTGKIHAKWQPC-N 126 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 I+ D + + +ES D + S+ I Sbjct: 127 ASYKQISNDEV-------EFKIESFGNMDAEDIIRSSLEI 159 >gi|298674771|ref|YP_003726521.1| DNA-directed RNA polymerase [Methanohalobium evestigatum Z-7303] gi|298287759|gb|ADI73725.1| DNA-directed RNA polymerase [Methanohalobium evestigatum Z-7303] Length = 265 Score = 43.0 bits (100), Expect = 0.066, Method: Composition-based stats. Identities = 30/155 (19%), Positives = 55/155 (35%), Gaps = 14/155 (9%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE-ISSI 75 + + + E + FA N++RR +++ + AI + I Sbjct: 4 KVDMLELSERSARFVLSNTTPAFA----NSIRRAMLADVPTFAIDDLNIYNNTSVLYDEQ 59 Query: 76 KGVHEDLTDI-ILNIKGINLKMSGDSHK-------RVTIFKRGPGVVTAGDIQ-TVNDIE 126 G+ L + NI + + +T+ GP +V +GD+ + I+ Sbjct: 60 LGLRLALIPLATENIDDYTTQDECTCEEGCPSCEVSITLSAEGPKMVYSGDLISSDPGIQ 119 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 + + I L D V +E KG G AK Sbjct: 120 PADTNIPIIELKEDQRVVLEALAHKGLGKDNAKWQ 154 >gi|328768461|gb|EGF78507.1| hypothetical protein BATDEDRAFT_20338 [Batrachochytrium dendrobatidis JAM81] Length = 285 Score = 43.0 bits (100), Expect = 0.067, Method: Composition-based stats. Identities = 40/258 (15%), Positives = 86/258 (33%), Gaps = 47/258 (18%) Query: 40 AHT---LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIIL 87 +T + NALRR +++ + AI V+ + + H + I E + I Sbjct: 32 GNTDLSVANALRRTMIAEVPTVAIDLVEFESNSSVLTDEFLAHRLGLIPLNSEQVGTITY 91 Query: 88 NIKGINLKMSGDSHKRVTIFK----RGPGVVTAGDIQTVND--IEVLNPD----HVICNL 137 + + + VT+ D+ + + + +++ D +I L Sbjct: 92 TRDCSCTQYCPQCSVELHLNVRCDEEFTREVTSRDLISSHSSIMPIIHGDDDSGIMIAKL 151 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES-------- 189 + + KG AK ++ ++ +Y VE Sbjct: 152 RKGQEINLRCIAKKGTAKEHAKWSPCAGIAFEYDP----HNRLRHTTYWVEDDIKSEWPV 207 Query: 190 ---------AREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 + + D+ DK MT++ G+I ++ V A RI+Q +L + + Sbjct: 208 SANGLLEPEVVDDEPFDFNAKPDKFYMTVEGTGAIDPKEIVTTALRIMQTKLSLVQMLIK 267 Query: 237 PKKEVKEDINVKSLPFNP 254 + +D + + Sbjct: 268 EISDDNDDSSRAQMNGMY 285 >gi|226311725|ref|YP_002771619.1| hypothetical protein BBR47_21380 [Brevibacillus brevis NBRC 100599] gi|226094673|dbj|BAH43115.1| conserved hypothetical protein [Brevibacillus brevis NBRC 100599] Length = 70 Score = 43.0 bits (100), Expect = 0.070, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 22/53 (41%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + L +E ++L+ G S+ +++ L GL Sbjct: 15 LSAPARRALEHNGITSLEQLASYSEKEILKFHGMGPASMPKLRTALKEKGLSF 67 >gi|118431575|ref|NP_148137.2| DNA-directed RNA polymerase subunit D [Aeropyrum pernix K1] gi|150421654|sp|Q9YB53|RPOD_AERPE RecName: Full=DNA-directed RNA polymerase subunit D gi|116062900|dbj|BAA80745.2| DNA-directed RNA polymerase subunit D [Aeropyrum pernix K1] Length = 286 Score = 43.0 bits (100), Expect = 0.070, Method: Composition-based stats. Identities = 24/155 (15%), Positives = 51/155 (32%), Gaps = 18/155 (11%) Query: 37 RGFAHTLGNALRRVLMSSLRGAAI---------TAVQIDGVLHEISSIKGVHEDLTDIIL 87 RG+ NA+RR ++S + A+ TAV + V H + + + + Sbjct: 24 RGYPVVFVNAIRRTVLSDVPTMAVDYAYIFDNTTAVYDEMVAHRLGLVVLDSNEAVEKYR 83 Query: 88 NIKGINLKMSGDSHKRVTIFK--------RGPGVVTAGDI-QTVNDIEVLNPDHVICNLD 138 + K + V + +TAGD+ + ++ + P+ + + Sbjct: 84 RPEECAGKEPSEEDCFVEVSLEAEVDAEGETGRYITAGDLSISDPQVKPVYPETPLIYVA 143 Query: 139 VDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 + ++ G G K + I Sbjct: 144 PGQRIHVQAFARLGRGKEHTKWSPASLSVLRYTPI 178 >gi|154310335|ref|XP_001554499.1| RNA polymerase II subunit 3 [Botryotinia fuckeliana B05.10] gi|150851419|gb|EDN26612.1| RNA polymerase II subunit 3 [Botryotinia fuckeliana B05.10] Length = 336 Score = 43.0 bits (100), Expect = 0.070, Method: Composition-based stats. Identities = 49/264 (18%), Positives = 88/264 (33%), Gaps = 51/264 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG----VLHEI- 72 + + + + + FA N+LRR ++S + AI VQI+ + E Sbjct: 17 VKITEAGSHHVDFELSNVDLSFA----NSLRRTVLSEVPTIAIDRVQIEANTSVLADEFI 72 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSH-------KRVTIFKRGPG----VVTAGDIQT 121 + G+ + N + D +T+ R G V A D+ Sbjct: 73 AHRLGL---IPLNSKNCDDVIYTRDCDCEGNCELCSVTLTLHARCTGDEIMKVYARDLVV 129 Query: 122 VND-----I---EVLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHR------TE 164 + + +PD VI L +RM+ KG AK Sbjct: 130 DPQRANKWVGNPVITDPDGLGPVIAKLRKGQELRMKCIALKGIAKEHAKWAPTAAVGFEY 189 Query: 165 NDPIGLITIDALYS-------PIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITG 213 + L ID Y P K + E A+EG DYD + +++ G++ Sbjct: 190 DPHNKLKHIDLWYEHDAAKEWPKSKYADWEEPAQEGAPFDYDAVPNNFYFEVESIGNLEP 249 Query: 214 EDSVALASRILQDQLGMFINFEEP 237 + + +++Q +L + Sbjct: 250 DAIIQQGIKVMQQKLAAVLQDLTE 273 >gi|126666550|ref|ZP_01737528.1| Serine/threonine protein kinase [Marinobacter sp. ELB17] gi|126628938|gb|EAZ99557.1| Serine/threonine protein kinase [Marinobacter sp. ELB17] Length = 1393 Score = 43.0 bits (100), Expect = 0.072, Method: Composition-based stats. Identities = 24/107 (22%), Positives = 46/107 (42%), Gaps = 1/107 (0%) Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALL-KKVEELELSVRST 270 + A A +L++ +F + +S P N A L ++ LELS ++ Sbjct: 736 DARERFASAGDMLREWRKIFHQARTDTQHSTVHPGQRSCPINEARLDTQIGLLELSPQAL 795 Query: 271 NCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + L NI + +LI+ + + + G K+ E+ V+G + L Sbjct: 796 DTLSRRNINTVAELIKLNRSRVRVLTGVGVKTRNELSEVIGQLQERL 842 >gi|50555259|ref|XP_505038.1| YALI0F05566p [Yarrowia lipolytica] gi|49650908|emb|CAG77845.1| YALI0F05566p [Yarrowia lipolytica] Length = 314 Score = 42.7 bits (99), Expect = 0.073, Method: Composition-based stats. Identities = 44/235 (18%), Positives = 83/235 (35%), Gaps = 41/235 (17%) Query: 40 AHTLGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIK 90 TL N+LRRV+++ + AI V+I + + H + I +D+ D+ + Sbjct: 19 GITLANSLRRVMLAEIPTLAIDLVEISTNTSVLADEFISHRLGLIPLDSQDVNDLEYSRD 78 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIE------------VLNPDHV---IC 135 + + + + G T + +P IC Sbjct: 79 CVCDEYCDKCSVVLMLDATCTGDDTMDIYSRDLMVHTTPERPELGKPIYTDPAKKGILIC 138 Query: 136 NLDVDAVVRMELTVSKGHGYVPAKHHR-----TENDPIGLI-TIDALYS-------PIKK 182 L + +R++ KG AK E DP + D Y P+ K Sbjct: 139 KLRKNQSLRIKCIAKKGIAKEHAKWSPCAAIGFEYDPWNKLKHTDYWYEENAEEEWPLSK 198 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFIN 233 + E +E + DY +K + ++ G++T + V ++LQ +L + Sbjct: 199 NADWEEPPKENEPFDYNAKPNKFYINVEATGALTQYEVVLRGMQVLQKKLAEVVM 253 >gi|315044489|ref|XP_003171620.1| DNA-directed RNA polymerase I and III subunit RPAC1 [Arthroderma gypseum CBS 118893] gi|311343963|gb|EFR03166.1| DNA-directed RNA polymerase I and III subunit RPAC1 [Arthroderma gypseum CBS 118893] Length = 380 Score = 42.7 bits (99), Expect = 0.074, Method: Composition-based stats. Identities = 36/192 (18%), Positives = 56/192 (29%), Gaps = 54/192 (28%) Query: 34 PLPRGFAHT-----LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIK--- 76 PL F+ + NA RR+L++ + AI V I + H + I Sbjct: 61 PLEASFSLIGVDAAIANAFRRILLAEIPALAIEYVYIQNNTSVIQDEVLAHRLGLIPLKG 120 Query: 77 ----------------------GVHEDLTDIILNIKGINLKMSGDSH--KRVTIFKRGPG 112 HED I+L + K + TI Sbjct: 121 SLEGLNWLRWFKAPKEGDPDSGSTHEDSNTIVLRLVKECTKNRSAPPGEEDPTILYNNAH 180 Query: 113 VVTAGDIQTVND------------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + A D+ I+ NPD ++ L + +E+ KG G AK Sbjct: 181 -IYAKDLVFEPQGRQEKYFHGDGAIQSCNPDILLAKLRPGQKIDIEMHCIKGIGADHAKF 239 Query: 161 HRTENDPIGLIT 172 L+ Sbjct: 240 SPVATASYRLLP 251 >gi|170291194|ref|YP_001738010.1| DNA-directed RNA polymerase subunit D [Candidatus Korarchaeum cryptofilum OPF8] gi|170175274|gb|ACB08327.1| DNA-directed RNA polymerase subunit D [Candidatus Korarchaeum cryptofilum OPF8] Length = 251 Score = 42.7 bits (99), Expect = 0.074, Method: Composition-based stats. Identities = 36/241 (14%), Positives = 81/241 (33%), Gaps = 43/241 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDGVLHEISSI 75 + + + + RTL++ E + FA N++RR +++ + AI V + Sbjct: 2 KVRVIELSDQRTLLVLEGVSPSFA----NSIRRAIIAEVPTFAIDEVIFFENTTPFFDEY 57 Query: 76 KGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG---VVTAGDIQ-TVNDIEVLNPD 131 + + ++ L++ + + + K+ VV +G+++ + I N Sbjct: 58 IAHRLAMIPLRTSLD--VLRVDPNRTVVLELSKKAKDPIEVVYSGELKSSDPLIYPANDK 115 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI-------------DALY- 177 I + +R + G G +K + I + Sbjct: 116 IPIIKMRKGQKLRFQAIARIGRGKDHSKWSPAAAVGYSYMPIYELKDPVECDLSQCSNCI 175 Query: 178 ---SPIKKVSYTV---------ESAREGQ------VLDYDKLSMTIDTDGSITGEDSVAL 219 I +V Y V E R D ++ ++ ++ GS+ E+ + Sbjct: 176 ESDGGISRVDYPVLCEGCLEALERCRVRNPDKIIRRWDESRIIISYESTGSLRPEEIFSE 235 Query: 220 A 220 A Sbjct: 236 A 236 >gi|156055988|ref|XP_001593918.1| hypothetical protein SS1G_05346 [Sclerotinia sclerotiorum 1980] gi|154703130|gb|EDO02869.1| hypothetical protein SS1G_05346 [Sclerotinia sclerotiorum 1980 UF-70] Length = 335 Score = 42.7 bits (99), Expect = 0.076, Method: Composition-based stats. Identities = 48/264 (18%), Positives = 87/264 (32%), Gaps = 51/264 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG----VLHEI- 72 + + + + + FA N+LRR ++S + AI VQI+ + E Sbjct: 17 VKITEAGSHHVDFELSNVDLSFA----NSLRRTILSEVPTIAIDRVQIEANTSVLADEFI 72 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSH-------KRVTIFKRGPG----VVTAGDIQT 121 + G+ + N + D +T+ R G V A D+ Sbjct: 73 AHRLGL---IPLNSKNCDDVIYTRDCDCDGNCELCSVTLTLHARCTGDEIMKVYARDLVV 129 Query: 122 VND-----I---EVLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHR------TE 164 + + +PD VI L +RM+ KG AK Sbjct: 130 DPQRANKWVGNPVITDPDGLGPVIAKLRKGQELRMKCIALKGIAKEHAKWAPTAAVGFEY 189 Query: 165 NDPIGLITIDALYS-------PIKKVSYTVESAREGQVLDYDKL----SMTIDTDGSITG 213 + L ID Y P K + E +EG DYD + +++ G++ Sbjct: 190 DPHNKLKHIDLWYEHDAAKEWPKSKYADWEEPPQEGAPFDYDAVPNNFYFEVESIGNLEP 249 Query: 214 EDSVALASRILQDQLGMFINFEEP 237 + + +++Q +L + Sbjct: 250 DAIIQQGIKVMQQKLAAVLQDLTE 273 >gi|284161974|ref|YP_003400597.1| hypothetical protein Arcpr_0861 [Archaeoglobus profundus DSM 5631] gi|284011971|gb|ADB57924.1| hypothetical protein Arcpr_0861 [Archaeoglobus profundus DSM 5631] Length = 261 Score = 42.7 bits (99), Expect = 0.077, Method: Composition-based stats. Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 16/88 (18%) Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR-- 294 K ++ ++ V E + + L I +GDL+ +++ +++ Sbjct: 173 EKIVREKQREWFCYQVRKKGIETVAEDDTELAIFRSL---GIYTIGDLLSKSDEELIEAF 229 Query: 295 ----------MANFGRKSLVEIKGVLGT 312 + +F + L EIK L Sbjct: 230 KEKYKPTADLLEHF-KNRLKEIKEKLKE 256 >gi|289191580|ref|YP_003457521.1| RNA polymerase insert [Methanocaldococcus sp. FS406-22] gi|288938030|gb|ADC68785.1| RNA polymerase insert [Methanocaldococcus sp. FS406-22] Length = 191 Score = 42.7 bits (99), Expect = 0.077, Method: Composition-based stats. Identities = 40/193 (20%), Positives = 76/193 (39%), Gaps = 34/193 (17%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 NA+RR+++S + AI V I + + +++ L + I K +S Sbjct: 28 NAIRRIMISEVPTYAIEDVYI------YENSSSMDDEILAHRLGLIPIKGKPLIESEVIT 81 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 T+ K GP V + D+++ N EV + I L +++E G G AK Sbjct: 82 FTLEKEGPCTVYSSDLKSENG-EVAFKNIPIVKLGRGQKIKIECEAVPGIGKTHAKWQ-- 138 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 +A+Y + D++ ++T G + E+ + A +I Sbjct: 139 --------PCNAVYKQVA----------------EDEVEFFVETFGQMEAEEILEEAVKI 174 Query: 224 LQDQLGMFINFEE 236 L+++ F+ E Sbjct: 175 LKNKAESFLQQLE 187 >gi|39942270|ref|XP_360672.1| hypothetical protein MGG_03215 [Magnaporthe oryzae 70-15] gi|145015793|gb|EDK00283.1| hypothetical protein MGG_03215 [Magnaporthe oryzae 70-15] Length = 330 Score = 42.7 bits (99), Expect = 0.078, Method: Composition-based stats. Identities = 43/248 (17%), Positives = 86/248 (34%), Gaps = 44/248 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 +L N++RRV+++ + AI +I + H + + ++++ Sbjct: 36 LSLANSIRRVMLAEIPTVAIDNCEIKENTSVLADEFIAHRLGLVPLSARGASELVYARDC 95 Query: 92 INLKMSGDSHKRVTIFKRGPGV-------VTAGDIQTVN-----DI---EVLNPD---HV 133 + + +TI + V A D+ + + +PD + Sbjct: 96 DCEQYCENCSVIITIHAKCESEDPNYVMKVYARDMVVDGRRVNQSVGTPVITDPDGLGVI 155 Query: 134 ICNLDVDAVVRMELTVSKGHG-----YVPAKHHRTENDPIGLI-TIDALYSPIKKVSY-- 185 + L + V + KG + PA E DP + +D Y K + Sbjct: 156 LFKLRRNQEVHIRCVAKKGIAKEHAKWCPATAIGFEYDPHNKLRHLDLWYESNAKEEWPL 215 Query: 186 -----TVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEE 236 +EG+ DYD + ++T G++ + V R+LQ++L + E Sbjct: 216 SENAIREPPPQEGEPFDYDAVPNRFYFDVETCGALDPDVIVQEGLRVLQEKLANLVMLIE 275 Query: 237 PKKEVKED 244 E K Sbjct: 276 KTDESKGM 283 >gi|110668834|ref|YP_658645.1| DNA-directed RNA polymerase subunit D [Haloquadratum walsbyi DSM 16790] gi|109626581|emb|CAJ53045.1| DNA-directed RNA polymerase subunit D [Haloquadratum walsbyi DSM 16790] Length = 262 Score = 42.7 bits (99), Expect = 0.082, Method: Composition-based stats. Identities = 36/254 (14%), Positives = 82/254 (32%), Gaps = 51/254 (20%) Query: 15 IEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEIS 73 IE+I ++ + RG + N +RR +++ + +I V+ + Sbjct: 7 IEFIERD-TDDRSARFLV----RGVTPAVANGIRRAMVADIPTFSIEDVRFVENSSVMFD 61 Query: 74 SIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVND-IEVLNPDH 132 + G+ L + + ++ +++ GP +GDI + + +E + + Sbjct: 62 EMIGLRLGLVPLTTPVDDFDI----GDTVTLSLDITGPQTAYSGDIVSSDRLVEPADENI 117 Query: 133 VICNLDVDAVVRME--LTVSKGH-----------GYVPAKHHRTENDPIGLITID----- 174 I L + + +E + G GY + D D Sbjct: 118 PIIELKENHRLELEADAVLDTGKSHAKQQGGVAVGYRHLQRIEVIGDADEFADEDPHILR 177 Query: 175 ------ALYSPIKKVSYTVESAREGQVLD----------------YDKLSMTIDTDGSIT 212 A + + + + + + + + ++TDGS + Sbjct: 178 GVIEEGAATHAVDETATNGDLIPTTEFDNDLTNRYPGKELTVSDVPNAVVFHVETDGSFS 237 Query: 213 GEDSVALASRILQD 226 + V A+R L D Sbjct: 238 VPELVERAARSLGD 251 >gi|229126551|ref|ZP_04255565.1| hypothetical protein bcere0015_10080 [Bacillus cereus BDRD-Cer4] gi|228656940|gb|EEL12764.1| hypothetical protein bcere0015_10080 [Bacillus cereus BDRD-Cer4] Length = 95 Score = 42.7 bits (99), Expect = 0.085, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 25/53 (47%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + +L + +E ++L++ G SL +++ VL L Sbjct: 42 LSAPARRALEHRGIQTVEELSKYSEKEILKLHGMGPASLPKLRKVLEESWLSF 94 >gi|150399384|ref|YP_001323151.1| RNA polymerase insert [Methanococcus vannielii SB] gi|150012087|gb|ABR54539.1| RNA polymerase insert [Methanococcus vannielii SB] Length = 195 Score = 42.7 bits (99), Expect = 0.087, Method: Composition-based stats. Identities = 39/160 (24%), Positives = 62/160 (38%), Gaps = 14/160 (8%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S + AI V + S V +I +KG+ + SGD T Sbjct: 29 ALRRLMISEVPTYAIENVYFY--ENTSSMYDEVLAHRLGLIP-VKGVPV--SGDEVVVFT 83 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 + K GP V + D+++ E+ + I L + E G G AK N Sbjct: 84 LSKEGPCTVYSSDLKSEAG-EIAFENIPIVKLAEGQKLEFEAEALVGTGKFHAKWQPC-N 141 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTI 205 I+ D + +T+ES D + S+ I Sbjct: 142 VVYKQISNDEV-------EFTIESFGNMDAEDIIRSSLEI 174 >gi|253576488|ref|ZP_04853817.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786 str. D14] gi|251844125|gb|EES72144.1| conserved hypothetical protein [Paenibacillus sp. oral taxon 786 str. D14] Length = 64 Score = 42.7 bits (99), Expect = 0.091, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 24/53 (45%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L + + L + +E ++LR G S+ ++K L + GL Sbjct: 10 LSAPARRALEANGVTTLEKLAELSEQEVLRFHGMGPASIPKLKEALRSKGLTF 62 >gi|254167792|ref|ZP_04874642.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Aciduliprofundum boonei T469] gi|289597072|ref|YP_003483768.1| RNA polymerase insert [Aciduliprofundum boonei T469] gi|197623320|gb|EDY35885.1| RNA polymerase Rpb3/Rpb11 dimerisation domain [Aciduliprofundum boonei T469] gi|289534859|gb|ADD09206.1| RNA polymerase insert [Aciduliprofundum boonei T469] Length = 273 Score = 42.7 bits (99), Expect = 0.094, Method: Composition-based stats. Identities = 44/271 (16%), Positives = 86/271 (31%), Gaps = 62/271 (22%) Query: 20 LGQEEENRTLMIAEPLPRGFAHT--LGNALRRVLMSSLRGAAITAVQI--------DGVL 69 + + ++ + T + NALRR L++ + AI V +G + Sbjct: 5 ILELQDRYIKFEIK------GITPSVANALRRTLINDIPKLAIHKVIFHHGQIRDMEGNV 58 Query: 70 HEISS--IKGVHEDLTDIILNIKGINLKMSGDSHKRV-----------TIFKRGPGVVTA 116 ++ S+ + +I +N+K + T+ K GP V + Sbjct: 59 YDSSTPLFDEIIAHRLGLIPLPTDLNMKFRDECDHPPDEGCPLCTVTYTLNKHGPATVYS 118 Query: 117 GDIQTVND--IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH------------- 161 GD+ V D + ++P I L + +E G AK Sbjct: 119 GDLIPVGDEKFKPVDPLIPIVKLKEHQAILLEAEAIMGTAKEHAKWQVTSGVSYKYHREI 178 Query: 162 ------------RTENDPIGLITIDALY------SPIKKVSYTVESAREGQVLDYDKLSM 203 ++ P +I D + P K+++ + D Sbjct: 179 KVNKKDSELWEKVKKSCPKNVIKEDDKFIIFTDDIPCKEIAEILSFENPEITEDDSWFIF 238 Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINF 234 +TDGS+ D++ A + L+ + Sbjct: 239 EFETDGSLKAIDTLEYAIKRLKTRFNTLREH 269 >gi|21228260|ref|NP_634182.1| DNA-directed RNA polymerase subunit D [Methanosarcina mazei Go1] gi|23822085|sp|Q8PV16|RPOD_METMA RecName: Full=DNA-directed RNA polymerase subunit D gi|20906717|gb|AAM31854.1| DNA-directed RNA polymerase subunit D [Methanosarcina mazei Go1] Length = 266 Score = 42.7 bits (99), Expect = 0.094, Method: Composition-based stats. Identities = 24/155 (15%), Positives = 53/155 (34%), Gaps = 15/155 (9%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + + + + A N +RR +++ + AI V + D Sbjct: 5 VDILELSDRSAKFVLS--RVSMA--FANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQL 60 Query: 77 GVHEDLTDIILNIKGINLKMSGD---------SHKRVTIFKRGPGVVTAGDIQT-VNDIE 126 + L ++ +I+ + + +T+ GPG V + D+ + I+ Sbjct: 61 ALRLSLIPLVTDIETYMPQAECEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQ 120 Query: 127 VLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 +P+ I L + +E G+G K Sbjct: 121 PADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQ 155 >gi|183220911|ref|YP_001838907.1| transcription elongation factor NusA [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189911007|ref|YP_001962562.1| transcription elongation factor NusA [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167775683|gb|ABZ93984.1| Transcription elongation factor [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167779333|gb|ABZ97631.1| N utilization substance protein A [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 466 Score = 42.3 bits (98), Expect = 0.096, Method: Composition-based stats. Identities = 15/110 (13%), Positives = 35/110 (31%) Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 + I T E + A L E ++ + E Sbjct: 349 IDIKTVSQYNQELASPEAREKLDRLFNAQQEAMEESEDGYNQSGQDEEEEDSGFTPLSEI 408 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 L+ R L I + L++ ++ ++ +++ G+ + +I +L Sbjct: 409 PGLTPRIVGLLEAGGIKNVETLLEFSQEELSKISGIGKTTAEQILRLLRE 458 >gi|124027415|ref|YP_001012735.1| DNA-directed RNA polymerase subunit D [Hyperthermus butylicus DSM 5456] gi|123978109|gb|ABM80390.1| DNA-directed RNA polymerase subunit D [Hyperthermus butylicus DSM 5456] Length = 281 Score = 42.3 bits (98), Expect = 0.098, Method: Composition-based stats. Identities = 40/264 (15%), Positives = 83/264 (31%), Gaps = 60/264 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---------DGV 68 + + ++ + E GF L NA+RR S + A+ V++ + + Sbjct: 4 LCILDKDRLTIRLYVE----GFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEII 59 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKR------GPGVVTAGDIQT- 121 H + I ++ + GD V + +V +GD++T Sbjct: 60 AHRLGLIPLTSKEALQKYKRPEECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETS 119 Query: 122 VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI-----DAL 176 D+ + + I + D +R++ G+G AK + I D + Sbjct: 120 DPDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMPVSVAAHRYLPILEFNLDEM 179 Query: 177 YSPIKKV--------SYTVESAREGQVL---------------------------DYDKL 201 + + + R G + D + Sbjct: 180 SDECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRF 239 Query: 202 SMTIDTDGSITGEDSVALASRILQ 225 + I++ G++ ED V A+R + Sbjct: 240 ILKIESTGALPPEDIVREAARAIV 263 >gi|150402492|ref|YP_001329786.1| RNA polymerase insert [Methanococcus maripaludis C7] gi|150033522|gb|ABR65635.1| RNA polymerase insert [Methanococcus maripaludis C7] Length = 180 Score = 42.3 bits (98), Expect = 0.098, Method: Composition-based stats. Identities = 41/181 (22%), Positives = 73/181 (40%), Gaps = 32/181 (17%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S + AI V + S V +I IKG+ + SGD +T Sbjct: 14 ALRRIMISEVPTYAIENVYFY--ENTSSMYDEVLAHRLGLIP-IKGVPV--SGDEVIVLT 68 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I K GP +V + D+++ + + I L + +E G G + AK Sbjct: 69 ISKEGPCMVYSSDLKSESGEPAF-ENIPIVKLAEGQKLELEAEALVGTGKIHAKWQ---- 123 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 +A+Y + + D++ I++ G++ ED V + IL+ Sbjct: 124 ------PCNAVY----------------KQISNDEVEFKIESFGNMDAEDIVRSSLEILK 161 Query: 226 D 226 + Sbjct: 162 N 162 >gi|21224924|ref|NP_630703.1| protein kinase [Streptomyces coelicolor A3(2)] gi|3451455|emb|CAA20514.1| putative protein kinase [Streptomyces coelicolor A3(2)] Length = 1557 Score = 42.3 bits (98), Expect = 0.10, Method: Composition-based stats. Identities = 12/78 (15%), Positives = 26/78 (33%) Query: 240 EVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFG 299 + L + L+ + + L G I +G+L+ + ++ G Sbjct: 852 PETAEQQRDRLAAEVTRDTPLTVSGLTPAAQSFLYGLGITTVGELLDYSRRKLVNAPGLG 911 Query: 300 RKSLVEIKGVLGTMGLFL 317 K+ E++ G L Sbjct: 912 AKTRNEVQQRQREWGERL 929 >gi|289809444|ref|ZP_06540073.1| DNA-directed RNA polymerase subunit alpha [Salmonella enterica subsp. enterica serovar Typhi str. AG3] Length = 45 Score = 42.3 bits (98), Expect = 0.10, Method: Composition-based stats. Identities = 18/45 (40%), Positives = 30/45 (66%) Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 S+ +GV ED+ +I+LN+KG+ +++ G +T+ K G G VTA Sbjct: 1 STKEGVQEDILEILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAA 45 >gi|330466646|ref|YP_004404389.1| hypothetical protein VAB18032_13385 [Verrucosispora maris AB-18-032] gi|328809617|gb|AEB43789.1| hypothetical protein VAB18032_13385 [Verrucosispora maris AB-18-032] Length = 65 Score = 42.3 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 14/55 (25%), Positives = 25/55 (45%) Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 ++S +T L + DL+ + A++ + G K+L I+ L L LG Sbjct: 10 KISAPATRALHNAGYATLRDLVGVSRAELAELHGMGPKALGIIQSALEEHNLTLG 64 >gi|68069197|ref|XP_676509.1| DNA-directed RNA polymerase I [Plasmodium berghei strain ANKA] gi|56496241|emb|CAH97452.1| DNA-directed RNA polymerase I, putative [Plasmodium berghei] Length = 334 Score = 42.3 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 38/268 (14%), Positives = 84/268 (31%), Gaps = 48/268 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQI---DGV--LHEISSIKGVH-----------EDLTD 84 ++ NALRR+++S + AI V I GV + G+ +D + Sbjct: 69 VSIANALRRIMISEVPTIAIEKVNIFQNTGVIADEILCHRLGLIPFKFDADLINFKDTHE 128 Query: 85 IILNIKGINLKMSGDSH--KRVTIFKRGPGVVTAGDIQ--------------TVNDIEVL 128 N+ K+ + I + + D++ + + Sbjct: 129 KYNNLNCFCFKLHVKCNSINNNKIGNENYQCIYSKDLKWCPLNEEQKIKFESNPPKV--V 186 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVE 188 + + +I L + + + KG G AK + + + K+ T + Sbjct: 187 DDNILITKLGNGQEIELICFLEKGIGKTHAKWS-------------PVCTAVYKMFPTFD 233 Query: 189 SAREGQVLDYDKL-SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 + +Y+K ++I E+S L ++ D E+ +++ Sbjct: 234 FDVHEKFTNYEKKDILSICPKNVFDIEESGNLVAKNPLDCSSCRACIEKYPQKISFQKKK 293 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRG 275 F + ++ N L+ Sbjct: 294 NHFIFTVESTGCFSSANIFKKALNILKE 321 >gi|167044977|gb|ABZ09642.1| putative RNA polymerase Rpb3/RpoA insert domain protein [uncultured marine crenarchaeote HF4000_APKG8G2] Length = 214 Score = 42.3 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 27/183 (14%), Positives = 59/183 (32%), Gaps = 40/183 (21%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRR+ ++ + AI V + +G+ H + I + +L + + L Sbjct: 41 ANALRRICLNGVPIFAIDTVDVIENSSVIPDEGIAHTLGMIP-LKTELNGFDESNSRVIL 99 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 + ++ + I A ++ ++ I +L +++E G G Sbjct: 100 VLDSEAAENTKIVTS------AELESKDQVVKPISKQIPIVHLAPGQRIKLEAYARLGRG 153 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 AK + + D+ +T++T GS+ Sbjct: 154 TEHAKWNSANISVLT------------------------NTDKEDERILTVETTGSLEPR 189 Query: 215 DSV 217 + Sbjct: 190 QII 192 >gi|118352484|ref|XP_001009513.1| Guanylate-binding protein, N-terminal domain containing protein [Tetrahymena thermophila] gi|89291280|gb|EAR89268.1| Guanylate-binding protein, N-terminal domain containing protein [Tetrahymena thermophila SB210] Length = 1132 Score = 42.3 bits (98), Expect = 0.11, Method: Composition-based stats. Identities = 17/107 (15%), Positives = 38/107 (35%), Gaps = 16/107 (14%) Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 + +K N +E +S + + DL + ++ + Sbjct: 323 KNESIKAMDECLYEMQNNLEQMMNQEGAISSQ-----------QIHDLKAKVREEL--IK 369 Query: 297 NFGRKSL---VEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDKC 340 NF +KS+ E+K + D+ ++ E L ++++D C Sbjct: 370 NFKKKSIASEEELKEFYEQLDRQFAEKFRDFKKKNKERLQERFQDMC 416 >gi|297623200|ref|YP_003704634.1| hypothetical protein Trad_0961 [Truepera radiovictrix DSM 17093] gi|297164380|gb|ADI14091.1| conserved hypothetical protein [Truepera radiovictrix DSM 17093] Length = 72 Score = 42.3 bits (98), Expect = 0.12, Method: Composition-based stats. Identities = 9/46 (19%), Positives = 19/46 (41%) Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L+ + +E ++L++ G K+L ++ L GL Sbjct: 19 LKRAGYTRLEQFAGVSETELLKLHGVGPKALAVLREALAERGLAFA 64 >gi|327402170|ref|YP_004343008.1| hypothetical protein Fluta_0161 [Fluviicola taffensis DSM 16823] gi|327317678|gb|AEA42170.1| hypothetical protein Fluta_0161 [Fluviicola taffensis DSM 16823] Length = 95 Score = 42.3 bits (98), Expect = 0.12, Method: Composition-based stats. Identities = 11/53 (20%), Positives = 27/53 (50%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + ++ +I + +L + +E ++++ G+ S+ +K +L GL Sbjct: 41 LSAPARRAIQNNHISSLEELSKYSEKEIMKFHGIGKTSIPTLKKLLTDKGLSF 93 >gi|302511159|ref|XP_003017531.1| hypothetical protein ARB_04413 [Arthroderma benhamiae CBS 112371] gi|291181102|gb|EFE36886.1| hypothetical protein ARB_04413 [Arthroderma benhamiae CBS 112371] Length = 362 Score = 42.3 bits (98), Expect = 0.12, Method: Composition-based stats. Identities = 35/223 (15%), Positives = 64/223 (28%), Gaps = 57/223 (25%) Query: 1 MIQKNWQELIKPNNIEYIVLG--QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGA 58 ++ N + P ++ + + + + G + NA RR+L++ + Sbjct: 17 LLYSNVAPYLPPWKLKGLKIEFHKNDPLEASFSL----IGVDAAIANAFRRILLAEIPAL 72 Query: 59 AITAVQIDG---------VLHEISSIK-------------------------GVHEDLTD 84 AI V I + H + I HED Sbjct: 73 AIEYVYIQNNTSVIQDEVLAHRLGLIPLKGSLEGLNWLRWFKIPKEGDPDSGSTHEDSNT 132 Query: 85 IILNIKGINLKMSG---DSHKRVTIFKRGPGVVTAGDIQTVND------------IEVLN 129 I+L + K D ++ + A D+ I+ N Sbjct: 133 IVLRLVKECTKNRNSAPDEEDPTVLYNNAH--IYAKDLVFEPQGRQEKYFHGDGVIQPCN 190 Query: 130 PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 PD ++ L + +E+ KG G AK L+ Sbjct: 191 PDTLLAKLRPGQKIDIEMHCIKGIGADHAKFSPVATASYRLLP 233 >gi|14702171|ref|NP_116558.1| DNA-directed RNA polymerase II subunit RPB3 [Homo sapiens] gi|109128647|ref|XP_001098417.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3 isoform 3 [Macaca mulatta] gi|114662810|ref|XP_001148305.1| PREDICTED: DNA directed RNA polymerase II polypeptide C isoform 1 [Pan troglodytes] gi|296231192|ref|XP_002761051.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3-like [Callithrix jacchus] gi|297698834|ref|XP_002826511.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3-like [Pongo abelii] gi|3915850|sp|P19387|RPB3_HUMAN RecName: Full=DNA-directed RNA polymerase II subunit RPB3; Short=RNA polymerase II subunit 3; Short=RNA polymerase II subunit B3; AltName: Full=DNA-directed RNA polymerase II 33 kDa polypeptide; Short=RPB33; AltName: Full=DNA-directed RNA polymerase II subunit C; AltName: Full=RPB31 gi|2266931|gb|AAC14355.1| RNA polymerase II subunit hRPB33 [Homo sapiens] gi|3252823|gb|AAC24309.1| RNA polymerase II subunit hRPB33 [Homo sapiens] gi|12653281|gb|AAH00409.1| Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Homo sapiens] gi|13111973|gb|AAH03159.1| Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Homo sapiens] gi|20380436|gb|AAH28157.1| Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Homo sapiens] gi|49457035|emb|CAG46838.1| POLR2C [Homo sapiens] gi|60823189|gb|AAX36635.1| polymerase II polypeptide C [synthetic construct] gi|90079489|dbj|BAE89424.1| unnamed protein product [Macaca fascicularis] gi|119603332|gb|EAW82926.1| hCG2025883, isoform CRA_b [Homo sapiens] gi|119603333|gb|EAW82927.1| hCG2025883, isoform CRA_b [Homo sapiens] gi|119603335|gb|EAW82929.1| hCG2025883, isoform CRA_b [Homo sapiens] gi|119603336|gb|EAW82930.1| hCG2025883, isoform CRA_b [Homo sapiens] gi|123981016|gb|ABM82337.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [synthetic construct] gi|123995821|gb|ABM85512.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [synthetic construct] gi|157928942|gb|ABW03756.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [synthetic construct] gi|158259685|dbj|BAF85801.1| unnamed protein product [Homo sapiens] gi|208967078|dbj|BAG73553.1| polymerase (RNA) II (DNA directed) polypeptide C [synthetic construct] Length = 275 Score = 42.3 bits (98), Expect = 0.12, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 90/256 (35%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I + +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|46109130|ref|XP_381623.1| hypothetical protein FG01447.1 [Gibberella zeae PH-1] Length = 337 Score = 42.3 bits (98), Expect = 0.12, Method: Composition-based stats. Identities = 39/228 (17%), Positives = 79/228 (34%), Gaps = 42/228 (18%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 + NA+RRV+ + + AI V+I+ + H + I + + ++ + Sbjct: 36 LSFANAVRRVIQAEVPTIAIDLVEIETNSSVLADEFIAHRLGLIPLDSKGVAELNYSRDC 95 Query: 92 INLKMSGDSHKRVTIFKRGP----GVVTAGDIQTVNDI-------EVLNPDHV---ICNL 137 + +T+ + V A D+ +++P+ I L Sbjct: 96 DCEQYCEQCSVTLTLHAKCTSDEIMKVYARDLVVDGRHGNSVGSPMIMDPEGYGCLIAKL 155 Query: 138 DVDAVVRMELTVSKGHGYVPAKHHR------TENDPIGLITID---------ALYSPIKK 182 +++ KG AK + L ID A+ P K Sbjct: 156 RKHQELKISCIAKKGIAKEHAKWMPTSAVGFEYDPHNKLNHIDWWFENDTDPAVEWPKSK 215 Query: 183 VSYTVESAREGQVLDYD----KLSMTIDTDGSITGEDSVALASRILQD 226 + ++ +EG+ DYD + +++ GS+ + V R+LQ Sbjct: 216 YAQWEDAPQEGEPFDYDAVPNRFYFEVESSGSMEPDQIVREGIRVLQQ 263 >gi|320108355|ref|YP_004183945.1| NusA antitermination factor [Terriglobus saanensis SP1PR4] gi|319926876|gb|ADV83951.1| NusA antitermination factor [Terriglobus saanensis SP1PR4] Length = 562 Score = 41.9 bits (97), Expect = 0.13, Method: Composition-based stats. Identities = 13/77 (16%), Positives = 30/77 (38%), Gaps = 1/77 (1%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEE-LELSVRSTNCLRGENIVYMGDLIQRTE 289 + + ++E ++++ + A +E+ EL L I + L T Sbjct: 337 WKIDIKSEEEKRQEVEQQMSAMQGAPQTPIEQVTELGESVLEKLIAAGITTVESLADMTA 396 Query: 290 ADMLRMANFGRKSLVEI 306 ++ + G KS+ +I Sbjct: 397 EELEEVPGIGEKSVEKI 413 >gi|225707818|gb|ACO09755.1| DNA-directed RNA polymerase II 33 kDa polypeptide [Osmerus mordax] Length = 275 Score = 41.9 bits (97), Expect = 0.13, Method: Composition-based stats. Identities = 47/259 (18%), Positives = 91/259 (35%), Gaps = 57/259 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + + E +T + N++RRV MS + AI +QID Sbjct: 9 VKITELSDENVKFVIE-------NTDLAVANSIRRVFMSEVATIAIDWIQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRVGLIPLTSDDIVDKMQYSRDCTCDDFCPECSVELTLDVRCTEDQTRHVTSRDLL 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D ++ L +R+ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDIILVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +AL YS I++ G+ ++ +++ GS Sbjct: 182 VSFEYDPDNALRHTVFPRPEEWPKSEYSEIEEDEVEAPYDPNGKP---ERFYYNVESCGS 238 Query: 211 ITGEDSVALASRILQDQLG 229 + E V A +L+ +L Sbjct: 239 LRPETIVMSALAVLKKKLS 257 >gi|115963733|ref|XP_001176308.1| PREDICTED: hypothetical protein [Strongylocentrotus purpuratus] gi|115977296|ref|XP_001176467.1| PREDICTED: hypothetical protein [Strongylocentrotus purpuratus] Length = 275 Score = 41.9 bits (97), Expect = 0.14, Method: Composition-based stats. Identities = 45/274 (16%), Positives = 90/274 (32%), Gaps = 59/274 (21%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQID---GVLH- 70 I L + ++ I E T + N++RR +++ + AI V+I VLH Sbjct: 9 IQLTELTDDNVKFIIE-------DTDLSVANSIRRTILAEVPTIAIDWVEIQANSSVLHD 61 Query: 71 EI-SSIKGVH-----EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV----VTAGDI- 119 E S G+ E + + N + D +++ + VT+ D+ Sbjct: 62 EFISHRVGLIPLTSDEVVDKLNFNRDCGCEEFCSDCSVELSLDVKCTDDQTRHVTSRDLL 121 Query: 120 -------------QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 Q +D ++ D +I L +R+ KG G AK T Sbjct: 122 SSNQKVVPVPSRNQESSDYGEVD-DILIVKLRKGQELRLRAYAKKGFGKDHAKWVPTAAI 180 Query: 167 PIGLITIDALYSPIKKVSY-------TVESAREGQVLDY---------DKLSMTIDTDGS 210 + ++ Y E + +K +++ G+ Sbjct: 181 AFEYDPD----NIMRHTVYPKPEEWPKSEFTEVDEDTAQGKFDGDAVPNKFFFNVESIGA 236 Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKED 244 +T E+ V +L+ +L + + + + Sbjct: 237 LTPENIVFSGLSVLKKKLSDLQTQHSHEAQAQAE 270 >gi|325115249|emb|CBZ50804.1| rna polymerase II, related [Neospora caninum Liverpool] Length = 346 Score = 41.9 bits (97), Expect = 0.14, Method: Composition-based stats. Identities = 43/246 (17%), Positives = 72/246 (29%), Gaps = 64/246 (26%) Query: 45 NALRRVLMSSLRGAAITAVQI---DGVL------HEISSIKGVHEDLT-------DIILN 88 NALRR+L+S + AI VQI GV+ H + I V + + Sbjct: 84 NALRRILISEVPTIAIETVQIWQNTGVVQDEVLAHRLGLIPFVVDPTALNYRQPNQEFTD 143 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI------------EVLNPDHVICN 136 + + + ++ + V A DI+ ++PD +I Sbjct: 144 ENALRVSLHVKCTEQSLGPHQTSLPVYARDIKWEPMSPSQKEAFAANPPRAVHPDILITK 203 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHH---------RTENDPIGLIT---IDALYSPIKKVS 184 L + ++ + KG G AK E I L S Sbjct: 204 LRPGQEIELKAYLEKGVGKTHAKWSPVCTAVYRLEPEIVFKEPIQGEEASDLCSLCPMGV 263 Query: 185 YTVESA------------------------REGQVLDYDKLSMTIDTDGSITGEDSVALA 220 + VE D +I++ GS+ +A Sbjct: 264 FDVEDTTGEAYARYPRNCTTCRACIERFPNGIELRKIKDHFIFSIESTGSVPAPLLFKMA 323 Query: 221 SRILQD 226 IL++ Sbjct: 324 IEILKE 329 >gi|159905734|ref|YP_001549396.1| RNA polymerase insert [Methanococcus maripaludis C6] gi|159887227|gb|ABX02164.1| RNA polymerase insert [Methanococcus maripaludis C6] Length = 180 Score = 41.9 bits (97), Expect = 0.15, Method: Composition-based stats. Identities = 42/181 (23%), Positives = 73/181 (40%), Gaps = 32/181 (17%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S + AI V + S V +I IKG+ + SGD +T Sbjct: 14 ALRRIMISEVPTYAIENVYFY--ENTSSMYDEVLAHRLGLIP-IKGVPV--SGDEVIVLT 68 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I K GP +V + DI++ + + I L + +E G G + AK Sbjct: 69 ISKEGPCMVYSSDIKSESGEPAF-ENIPIVKLAEGQKLELETEALVGTGKIHAKWQ---- 123 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 +A+Y + + D++ I++ G++ ED V + IL+ Sbjct: 124 ------PCNAVY----------------KQISNDEVEFKIESFGNMDAEDIVRSSLEILK 161 Query: 226 D 226 + Sbjct: 162 N 162 >gi|134045316|ref|YP_001096802.1| DNA-directed RNA polymerase subunit D [Methanococcus maripaludis C5] gi|132662941|gb|ABO34587.1| DNA-directed RNA polymerase, subunit D [Methanococcus maripaludis C5] Length = 180 Score = 41.9 bits (97), Expect = 0.15, Method: Composition-based stats. Identities = 40/181 (22%), Positives = 73/181 (40%), Gaps = 32/181 (17%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S + AI V + S V ++ IKG+ + SGD +T Sbjct: 14 ALRRIMISEVPTYAIENVYFY--ENTSSMYDEVLAHRLGLVP-IKGVPV--SGDEVIVLT 68 Query: 106 IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 I K GP +V + DI++ + + I L + +E G G + AK Sbjct: 69 ISKEGPCMVYSSDIKSESGEPAF-ENIPIVKLAEGQKLELEAEALVGTGKIHAKWQ---- 123 Query: 166 DPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQ 225 +A+Y + + D++ I++ G++ ED + + IL+ Sbjct: 124 ------PCNAVY----------------KQISNDEVEFKIESFGNMDAEDIIRSSLEILK 161 Query: 226 D 226 + Sbjct: 162 N 162 >gi|77735375|ref|NP_001029384.1| DNA-directed RNA polymerase II subunit RPB3 [Bos taurus] gi|73949776|ref|XP_535283.2| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide C (predicted) isoform 1 [Canis familiaris] gi|149699174|ref|XP_001494261.1| PREDICTED: similar to Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa isoform 1 [Equus caballus] gi|301752940|ref|XP_002912312.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3-like [Ailuropoda melanoleuca] gi|122146160|sp|Q3T0Q3|RPB3_BOVIN RecName: Full=DNA-directed RNA polymerase II subunit RPB3; Short=RNA polymerase II subunit 3; Short=RNA polymerase II subunit B3; AltName: Full=DNA-directed RNA polymerase II subunit C gi|74268238|gb|AAI02302.1| Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Bos taurus] gi|152941118|gb|ABS44996.1| DNA directed RNA polymerase II polypeptide C [Bos taurus] gi|281346645|gb|EFB22229.1| hypothetical protein PANDA_000038 [Ailuropoda melanoleuca] gi|296477912|gb|DAA20027.1| DNA-directed RNA polymerase II subunit RPB3 [Bos taurus] Length = 275 Score = 41.9 bits (97), Expect = 0.15, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 89/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|116205067|ref|XP_001228344.1| hypothetical protein CHGG_10417 [Chaetomium globosum CBS 148.51] gi|88176545|gb|EAQ84013.1| hypothetical protein CHGG_10417 [Chaetomium globosum CBS 148.51] Length = 338 Score = 41.9 bits (97), Expect = 0.16, Method: Composition-based stats. Identities = 43/254 (16%), Positives = 84/254 (33%), Gaps = 45/254 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + Q + R FA N+LRRV++ + AI V+I+ Sbjct: 17 VVKISQADPIRVKFELSNADIAFA----NSLRRVMLGEIPTIAIDLVEIEENSSVLADEF 72 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGV----VTAGDIQTVN 123 + H + I + + ++ R+T+ + G V A D+ Sbjct: 73 IAHRLGLIPLNADGVEGLLFARDCDCDGCCEHCSVRLTLHAKCTGDENMHVFARDLVPTG 132 Query: 124 -------DIEVLNPDH----VICNLDVDAVVRMELTVSKGHGYVPAKHHR------TEND 166 V++ +I L +++E KG AK + Sbjct: 133 ERINQVLGTPVVSDSEGLGALILKLRPGQEIKLECIAKKGIAKEHAKWAPSAAIGFEYDP 192 Query: 167 PIGLITIDALYSPIKKVSY-------TVESAREGQVLDYD----KLSMTIDTDGSITGED 215 L D Y K + E +EG+ DYD + +++ G++ + Sbjct: 193 HNKLRHTDFWYETDAKTEWPPSEYAAWEEPPQEGEPFDYDAVPNRFYFNVESAGNLPPDT 252 Query: 216 SVALASRILQDQLG 229 V+ +++Q +L Sbjct: 253 IVSEGIKVIQQKLA 266 >gi|183222334|ref|YP_001840330.1| hypothetical protein LEPBI_I2987 [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] gi|189912382|ref|YP_001963937.1| hypothetical protein LBF_2884 [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167777058|gb|ABZ95359.1| Conserved hypothetical protein [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)'] gi|167780756|gb|ABZ99054.1| Conserved hypothetical protein [Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'] Length = 67 Score = 41.9 bits (97), Expect = 0.16, Method: Composition-based stats. Identities = 13/41 (31%), Positives = 24/41 (58%) Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 I + DL + ++ D+LR+ FG SL +++ L +G+ L Sbjct: 25 GITKLEDLSRYSKQDLLRLHGFGPSSLPKLESELRKLGIQL 65 >gi|83646207|ref|YP_434642.1| serine/threonine protein kinase [Hahella chejuensis KCTC 2396] gi|83634250|gb|ABC30217.1| Serine/threonine protein kinase [Hahella chejuensis KCTC 2396] Length = 1385 Score = 41.9 bits (97), Expect = 0.16, Method: Composition-based stats. Identities = 19/113 (16%), Positives = 43/113 (38%), Gaps = 8/113 (7%) Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVK-SLPFNPALLKKVEELELSVRSTNCLR 274 A A+ +L+ +F+ + + V ++ LELS ++ + L Sbjct: 740 RFATAADMLRAWRQVFLQASKESRHPTVHGEVPTCPVEEAQQDTQIGLLELSPQALDALS 799 Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 N+ + DL+++ + + G K+ E+ ++ + WP E Sbjct: 800 RRNLNTVADLLKQNRSKVRAWPGVGIKTRNEVSELIRKLQ-------EKWPNE 845 >gi|15668364|ref|NP_247160.1| DNA-directed RNA polymerase subunit D [Methanocaldococcus jannaschii DSM 2661] gi|2500626|sp|Q57648|RPOD_METJA RecName: Full=DNA-directed RNA polymerase subunit D gi|1590937|gb|AAB98172.1| DNA-directed RNA polymerase, subunit D (rpoD) [Methanocaldococcus jannaschii DSM 2661] Length = 191 Score = 41.9 bits (97), Expect = 0.16, Method: Composition-based stats. Identities = 40/197 (20%), Positives = 80/197 (40%), Gaps = 34/197 (17%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKR- 103 NA+RR+++S + AI V I + + +++ L + I K ++ Sbjct: 28 NAIRRIMISEVPTFAIEDVYI------YENSSSMDDEILAHRLGLIPIKGKPLLENEVIT 81 Query: 104 VTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 T+ K GP V + D+++ N EV + I L +++E G G V AK Sbjct: 82 FTLEKEGPCTVYSSDLKSENG-EVAFKNIPIVKLGKGQRIQIECEAIPGIGKVHAKWQ-- 138 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 +A+Y + + D++ ++T G + E+ + A +I Sbjct: 139 --------PCNAVY----------------KQIADDEVEFFVETFGQMEAEEILEEAVKI 174 Query: 224 LQDQLGMFINFEEPKKE 240 L+++ F+ E ++ Sbjct: 175 LKNKAESFLQQLEMIEQ 191 >gi|29336059|ref|NP_033116.2| DNA-directed RNA polymerase II subunit RPB3 [Mus musculus] gi|60223073|ref|NP_001012491.1| DNA-directed RNA polymerase II subunit RPB3 [Rattus norvegicus] gi|12805131|gb|AAH02023.1| Polymerase (RNA) II (DNA directed) polypeptide C [Mus musculus] gi|59808391|gb|AAH89905.1| Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Rattus norvegicus] gi|68534485|gb|AAH99548.1| Polymerase (RNA) II (DNA directed) polypeptide C [Mus musculus] gi|74145092|dbj|BAE27415.1| unnamed protein product [Mus musculus] gi|74191349|dbj|BAE30257.1| unnamed protein product [Mus musculus] gi|74213568|dbj|BAE35592.1| unnamed protein product [Mus musculus] gi|149032426|gb|EDL87317.1| polymerase (RNA) II (DNA directed) polypeptide C, isoform CRA_b [Rattus norvegicus] Length = 275 Score = 41.5 bits (96), Expect = 0.16, Method: Composition-based stats. Identities = 48/256 (18%), Positives = 89/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + E I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTEENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|23098698|ref|NP_692164.1| hypothetical protein OB1243 [Oceanobacillus iheyensis HTE831] gi|22776925|dbj|BAC13199.1| hypothetical protein [Oceanobacillus iheyensis HTE831] Length = 96 Score = 41.5 bits (96), Expect = 0.17, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + N L E I + L + TE ++L++ G SL ++ L GL Sbjct: 40 SKLSSPARNALVHEGIDTLQALSKYTEKEILKIHGIGPVSLPIMRASLEEEGLSF 94 >gi|24638474|sp|P48337|RPOA_EUGGR RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha gi|15526343|emb|CAC69148.1| RNA polymerase subunit [Euglena gracilis] Length = 216 Score = 41.5 bits (96), Expect = 0.18, Method: Composition-based stats. Identities = 31/191 (16%), Positives = 66/191 (34%), Gaps = 42/191 (21%) Query: 47 LRRVLMSSLRGAAITAVQID-----------GVLHEISSIKGVHEDLTDIILNIKGINLK 95 +RR L+ L IT V V+H ++ + + L +I K + K Sbjct: 39 IRRYLLLDLESWNITNVMFFVTNNLKNTSTFHVVHNFLGLEELKQSLLEITKKFKLLRFK 98 Query: 96 MSGDSHK----RVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICN-LDVDAVVRMELTVS 150 + S++ + +GDI +++LN ++ + + +++ L + Sbjct: 99 LCSKSYQGNKFFAVLNAFEVKDFLSGDIIFPPHLKLLNSRELLFTKISFNITLKILLKIE 158 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALY-SPIKKVSYTVESAREGQVLDYDKLSMTIDTDG 209 A + PIK+++ +E + + TDG Sbjct: 159 AKK---------------------ASFQKPIKRLNLIIEKDEFFDN----YMIFDLTTDG 193 Query: 210 SITGEDSVALA 220 S+T ++ A Sbjct: 194 SVTPFNAFIKA 204 >gi|12837765|dbj|BAB23943.1| unnamed protein product [Mus musculus] Length = 275 Score = 41.5 bits (96), Expect = 0.18, Method: Composition-based stats. Identities = 48/256 (18%), Positives = 89/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + E I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTEENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSELDEDESQAPYDPKGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|227537029|ref|ZP_03967078.1| conserved domain protein [Sphingobacterium spiritivorum ATCC 33300] gi|227243121|gb|EEI93136.1| conserved domain protein [Sphingobacterium spiritivorum ATCC 33300] Length = 103 Score = 41.5 bits (96), Expect = 0.19, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 23/53 (43%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + L T ++L + G+ S+ ++ +L GL Sbjct: 42 LSNPARNSLLHHGINTLEALSAYTRKEILNLHGIGKASIPTLEKLLAGQGLSF 94 >gi|162455957|ref|YP_001618324.1| protein kinase [Sorangium cellulosum 'So ce 56'] gi|161166539|emb|CAN97844.1| Protein kinase [Sorangium cellulosum 'So ce 56'] Length = 1477 Score = 41.1 bits (95), Expect = 0.22, Method: Composition-based stats. Identities = 19/103 (18%), Positives = 32/103 (31%), Gaps = 10/103 (9%) Query: 206 DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELEL 265 +T + E A+ E E V + VE L L Sbjct: 754 ETAEQMRTEWIACFAA----------APSEAGADEADGAPPVAADLSIFTEATPVEALPL 803 Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 R N L IV + +L+ + + + GR++ I+ Sbjct: 804 GAREKNALDRSGIVTVRELLALPQNQLSAIRGVGRETARAIQD 846 >gi|45187753|ref|NP_983976.1| ADL120Cp [Ashbya gossypii ATCC 10895] gi|44982514|gb|AAS51800.1| ADL120Cp [Ashbya gossypii ATCC 10895] Length = 311 Score = 41.1 bits (95), Expect = 0.22, Method: Composition-based stats. Identities = 27/136 (19%), Positives = 52/136 (38%), Gaps = 24/136 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 +L N+LRR++++ + AI +V+I+ + H + + +D+ ++ Sbjct: 27 LSLANSLRRIMIAEIPTLAIDSVEIESNTSVLADEFISHRLGLVPLQSKDIDQLVYCRDC 86 Query: 92 INLKMSGDSHKRVTIFKRGPGV----VTAGDIQTVNDIEVLNPDHV-----------ICN 136 +T+ G V A D+Q V+D+ N H IC Sbjct: 87 FCEDHCDRCSVLLTLHAVGESESTTNVYAKDLQIVSDLGGKNIGHPIIQDKEANGVLICK 146 Query: 137 LDVDAVVRMELTVSKG 152 L +R++ KG Sbjct: 147 LRKGQELRLKCVAKKG 162 >gi|115752775|ref|XP_781436.2| PREDICTED: hypothetical protein isoform 1, partial [Strongylocentrotus purpuratus] Length = 246 Score = 41.1 bits (95), Expect = 0.23, Method: Composition-based stats. Identities = 40/246 (16%), Positives = 82/246 (33%), Gaps = 49/246 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQID---GVLH-EI-SSIKGVH-----EDLTDIILNIKGI 92 + N++RR +++ + AI V+I VLH E S G+ E + + N Sbjct: 1 VANSIRRTILAEVPTIAIDWVEIQANSSVLHDEFISHRVGLIPLTSDEVVDKLNFNRDCG 60 Query: 93 NLKMSGDSHKRVTIFKRGPGV----VTAGDI--------------QTVNDIEVLNPDHVI 134 + D +++ + VT+ D+ Q +D ++ D +I Sbjct: 61 CEEFCSDCSVELSLDVKCTDDQTRHVTSRDLLSSNQKVVPVPSRNQESSDYGEVD-DILI 119 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSY-------TV 187 L +R+ KG G AK T + ++ Y Sbjct: 120 VKLRKGQELRLRAYAKKGFGKDHAKWVPTAAIAFEYDPD----NIMRHTVYPKPEEWPKS 175 Query: 188 ESAREGQVLDY---------DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 E + +K +++ G++T E+ V +L+ +L + Sbjct: 176 EFTEVDEDTAQGKFDGDAVPNKFFFNVESIGALTPENIVFSGLSVLKKKLSDLQTQHSHE 235 Query: 239 KEVKED 244 + + + Sbjct: 236 AQAQAE 241 >gi|157962130|ref|YP_001502164.1| sigma-70 region 4 domain-containing protein [Shewanella pealeana ATCC 700345] gi|157847130|gb|ABV87629.1| sigma-70 region 4 domain protein [Shewanella pealeana ATCC 700345] Length = 930 Score = 41.1 bits (95), Expect = 0.23, Method: Composition-based stats. Identities = 20/57 (35%), Positives = 27/57 (47%) Query: 257 LKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 K +EEL L VR N + DL T+ ML NFGRKS ++ +L + Sbjct: 282 EKPLEELNLPVRLFNVFNVNGFTSLNDLKDITDKTMLSWPNFGRKSARDLYSLLLEI 338 >gi|320101538|ref|YP_004177130.1| DNA-directed RNA polymerase subunit D [Desulfurococcus mucosus DSM 2162] gi|319753890|gb|ADV65648.1| DNA-directed RNA polymerase, subunit D [Desulfurococcus mucosus DSM 2162] Length = 280 Score = 41.1 bits (95), Expect = 0.23, Method: Composition-based stats. Identities = 22/153 (14%), Positives = 45/153 (29%), Gaps = 29/153 (18%) Query: 45 NALRRVLMSSLR-----GAAITA------------------VQIDGVLHEISSIKGVHED 81 N+LRR ++S + AIT ++ D LH+ + E Sbjct: 26 NSLRRTIISEVPTMAVDYVAITENSSVFYDEYIAHRLGLIPLKSDEALHKYKPPEECAEA 85 Query: 82 LTDIILNIKG-INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVD 140 + + L++ + + + + D+ + + L + Sbjct: 86 GEKGVFSQDCFATLRLEAKGPEDGVLTIYSEML-----ESSDPDVTPVYGKVPVVRLTRN 140 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 +R+E G G AK I + Sbjct: 141 QSIRLEAYARLGRGKEHAKWSPVSVATHKYIPV 173 >gi|317127960|ref|YP_004094242.1| hypothetical protein Bcell_1246 [Bacillus cellulosilyticus DSM 2522] gi|315472908|gb|ADU29511.1| hypothetical protein Bcell_1246 [Bacillus cellulosilyticus DSM 2522] Length = 96 Score = 41.1 bits (95), Expect = 0.24, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + N L E I + L + TE ++L++ G SL ++ L GL Sbjct: 40 SKLSSPARNALIHEKIDTLPKLSKYTEKEILKIHGIGPASLPNLRASLKEAGLSF 94 >gi|327287828|ref|XP_003228630.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3-like [Anolis carolinensis] Length = 275 Score = 40.7 bits (94), Expect = 0.28, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 88/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELSDENVKFIVE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDVVDKLQYSRDCTCDEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D +I L +R+ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSEIDEDEAQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|224063830|ref|XP_002197873.1| PREDICTED: putative DNA directed RNA polymerase II polypeptide C [Taeniopygia guttata] gi|197127827|gb|ACH44325.1| putative DNA directed RNA polymerase II polypeptide C [Taeniopygia guttata] Length = 275 Score = 40.7 bits (94), Expect = 0.28, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 89/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKMQYSRDCTCDEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D +I L +R+ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYTVESAREGQ-----VLDYDKLSMTIDTDGSITG 213 +AL + K Y+ + Q ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSEIDDEDAQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|170581298|ref|XP_001895623.1| DNA-directed RNA polymerase II 33 kDa polypeptide [Brugia malayi] gi|158597360|gb|EDP35528.1| DNA-directed RNA polymerase II 33 kDa polypeptide, putative [Brugia malayi] Length = 275 Score = 40.7 bits (94), Expect = 0.29, Method: Composition-based stats. Identities = 43/230 (18%), Positives = 80/230 (34%), Gaps = 41/230 (17%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQID---GVLH-EISSIK--------GVHEDLTDIILN 88 ++ N+LRR+ M+ + AI VQI+ VLH E + + D + Sbjct: 28 LSVANSLRRIFMAEVPTMAIDWVQIESNSSVLHDEFIAHRLGLIPLTSDSVVDQMQFSRD 87 Query: 89 IKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVN-------DIEVLN--------PD 131 + R+ + G VT D++T N + + N D Sbjct: 88 CQCTEFCQFCAVEMRLRVRCDDEGIRAVTTADLETSNPDVAPACGVHIRNRNAEENASDD 147 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK-------KVS 184 +I L + ++ KG G AK + T +AL + K Sbjct: 148 ILIVKLRKGQDIDIKCIAKKGFGKEHAKWNPTCCVAFEYDPDNALRHTMLAKPEEWPKSE 207 Query: 185 YT-----VESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 Y+ A + +K T+++ G++ E+ + +L+ +L Sbjct: 208 YSQLEDDEYEAPFDPMAKPNKFWFTVESTGALKAENIILSGISVLKKKLA 257 >gi|313126017|ref|YP_004036287.1| DNA-directed RNA polymerase, subunit d [Halogeometricum borinquense DSM 11551] gi|312292382|gb|ADQ66842.1| DNA-directed RNA polymerase, subunit D [Halogeometricum borinquense DSM 11551] Length = 260 Score = 40.7 bits (94), Expect = 0.31, Method: Composition-based stats. Identities = 24/148 (16%), Positives = 54/148 (36%), Gaps = 14/148 (9%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIK 76 + + ++ + + RG + N +RR +++ + +I V+ + + Sbjct: 7 VEFIERDDRKARFLV----RGMTPAVANGIRRAMIADVPTFSIDTVRFVENSSVMFDEMI 62 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP---DHV 133 G+ L + + + + GP +GDI+T ++ ++ P + Sbjct: 63 GLRLGLVPLTTPLDD----FEQGDTVTLALDVEGPATAYSGDIETSDE--LVKPAEDNVP 116 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHH 161 I L + +E G G AKH Sbjct: 117 IIELKQGQRLELEADAVLGDGKSHAKHQ 144 >gi|78777616|ref|YP_393931.1| glycosyl transferase, group 1 [Sulfurimonas denitrificans DSM 1251] gi|78498156|gb|ABB44696.1| Glycosyl transferase, group 1 [Sulfurimonas denitrificans DSM 1251] Length = 365 Score = 40.7 bits (94), Expect = 0.33, Method: Composition-based stats. Identities = 13/51 (25%), Positives = 28/51 (54%), Gaps = 2/51 (3%) Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 ELSV+ + ++ NI +G+++ R E+ + ++ K+L IK ++ Sbjct: 35 ELSVKDYDNIKNINIKTLGEILSRDESTLSKLKYL--KALSAIKEIIKEFQ 83 >gi|312213137|emb|CBX93219.1| hypothetical protein [Leptosphaeria maculans] Length = 336 Score = 40.7 bits (94), Expect = 0.34, Method: Composition-based stats. Identities = 44/256 (17%), Positives = 81/256 (31%), Gaps = 57/256 (22%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI--------TAVQIDG-VLHEI 72 Q + R I + N+LRRV++S + AI T+V D V H + Sbjct: 16 QADNQRAHFIVQNFN----LETANSLRRVMLSEIPTLAIDVVEVLDNTSVLADEFVCHRL 71 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVN----- 123 I + + D++ + + +T+ + G V A D+ + Sbjct: 72 GLIPLCSKGVDDLLYSRDCDCEGYCSNCSVVLTLNAKCTGNEIMKVYARDLVVESMTPND 131 Query: 124 DI---EVLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-------------- 163 ++ + + D I L + M KG AK + Sbjct: 132 EVGRPVITDADGTGSCIVKLRRGQAIHMRCIAKKGIAKEHAKWAPSAAIGFEYDPANKLH 191 Query: 164 ------ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD----KLSMTIDTDGSITG 213 E DP D +++ A + DY+ + ++T G + Sbjct: 192 HLDYWHEEDPDKEWPKDE-----DRINLDGGPANPDEPFDYNAAPTRFFYDVETVGGLDP 246 Query: 214 EDSVALASRILQDQLG 229 + V +LQ +L Sbjct: 247 DQIVGKGITVLQHKLA 262 >gi|156089735|ref|XP_001612274.1| DNA-directed RNA polymerase, alpha subunit, N terminal domain containing protein [Babesia bovis] gi|154799528|gb|EDO08706.1| DNA-directed RNA polymerase, alpha subunit, N terminal domain containing protein [Babesia bovis] Length = 319 Score = 40.7 bits (94), Expect = 0.34, Method: Composition-based stats. Identities = 34/210 (16%), Positives = 69/210 (32%), Gaps = 45/210 (21%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID---GV----- 68 I + + E L + NA+RR+L++ + AI +V I GV Sbjct: 35 KIKFLKNTRYHAIAEIEGLN----VAIANAIRRILLAEVPTLAIESVHIYQNTGVIQDEV 90 Query: 69 -LHEISSIK-GVHEDLTDIILN-----IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 H + + + DL N + + + K ++ R V AGD++ Sbjct: 91 LAHRLGLVPFDCNPDLIPYRDNEDLSDKNSVCFHLKVECKKE-SLAGRTNLPVYAGDMKW 149 Query: 122 VN------DIEVLNPDHVIC------NLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIG 169 V ++ NP I L + ++ + KG G AK Sbjct: 150 VPLSDEQAELFKDNPPKPIHKDILLTKLSPGQEIDLKAYLEKGIGKTHAKWS-------- 201 Query: 170 LITIDALYSPIKKVSYTVESAREGQVLDYD 199 + + + + + + + + + + Sbjct: 202 -----PVCTAVYRFKPDITFSEDEPLTNDE 226 >gi|261404088|ref|YP_003240329.1| helix-hairpin-helix motif protein [Paenibacillus sp. Y412MC10] gi|261280551|gb|ACX62522.1| helix-hairpin-helix motif protein [Paenibacillus sp. Y412MC10] Length = 72 Score = 40.7 bits (94), Expect = 0.34, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 4/60 (6%) Query: 262 ELELSVRSTNCLRGENI----VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E + V++ N R I + DL + TE ++L + G K++ ++ L GL Sbjct: 11 ESDFPVKAGNPARRALIVAGYHRLADLTRATEKELLALHGVGPKAIGVLRAALAEKGLAF 70 >gi|50753469|ref|XP_414001.1| PREDICTED: hypothetical protein [Gallus gallus] Length = 275 Score = 40.7 bits (94), Expect = 0.34, Method: Composition-based stats. Identities = 46/256 (17%), Positives = 89/256 (34%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKMQYSRDCTCDEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + V D +I L +++ KG G AK + T Sbjct: 122 SNNPRVIPVTSRSRDNDPNDYVEQDDILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYTVESAREGQ-----VLDYDKLSMTIDTDGSITG 213 +AL + K Y+ + Q ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSEIDEEDAQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|171689616|ref|XP_001909748.1| hypothetical protein [Podospora anserina S mat+] gi|170944770|emb|CAP70881.1| unnamed protein product [Podospora anserina S mat+] Length = 334 Score = 40.7 bits (94), Expect = 0.36, Method: Composition-based stats. Identities = 45/254 (17%), Positives = 91/254 (35%), Gaps = 45/254 (17%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 + + Q + R + FA N+LRRV+++ + AI V+I+ Sbjct: 17 VVKISQADSVRVKFELQNADISFA----NSLRRVMLAEIPTIAIDLVEIESNSSVLADEF 72 Query: 68 VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVN 123 + H + I E + ++ + + + ++T+ + G V+A D+ V Sbjct: 73 IAHRLGLIPLNAEGVEHLLYSRDCDCEEYCENCSVKLTLHAKCTGYENMSVSARDLVPVG 132 Query: 124 -------DIEVLN----PDHVICNLDVDAVVRMELTVSKGHGYVPAKHHR------TEND 166 V+N +I L + +++E KG AK + Sbjct: 133 ERINQSLGTPVINDKDGTGPLILKLRPEQEIKLECIAKKGIAKEHAKWAPSAAIGFEYDP 192 Query: 167 PIGLITIDALYSPIKKVSY-------TVESAREGQVLDYDKL----SMTIDTDGSITGED 215 L +D Y K + E EG+ D+D + ++T G++ + Sbjct: 193 HNKLRHLDLWYEKDPKSEWPPSEYAKWEEPPVEGEPFDFDAVPNHFYYNVETAGNLPPDG 252 Query: 216 SVALASRILQDQLG 229 V +++Q +L Sbjct: 253 IVTEGIKVIQQKLA 266 >gi|303244308|ref|ZP_07330645.1| RNA polymerase insert [Methanothermococcus okinawensis IH1] gi|302485435|gb|EFL48362.1| RNA polymerase insert [Methanothermococcus okinawensis IH1] Length = 197 Score = 40.3 bits (93), Expect = 0.37, Method: Composition-based stats. Identities = 37/163 (22%), Positives = 62/163 (38%), Gaps = 20/163 (12%) Query: 46 ALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT 105 ALRR+++S A I+ V + ++++L L + I K + + Sbjct: 29 ALRRIMISETPTYA-----IENVYF-YENTSSMYDELIAHRLGLIPIKGKPVSNDEVIIF 82 Query: 106 -IFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTE 164 + K GP VV +GD+++ EV+ I L + +E G G AK Sbjct: 83 ALIKEGPCVVYSGDLESETG-EVVFKHIPIVKLKEGQKLELECEALVGTGKTHAKWQ--- 138 Query: 165 NDPIGLITIDALYSPIKK--VSYTVESAREGQVLDYDKLSMTI 205 +A+Y + V + VES D S+ I Sbjct: 139 -------PCNAVYKLLNNDEVEFLVESYGNMDSEDLLISSVEI 174 >gi|45360897|ref|NP_989124.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Xenopus (Silurana) tropicalis] gi|38511942|gb|AAH61444.1| polymerase (RNA) II (DNA directed) polypeptide C [Xenopus (Silurana) tropicalis] gi|89266865|emb|CAJ83921.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Xenopus (Silurana) tropicalis] gi|111598412|gb|AAH80362.1| polymerase (RNA) II (DNA directed) polypeptide C [Xenopus (Silurana) tropicalis] Length = 275 Score = 40.3 bits (93), Expect = 0.37, Method: Composition-based stats. Identities = 48/257 (18%), Positives = 89/257 (34%), Gaps = 53/257 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIVE-------NTDLAIANSIRRVFIAEVPTIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRVGLIPLTSDDIVDKLQYSRDCTCDEFCPECSVEFTLDVRCNEDQTRHVTSRDLV 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 V VT+ + V D +I L +R+ KG G AK + T Sbjct: 122 SNNLRVIPVTSRSRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYTVESAREGQVLDY------DKLSMTIDTDGSIT 212 +AL + K Y+ E E Y ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYS-EIDEEEAEAPYDPTGKPERFYYNVESCGSLR 240 Query: 213 GEDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 241 PETIVLSALSGLKKKLS 257 >gi|296109380|ref|YP_003616329.1| RNA polymerase insert [Methanocaldococcus infernus ME] gi|295434194|gb|ADG13365.1| RNA polymerase insert [Methanocaldococcus infernus ME] Length = 195 Score = 40.3 bits (93), Expect = 0.42, Method: Composition-based stats. Identities = 40/199 (20%), Positives = 82/199 (41%), Gaps = 34/199 (17%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRV 104 NA+RR+++S + AI V I + + +++ L + I K + ++ + Sbjct: 28 NAIRRIMISEVPTFAIEDVFI------YENSSSMDDEILAHRLGLIPIKGKPAFENETIL 81 Query: 105 -TIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 T+ K GP VV + D+++ N EV + I L +++E G G V AK Sbjct: 82 FTLEKEGPCVVYSSDLKSDNG-EVAFKNIPIVKLGEKQRIKIECEAVPGIGKVHAKWQ-- 138 Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 +A+Y + L D++ +++ G + + + A++I Sbjct: 139 --------PCNAVY----------------KQLSEDEVEFLVESFGQMDSLEILEEATKI 174 Query: 224 LQDQLGMFINFEEPKKEVK 242 L+++ F+ E + Sbjct: 175 LKNKAQEFLKQLEELEGED 193 >gi|294155884|ref|YP_003560268.1| DNA ligase (NAD(+)) [Mycoplasma crocodyli MP145] gi|291600422|gb|ADE19918.1| DNA ligase (NAD(+)) [Mycoplasma crocodyli MP145] Length = 657 Score = 40.3 bits (93), Expect = 0.43, Method: Composition-based stats. Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 1/53 (1%) Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT-MGLFLGMNLPDW 324 L I + DL+ ++ + + G KS+ IK L L L ++ Sbjct: 521 LISTKINKLSDLLTYNIDELENIDDIGPKSIASIKEFLSEDKNKELITFLDNY 573 >gi|11499863|ref|NP_071107.1| DNA-directed RNA polymerase subunit D [Archaeoglobus fulgidus DSM 4304] gi|3122769|sp|O28002|RPOD_ARCFU RecName: Full=DNA-directed RNA polymerase subunit D gi|2648239|gb|AAB88973.1| DNA-directed RNA polymerase, subunit D (rpoD) [Archaeoglobus fulgidus DSM 4304] Length = 264 Score = 40.3 bits (93), Expect = 0.43, Method: Composition-based stats. Identities = 28/167 (16%), Positives = 51/167 (30%), Gaps = 18/167 (10%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 I + +E++ + I + L N+ RR + + + A+ V I L+ Sbjct: 5 IEILEEKDFKIKFILKNASPA----LANSFRRAMKAEVPAMAVDYVDIY--LNSSYFYDE 58 Query: 78 VHED-LTDIILNIKGINLKMSGDSHK----------RVTIFKRGPGVVTAGDIQ-TVNDI 125 V L + + M + + GP VV +GD D+ Sbjct: 59 VIAHRLAMLPIKTYLDRFNMQSECSCGGEGCPNCQISFRLNVEGPKVVYSGDFISDDPDV 118 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 + + L + +E G G AK +I Sbjct: 119 VFAIDNIPVLELFEGQQLMLEAVARLGTGREHAKFQPVSVCVYKIIP 165 >gi|24638473|sp|P34778|RPOA_ASTLO RecName: Full=DNA-directed RNA polymerase subunit alpha; Short=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit alpha; Short=RNA polymerase subunit alpha Length = 220 Score = 40.3 bits (93), Expect = 0.43, Method: Composition-based stats. Identities = 30/201 (14%), Positives = 80/201 (39%), Gaps = 47/201 (23%) Query: 43 LGNALRRVLMSSLRGA-AITAVQ---------------IDGVLHEISSIKGVHEDLTDII 86 GN +RR L+ +++ IT ++ I ++E I+ + E+L++I Sbjct: 35 FGNEIRRSLLLNIKKTMTITNIKFFISKSKSKHPKKLKIFHPVNEFFDIEEIKENLSNIC 94 Query: 87 LNIKGINLKMSGDSHK----RVTIFKRGPGVVTAGDIQTV--NDIEVLNPDHVICN-LDV 139 +N+K + K + ++K + + +A DI ++++++N + N + Sbjct: 95 INLKKLRFKFNPKNNKEKKTFIILNSFNKKSFSAKDIIIPSTSNLKIVNLKEHLFNKISQ 154 Query: 140 DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD 199 +++ + + Y Y+PIK++++ +E Sbjct: 155 KINLKVLIKIENNENY--------------------FYNPIKRINFILEK----NNNIGK 190 Query: 200 KLSMTIDTDGSITGEDSVALA 220 + + +++D +I + + Sbjct: 191 YIILDLNSDININPFKAFIES 211 >gi|294495898|ref|YP_003542391.1| DNA-directed RNA polymerase, subunit D [Methanohalophilus mahii DSM 5219] gi|292666897|gb|ADE36746.1| DNA-directed RNA polymerase, subunit D [Methanohalophilus mahii DSM 5219] Length = 266 Score = 40.3 bits (93), Expect = 0.45, Method: Composition-based stats. Identities = 24/157 (15%), Positives = 48/157 (30%), Gaps = 17/157 (10%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE-ISSIK 76 I + + + I + FA N LRR +++ + AI V I Sbjct: 3 IDILELSDRSARFILSDVDAAFA----NGLRRAMLADVPTLAIDEVNIYNNTSVLYDEQI 58 Query: 77 GVHEDLTDIILNIKGINLKMSGDSHK-------RVTIFKR----GPGVVTAGDIQ-TVND 124 + L ++ + +T+ V +GD+ Sbjct: 59 ALRLALVPLVTIFNEFTPHEECSCEEGCPACTVSLTLSVEAPMDEDKTVYSGDLVSADPK 118 Query: 125 IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHH 161 I+ + + + L + +E G+G+ AK Sbjct: 119 IKAADSNIAVVKLKGGQQLVLEGIAKMGYGHDHAKWQ 155 >gi|66801649|ref|XP_629750.1| RNA polymerase II core subunit [Dictyostelium discoideum AX4] gi|74851108|sp|Q54DH7|RPB3_DICDI RecName: Full=DNA-directed RNA polymerase II subunit rpb3; Short=RNA polymerase II subunit 3; Short=RNA polymerase II subunit B3; AltName: Full=DNA-directed RNA polymerase II subunit C gi|60463138|gb|EAL61332.1| RNA polymerase II core subunit [Dictyostelium discoideum AX4] Length = 302 Score = 40.3 bits (93), Expect = 0.45, Method: Composition-based stats. Identities = 44/301 (14%), Positives = 93/301 (30%), Gaps = 47/301 (15%) Query: 2 IQKNWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAIT 61 + + +L + +E + + + + I ++ NALRRV+++ + I Sbjct: 1 MSQTVSQLTRQPELEILEIKNDS---IIFILSNTD----ISVANALRRVMIAEVPTMCID 53 Query: 62 AVQIDG---------VLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRG-- 110 V+ + + H + I V +++ + + + Sbjct: 54 LVEFESNNSVLCDEFIAHRLGLIPLVSDNIDKFCYTRDCSCSDRCDQCSVELRLNVKCTE 113 Query: 111 --PGVVTAGD--------IQTVNDIEVLNPDH--VICNLDVDAVVRMELTVSKGHGYVPA 158 P VT+ D I + + N + I L +++ KG G A Sbjct: 114 NRPRDVTSSDLLSQNSAVIPVSSQVTSSNSEQEIPIVKLRRGQEIKLRAIAKKGVGKEHA 173 Query: 159 KHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 K + I + R ++ D K GS + + Sbjct: 174 KWSPSCVATYQFQPI-----------IVLNQNRIDELTDQQK---EEWV-GSCPTK-VYS 217 Query: 219 LASRILQDQLGMFIN-FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGEN 277 + Q+ + E K+ P L +K ++ +V S+ L+ E+ Sbjct: 218 YSPHQSTQQVTIEDPLRCVYCLECKKKAESFGKPDLVHLEQKQDKFIFTVESSGALKPED 277 Query: 278 I 278 I Sbjct: 278 I 278 >gi|182435393|ref|YP_001823112.1| putative serine/threonine protein kinase [Streptomyces griseus subsp. griseus NBRC 13350] gi|178463909|dbj|BAG18429.1| putative serine/threonine protein kinase [Streptomyces griseus subsp. griseus NBRC 13350] Length = 1558 Score = 40.3 bits (93), Expect = 0.46, Method: Composition-based stats. Identities = 24/172 (13%), Positives = 50/172 (29%), Gaps = 8/172 (4%) Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIK--------KVSYTVESAREGQVLDYDKLS 202 G G V + + P + DA ++ K + S R ++ Sbjct: 742 WGDGSVLPRQTDHKEFPYPTVAADAFEPAVRDGLVAFFQKALHRDVSRRYPELKPMRDAW 801 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEE 262 I D S T S + + + + + L + + Sbjct: 802 RKIFLDASQTVPSSFSRPASTPVPVSEDGRPAIADAEPLSAEQQRDRLAKDVTRETHLST 861 Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L+ + + L I +G L+ + ++ G K+ E++ G Sbjct: 862 AGLTEAAQSFLYNLGITTVGGLLDYSRRKLVNAPGLGAKTRGEVQRRQREWG 913 >gi|218884674|ref|YP_002429056.1| DNA-directed RNA polymerase subunit D [Desulfurococcus kamchatkensis 1221n] gi|218766290|gb|ACL11689.1| DNA-directed RNA polymerase subunit D [Desulfurococcus kamchatkensis 1221n] Length = 280 Score = 40.3 bits (93), Expect = 0.46, Method: Composition-based stats. Identities = 24/147 (16%), Positives = 42/147 (28%), Gaps = 19/147 (12%) Query: 45 NALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILN-----------IKGI 92 N+LRR ++S + A+ V I + L + N Sbjct: 26 NSLRRTILSEVPTMAVDYVAITENSSVFYDEYISHRLGLIPLKSNEALNKYKPPEECAEA 85 Query: 93 NLKMSGDSHKRVTIFKRGPG------VVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRM 145 + VT+ G V + D+ + D+ + + I L D +R+ Sbjct: 86 GDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVSSDPDVVPVYGEIPILKLIKDQSIRL 145 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLIT 172 E G G K + Sbjct: 146 EAYARLGRGKEHIKWSPVSTAAHKYVP 172 >gi|312083749|ref|XP_003143992.1| DNA-directed RNA polymerase II polypeptide [Loa loa] gi|307760845|gb|EFO20079.1| DNA-directed RNA polymerase II polypeptide [Loa loa] Length = 275 Score = 40.0 bits (92), Expect = 0.48, Method: Composition-based stats. Identities = 43/233 (18%), Positives = 79/233 (33%), Gaps = 47/233 (20%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQID---GVLH-EISSIK--------GVHEDLTDIILN 88 ++ N+LRR+ M+ + AI VQI+ VLH E + + D + Sbjct: 28 LSVANSLRRIFMAEVPTMAIDWVQIESNTSVLHDEFIAHRLGLIPLTSDSVVDQMQFSRD 87 Query: 89 IKGINLKMSGDSHKRVTIFK--RGPGVVTAGDIQTVN-------DIEVLN--------PD 131 + R+ + G VT D++T N + + N D Sbjct: 88 CQCTEFCQFCAVEMRLRVRCDDEGIRAVTTADLETSNPDVAPACGVHIRNRNAEESASDD 147 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL--------------- 176 +I L V ++ KG G AK + T +AL Sbjct: 148 ILIVKLRKGQDVDIKCIAKKGFGKEHAKWNPTCCVSFEYDPDNALRHTVLAKPEEWPKSE 207 Query: 177 YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 YS ++ Y + + T+++ G++ E+ + +L+ +L Sbjct: 208 YSQLEDDEYEASFDPMAKPNKF---WFTVESTGALKAENIILSGISVLKKKLA 257 >gi|46048954|ref|NP_989646.1| integrin beta-3 precursor [Gallus gallus] gi|474039|emb|CAA51069.1| Integrin beta3 [Gallus gallus] Length = 781 Score = 40.0 bits (92), Expect = 0.50, Method: Composition-based stats. Identities = 16/72 (22%), Positives = 31/72 (43%), Gaps = 8/72 (11%) Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD--------WPPES 328 +I Y+ DL + D+ + N G K E++ + + + G + PPE+ Sbjct: 131 DIYYLMDLSNSMKDDLKNIQNLGTKLASEMRKLTSNLRIGFGAFVDKPISPYMYISPPEA 190 Query: 329 IEELAKKYEDKC 340 I+ + +KC Sbjct: 191 IKNPCYEIGEKC 202 >gi|329923259|ref|ZP_08278744.1| hypothetical protein HMPREF9412_0344 [Paenibacillus sp. HGF5] gi|328941494|gb|EGG37785.1| hypothetical protein HMPREF9412_0344 [Paenibacillus sp. HGF5] Length = 72 Score = 40.0 bits (92), Expect = 0.52, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 4/60 (6%) Query: 262 ELELSVRSTNCLRGENI----VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 E + V++ N R I + DL + TE ++L + G K++ ++ L GL Sbjct: 11 ESDFPVKAGNPARRALIVAGYHQLADLTRATEKELLALHGVGPKAIGVLRAALAEKGLAF 70 >gi|126296213|ref|XP_001365715.1| PREDICTED: similar to Polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Monodelphis domestica] Length = 275 Score = 40.0 bits (92), Expect = 0.54, Method: Composition-based stats. Identities = 47/256 (18%), Positives = 87/256 (33%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLTSDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ V D +I L +R+ KG G AK + T Sbjct: 122 SNTPRVIPVTSRSRDNDPSDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDALYSPIK-------KVSYT-----VESAREGQVLDYDKLSMTIDTDGSITG 213 +AL + K Y+ A ++ +++ GS+ Sbjct: 182 VAFEYDPDNALRHTVYPKPEEWPKSEYSEIDEDEAQAPYDPNGKPERFYYNVESCGSLRP 241 Query: 214 EDSVALASRILQDQLG 229 E V A L+ +L Sbjct: 242 ETIVLSALSGLKKKLS 257 >gi|153953110|ref|YP_001393875.1| hypothetical protein CKL_0473 [Clostridium kluyveri DSM 555] gi|219853760|ref|YP_002470882.1| hypothetical protein CKR_0417 [Clostridium kluyveri NBRC 12016] gi|146345991|gb|EDK32527.1| Conserved hypothetical protein [Clostridium kluyveri DSM 555] gi|219567484|dbj|BAH05468.1| hypothetical protein [Clostridium kluyveri NBRC 12016] Length = 332 Score = 40.0 bits (92), Expect = 0.54, Method: Composition-based stats. Identities = 17/106 (16%), Positives = 37/106 (34%), Gaps = 3/106 (2%) Query: 211 ITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE---LSV 267 + E+ + + +EE + E N+K+ + + + Sbjct: 19 VELEELAKEYKMSDSAIISIIRKYEELEAYSNEMENLKANNKMNEETELYDLCKLLKFHT 78 Query: 268 RSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 S N L +NI + L+ ++ + + N G+ S IK + Sbjct: 79 HSINALIHKNIRSVDKLLSLSQEEFYAIKNLGKVSQKYIKECISEY 124 >gi|304414228|ref|ZP_07395596.1| transcription termination/antitermination L factor [Candidatus Regiella insecticola LSR1] gi|304283442|gb|EFL91838.1| transcription termination/antitermination L factor [Candidatus Regiella insecticola LSR1] Length = 506 Score = 40.0 bits (92), Expect = 0.55, Method: Composition-based stats. Identities = 21/116 (18%), Positives = 41/116 (35%), Gaps = 8/116 (6%) Query: 227 QLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ 286 + +E + E A+ +E LE+ L + +L Sbjct: 338 LVSQLSGWELNVMTINELKEKCQAETRTAIDMFIEHLEIDEECATVLVEAEFSSLEELAY 397 Query: 287 RTEADMLRMANFGRKSLVEIKG----VLGTMGL----FLGMNLPDWPPESIEELAK 334 E+++ + +F +K L E++ VL T+ L G N P ++ L + Sbjct: 398 VPESELPEIDSFDKKRLQELRDRAQNVLTTLALKKEESFGDNKPADDLLNLASLDR 453 >gi|307721033|ref|YP_003892173.1| isocitrate dehydrogenase, NADP-dependent [Sulfurimonas autotrophica DSM 16294] gi|306979126|gb|ADN09161.1| isocitrate dehydrogenase, NADP-dependent [Sulfurimonas autotrophica DSM 16294] Length = 725 Score = 40.0 bits (92), Expect = 0.56, Method: Composition-based stats. Identities = 24/119 (20%), Positives = 51/119 (42%), Gaps = 17/119 (14%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 + A + L +N + V+ + SL + E EL+ Sbjct: 9 IDEAPALATYSLLPIVNAFTKEAGVEVVTSDISLAGRVLAAMGLAENELAK--------- 59 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEELA 333 +G+L+Q+ EA+++++ N S+ ++K + + G ++P++P P + EE A Sbjct: 60 ----LGELVQKPEANIIKLPNISA-SVGQLKDCIAELQ-SQGYDIPNYPENPTNAEEEA 112 >gi|238063644|ref|ZP_04608353.1| hypothetical protein MCAG_04610 [Micromonospora sp. ATCC 39149] gi|237885455|gb|EEP74283.1| hypothetical protein MCAG_04610 [Micromonospora sp. ATCC 39149] Length = 64 Score = 40.0 bits (92), Expect = 0.56, Method: Composition-based stats. Identities = 13/47 (27%), Positives = 20/47 (42%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLG 318 L + DL+ AD+ ++ G K+L I+ L L LG Sbjct: 18 ALNNAGYSTLRDLVGVPRADLAKLHGMGPKALGIIQSALEQHDLSLG 64 >gi|254373566|ref|ZP_04989053.1| hypothetical protein FTCG_01522 [Francisella tularensis subsp. novicida GA99-3549] gi|151571291|gb|EDN36945.1| hypothetical protein FTCG_01522 [Francisella novicida GA99-3549] Length = 344 Score = 40.0 bits (92), Expect = 0.56, Method: Composition-based stats. Identities = 22/133 (16%), Positives = 49/133 (36%), Gaps = 9/133 (6%) Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDG--SITGEDSVALASR---ILQDQLGMFINFE 235 V Y + S D ++++ +T+ + ++S++ A + I ++ Sbjct: 139 DMVQYAINSLSPVDAADILEVNVDEETNSMDIVVKQESLSKAIGKNGVNVRLASSLIGWK 198 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 E + + K VE L++ L E I + DL A++L + Sbjct: 199 INVLSDAEQEEKQMS----IVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEI 254 Query: 296 ANFGRKSLVEIKG 308 F + + E++ Sbjct: 255 EGFDEEIVDELQE 267 >gi|302655859|ref|XP_003019711.1| hypothetical protein TRV_06253 [Trichophyton verrucosum HKI 0517] gi|291183453|gb|EFE39066.1| hypothetical protein TRV_06253 [Trichophyton verrucosum HKI 0517] Length = 388 Score = 40.0 bits (92), Expect = 0.57, Method: Composition-based stats. Identities = 34/212 (16%), Positives = 60/212 (28%), Gaps = 57/212 (26%) Query: 12 PNNIEYIVLG--QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG-- 67 P ++ + + + + G + NA RR+L++ + AI V I Sbjct: 54 PWKLKGLKIEFHKNDPLEASFSL----IGVDAAIANAFRRILLAEIPALAIEYVYIQNNT 109 Query: 68 -------VLHEISSIK-------------------------GVHEDLTDIILNIKGINLK 95 + H + I HED I+L + K Sbjct: 110 SVIQDEVLAHRLGLIPLKGSLEGLNWLRWFKIPKEGDPDSGSTHEDSNTIVLRLVKECTK 169 Query: 96 MSG---DSHKRVTIFKRGPGVVTAGDIQTVND------------IEVLNPDHVICNLDVD 140 D ++ + A D+ I+ NPD ++ L Sbjct: 170 NRNAAPDEEDPTVLYNNAH--IYAKDLVFEPQGRQEKYFHGDGVIQPCNPDILLAKLRPG 227 Query: 141 AVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 + +E+ KG G AK L+ Sbjct: 228 QKIDIEMHCIKGIGADHAKFSPVATASYRLLP 259 >gi|255513546|gb|EET89812.1| RNA polymerase insert [Candidatus Micrarchaeum acidiphilum ARMAN-2] Length = 191 Score = 40.0 bits (92), Expect = 0.57, Method: Composition-based stats. Identities = 27/119 (22%), Positives = 48/119 (40%), Gaps = 9/119 (7%) Query: 44 GNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 NALRR+ ++ ++ AI V + + + I + I S D + Sbjct: 25 ANALRRIAINGIKAFAIDKVTVYENTSSMFDEY------IAHRIGLVPLITPHGSSDKDE 78 Query: 103 RV-TIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + T+ GPG + + ++ + + V NP+ I L D +R+E G AK Sbjct: 79 ILFTLEAAGPGTIYSKSLESSDKSVVVANPNIPIIKLGRDQKIRIEGKAVMGSALKHAK 137 >gi|109128649|ref|XP_001098211.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3 isoform 1 [Macaca mulatta] Length = 257 Score = 40.0 bits (92), Expect = 0.59, Method: Composition-based stats. Identities = 37/191 (19%), Positives = 70/191 (36%), Gaps = 39/191 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + + I E +T + N++RRV ++ + AI VQID Sbjct: 9 VRITELTDENVKFIIE-------NTDLAVANSIRRVFIAEVPIIAIDWVQIDANSSVLHD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H + I + +D+ D + + ++++ + D + VT + Sbjct: 62 EFIAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLI 121 Query: 108 KRGPGV--VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V VT+ + + V D +I L +R+ KG G AK + T Sbjct: 122 SNSPRVIPVTSRNRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDAL 176 +AL Sbjct: 182 VAFEYDPDNAL 192 >gi|148234336|ref|NP_001084998.1| polymerase (RNA) II (DNA directed) polypeptide C, 33kDa [Xenopus laevis] gi|47682270|gb|AAH70601.1| MGC81245 protein [Xenopus laevis] Length = 275 Score = 40.0 bits (92), Expect = 0.61, Method: Composition-based stats. Identities = 44/228 (19%), Positives = 80/228 (35%), Gaps = 41/228 (17%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG-- 91 + N++RRV ++ + AI VQID + H + I +D+ D + + Sbjct: 30 IANSIRRVFIAEVPTIAIDWVQIDANSSVLHDEFIAHRVGLIPLTSDDIVDKLQYSRDCT 89 Query: 92 -------------INLKMSGDSHKRVT---IFKRGPGV--VTAGDIQTVNDIEVLNPDHV 133 ++++ + D + VT + V VT+ + V D + Sbjct: 90 CDEFCPECSVEFTLDVRCTEDQTRHVTSRDLVSNNLRVIPVTSRSRDNDPNDYVEQDDIL 149 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK-------KVSYT 186 I L +R+ KG G AK + T +AL + K Y+ Sbjct: 150 IVKLRKGQELRLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYS 209 Query: 187 VESAREGQVL-----DYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 E Q ++ +++ GS+ E V A L+ +L Sbjct: 210 EIDEEEAQAPYDPTGKPERFYYNVESCGSLKPETIVLSALSGLKKKLS 257 >gi|326927174|ref|XP_003209769.1| PREDICTED: ubiquinone biosynthesis protein COQ9, mitochondrial-like [Meleagris gallopavo] Length = 549 Score = 40.0 bits (92), Expect = 0.61, Method: Composition-based stats. Identities = 43/227 (18%), Positives = 80/227 (35%), Gaps = 41/227 (18%) Query: 44 GNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG--- 91 N++RRV ++ + AI VQID + H + I +D+ D + + Sbjct: 305 ANSIRRVFIAEVPIIAIDWVQIDANSSVLHDEFIAHRLGLIPLTSDDIVDKMQYSRDCTC 364 Query: 92 ------------INLKMSGDSHKRVT---IFKRGPGV--VTAGDIQTVNDIEVLNPDHVI 134 ++++ + D + VT + P V VT+ + V D +I Sbjct: 365 DEFCPECSVEFTLDVRCNEDQTRHVTSRDLISNNPRVIPVTSRSRDNDPNDYVEQDDILI 424 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK-------KVSYTV 187 L +++ KG G AK + T +AL + K Y+ Sbjct: 425 VKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEEWPKSEYSE 484 Query: 188 ESAREGQ-----VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + Q ++ +++ GS+ E V A L+ +L Sbjct: 485 IDEEDAQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLS 531 >gi|293511535|ref|ZP_06670229.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M809] gi|291465493|gb|EFF08025.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M809] Length = 170 Score = 39.6 bits (91), Expect = 0.63, Method: Composition-based stats. Identities = 11/55 (20%), Positives = 23/55 (41%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 L + I + D+ Q T++ ++ M G K++ ++ L L + P Sbjct: 13 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILEQALFQHQLHFKTEVHSSLP 67 >gi|197294735|ref|YP_001799276.1| ATP-dependent Lon protease [Candidatus Phytoplasma australiense] gi|171854062|emb|CAM12035.1| ATP-dependent Lon protease [Candidatus Phytoplasma australiense] Length = 787 Score = 39.6 bits (91), Expect = 0.63, Method: Composition-based stats. Identities = 26/121 (21%), Positives = 51/121 (42%), Gaps = 14/121 (11%) Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGD 283 + I FE+ +++ + I N K ++E +L+ R N LR +I+ MG Sbjct: 162 SNNNFLEMIQFEQEVEKITDIIIFYLRIDNSEKYKYLKEADLNKRLFNILRDIDILTMGM 221 Query: 284 LIQRTEADMLRMANFGRKSLVE------IKGVLGTMGLFLGMNLPDWPPESIEELAKKYE 337 +++ + ++ KS+ E ++ + + LG + E I EL KK Sbjct: 222 HLEQKINE--KVK----KSIDENQKEFYLREKMKAIQNELGDKVKKE--EEIAELRKKIN 273 Query: 338 D 338 + Sbjct: 274 N 274 >gi|322436508|ref|YP_004218720.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9] gi|321164235|gb|ADW69940.1| NusA antitermination factor [Acidobacterium sp. MP5ACTX9] Length = 534 Score = 39.6 bits (91), Expect = 0.64, Method: Composition-based stats. Identities = 16/90 (17%), Positives = 38/90 (42%), Gaps = 4/90 (4%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++LQ ++ + E+ ++ ++ + P P EL + L Sbjct: 328 VRLAAKLLQWKIDIKSEEEKRQEVEQQMQAMSGGPTTPIEQV----TELGEQILEKLIAA 383 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I + + T ++ ++ G K++ +I Sbjct: 384 GITTVEAVADMTAEELEQIPGIGEKTIEKI 413 >gi|85822798|gb|ABC84857.1| RNA polymerase gamma subunit [Peanut witches'-broom phytoplasma] Length = 1379 Score = 39.6 bits (91), Expect = 0.66, Method: Composition-based stats. Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 2/61 (3%) Query: 255 ALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMG 314 L K+E+ L+ R+ L+ I +GD+ ++ + + +S E +L G Sbjct: 1 MLNMKIEDFALTKRTLKNLKSIGINSLGDINNYHLNEL--ITSLNEESFEEFVIILKKYG 58 Query: 315 L 315 L Sbjct: 59 L 59 >gi|116670209|ref|YP_831142.1| hypothetical protein Arth_1648 [Arthrobacter sp. FB24] gi|116610318|gb|ABK03042.1| hypothetical protein Arth_1648 [Arthrobacter sp. FB24] Length = 72 Score = 39.6 bits (91), Expect = 0.67, Method: Composition-based stats. Identities = 6/42 (14%), Positives = 21/42 (50%) Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 + + ++Q + ++L++ G K++ +++ + GL Sbjct: 28 AGLETLEQVVQFGQRELLKLHGMGVKTMAQLEDAMDEHGLEF 69 >gi|254369910|ref|ZP_04985919.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp. holarctica FSC022] gi|157122880|gb|EDO66997.1| hypothetical protein FTAG_01671 [Francisella tularensis subsp. holarctica FSC022] Length = 447 Score = 39.6 bits (91), Expect = 0.68, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 307 DAEQEEKQMSIVEKFVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 366 Query: 305 EIKG 308 E++ Sbjct: 367 ELQE 370 >gi|167045221|gb|ABZ09881.1| putative RNA polymerase Rpb3/RpoA insert domain protein [uncultured marine crenarchaeote HF4000_APKG8O8] Length = 201 Score = 39.6 bits (91), Expect = 0.70, Method: Composition-based stats. Identities = 32/190 (16%), Positives = 67/190 (35%), Gaps = 43/190 (22%) Query: 40 AHTL--GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILN 88 TL NALRR+ ++ + AI V + +G+ H + I + DL+ + Sbjct: 20 GVTLQYANALRRICLNGVAIYAIDTVDMIENSSVLADEGITHRLGLIP-LKTDLSRSDES 78 Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH-VICNLDVDAVVRMEL 147 I L + +VT+ ++ + + + + D I +L ++ E Sbjct: 79 DSRIMLTLDSGDD------TETGRMVTSAELLSDDKVVKPSSDQIPIIHLTPGQKLKFEA 132 Query: 148 TVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDT 207 G G AK + + + +D D+ +T++T Sbjct: 133 YARLGRGTEHAKWNSSNIA----VLLDT--------------------KKEDEHILTVET 168 Query: 208 DGSITGEDSV 217 G++ + + Sbjct: 169 TGALKPGEII 178 >gi|326475646|gb|EGD99655.1| DNA-directed RNA polymerase I and III [Trichophyton tonsurans CBS 112818] gi|326485520|gb|EGE09530.1| DNA-directed RNA polymerase I and III subunit RPAC1 [Trichophyton equinum CBS 127.97] Length = 380 Score = 39.6 bits (91), Expect = 0.72, Method: Composition-based stats. Identities = 35/193 (18%), Positives = 56/193 (29%), Gaps = 56/193 (29%) Query: 34 PLPRGFAHT-----LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIK--- 76 PL F+ + NA RR+L++ + AI V I + H + I Sbjct: 61 PLEASFSLIGVDAAIANAFRRILLAEIPALAIEYVYIQNNTSVIQDEVLAHRLGLIPLKG 120 Query: 77 ----------------------GVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGP 111 HED I+L + K D ++ Sbjct: 121 SLEGLNWLRWFKIPKEGDPDSGSTHEDSNTIVLRLVKECTKNRNAAPDEEDPTVLYNNAH 180 Query: 112 GVVTAGDIQTVND------------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + A D+ I+ NPD ++ L + +E+ KG G AK Sbjct: 181 --IYAKDLVFEPQGRQEKYFHGDGVIQPCNPDILLAKLRPGQKIDIEMHCIKGIGADHAK 238 Query: 160 HHRTENDPIGLIT 172 L+ Sbjct: 239 FSPVATASYRLLP 251 >gi|295429277|ref|ZP_06821899.1| hypothetical protein SIAG_01485 [Staphylococcus aureus subsp. aureus EMRSA16] gi|295127036|gb|EFG56680.1| hypothetical protein SIAG_01485 [Staphylococcus aureus subsp. aureus EMRSA16] Length = 211 Score = 39.6 bits (91), Expect = 0.74, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 22/50 (44%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L + I + D+ Q T++ ++ M G K++ ++ L L + Sbjct: 33 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILEQALFQHQLHFKTEV 82 >gi|319653736|ref|ZP_08007833.1| hypothetical protein HMPREF1013_04451 [Bacillus sp. 2_A_57_CT2] gi|317394579|gb|EFV75320.1| hypothetical protein HMPREF1013_04451 [Bacillus sp. 2_A_57_CT2] Length = 96 Score = 39.6 bits (91), Expect = 0.77, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 26/55 (47%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + N L E I + L + TE ++L++ G SL ++ L GL Sbjct: 40 SKLSAPARNALVHEGIDTLKKLSKFTEKEILKIHGIGPSSLPIMRTSLKEEGLSF 94 >gi|32266695|ref|NP_860727.1| isocitrate dehydrogenase [Helicobacter hepaticus ATCC 51449] gi|32262746|gb|AAP77793.1| isocitrate dehydrogenase [Helicobacter hepaticus ATCC 51449] Length = 734 Score = 39.6 bits (91), Expect = 0.77, Method: Composition-based stats. Identities = 14/59 (23%), Positives = 33/59 (55%), Gaps = 2/59 (3%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +GDL++ EA++++ N S+ ++K + + G ++P++P E + K ++K Sbjct: 66 LGDLVKTKEANLIKTPNISA-SIPQLKAAIKELQGK-GYDVPNFPDEPQNDTEKAIKEK 122 >gi|327297236|ref|XP_003233312.1| DNA-directed RNA polymerase I and III [Trichophyton rubrum CBS 118892] gi|326464618|gb|EGD90071.1| DNA-directed RNA polymerase I and III [Trichophyton rubrum CBS 118892] Length = 380 Score = 39.6 bits (91), Expect = 0.79, Method: Composition-based stats. Identities = 35/193 (18%), Positives = 56/193 (29%), Gaps = 56/193 (29%) Query: 34 PLPRGFAHT-----LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIK--- 76 PL F+ + NA RR+L++ + AI V I + H + I Sbjct: 61 PLEASFSLIGVDAAIANAFRRILLAEIPALAIEYVYIQNNTSVIQDEVLAHRLGLIPLKG 120 Query: 77 ----------------------GVHEDLTDIILNIKGINLKMSG---DSHKRVTIFKRGP 111 HED I+L + K D ++ Sbjct: 121 SLEGLNWLRWFKIPKEGDPDSGSTHEDSNTIVLRLVKECTKNRNAAPDEEDPTVLYNNAH 180 Query: 112 GVVTAGDIQTVND------------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAK 159 + A D+ I+ NPD ++ L + +E+ KG G AK Sbjct: 181 --IYAKDLVFEPQGRQEKYFHGDGVIQPCNPDILLAKLRPGQKIDIEMHCIKGIGADHAK 238 Query: 160 HHRTENDPIGLIT 172 L+ Sbjct: 239 FSPVATASYRLLP 251 >gi|258423255|ref|ZP_05686147.1| conserved hypothetical protein [Staphylococcus aureus A9635] gi|257846584|gb|EEV70606.1| conserved hypothetical protein [Staphylococcus aureus A9635] Length = 191 Score = 39.6 bits (91), Expect = 0.79, Method: Composition-based stats. Identities = 11/55 (20%), Positives = 23/55 (41%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 L + I + D+ Q T++ ++ M G K++ ++ L L + P Sbjct: 13 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILEQALFQHQLHFKTEVHSSLP 67 >gi|49484890|ref|YP_042114.1| hypothetical protein SAR2777 [Staphylococcus aureus subsp. aureus MRSA252] gi|221142451|ref|ZP_03566944.1| hypothetical protein SauraJ_12582 [Staphylococcus aureus subsp. aureus str. JKD6009] gi|257424176|ref|ZP_05600605.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 55/2053] gi|257426854|ref|ZP_05603256.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 65-1322] gi|257429490|ref|ZP_05605877.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 68-397] gi|257432137|ref|ZP_05608500.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus E1410] gi|257435098|ref|ZP_05611149.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|282907028|ref|ZP_06314876.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus Btn1260] gi|282910005|ref|ZP_06317813.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WW2703/97] gi|282912253|ref|ZP_06320049.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WBG10049] gi|282912893|ref|ZP_06320685.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus M899] gi|282922521|ref|ZP_06330211.1| hypothetical protein SARG_00173 [Staphylococcus aureus subsp. aureus C101] gi|283959466|ref|ZP_06376907.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus A017934/97] gi|293497946|ref|ZP_06665800.1| hypothetical protein SCAG_00519 [Staphylococcus aureus subsp. aureus 58-424] gi|293550145|ref|ZP_06672817.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus M1015] gi|297589224|ref|ZP_06947865.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus MN8] gi|304379926|ref|ZP_07362655.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|49243019|emb|CAG41752.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus MRSA252] gi|257273194|gb|EEV05296.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 55/2053] gi|257276485|gb|EEV07936.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 65-1322] gi|257279971|gb|EEV10558.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus 68-397] gi|257283016|gb|EEV13148.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus E1410] gi|257285694|gb|EEV15810.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus M876] gi|269942280|emb|CBI50695.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus TW20] gi|282314742|gb|EFB45128.1| hypothetical protein SARG_00173 [Staphylococcus aureus subsp. aureus C101] gi|282322993|gb|EFB53312.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus M899] gi|282323949|gb|EFB54265.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WBG10049] gi|282326071|gb|EFB56376.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus WW2703/97] gi|282329927|gb|EFB59448.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus Btn1260] gi|283789058|gb|EFC27885.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus A017934/97] gi|290919192|gb|EFD96268.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus M1015] gi|291096877|gb|EFE27135.1| hypothetical protein SCAG_00519 [Staphylococcus aureus subsp. aureus 58-424] gi|297577735|gb|EFH96448.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus MN8] gi|302752570|gb|ADL66747.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus str. JKD6008] gi|304341506|gb|EFM07416.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus ATCC BAA-39] gi|312436881|gb|ADQ75952.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus TCH60] gi|315195204|gb|EFU25592.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus CGS00] gi|329315413|gb|AEB89826.1| Putative DNA-binding protein [Staphylococcus aureus subsp. aureus T0131] Length = 191 Score = 39.6 bits (91), Expect = 0.79, Method: Composition-based stats. Identities = 11/55 (20%), Positives = 23/55 (41%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 L + I + D+ Q T++ ++ M G K++ ++ L L + P Sbjct: 13 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILEQALFQHQLHFKTEVHSSLP 67 >gi|237755727|ref|ZP_04584334.1| isocitrate dehydrogenase, NADP-dependent [Sulfurihydrogenibium yellowstonense SS-5] gi|237692119|gb|EEP61120.1| isocitrate dehydrogenase, NADP-dependent [Sulfurihydrogenibium yellowstonense SS-5] Length = 746 Score = 39.2 bits (90), Expect = 0.81, Method: Composition-based stats. Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 2/59 (3%) Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 Y+G+L+ R EA+++++ N S+ ++ V+ + G NLPD+P + E K + Sbjct: 68 YLGELVLRPEANIMKLPNISA-SIPQLIEVIKELQ-SQGYNLPDFPEDPKTEEEKAIRE 124 >gi|241518314|ref|YP_002978942.1| hypothetical protein Rleg_5576 [Rhizobium leguminosarum bv. trifolii WSM1325] gi|240862727|gb|ACS60391.1| hypothetical protein Rleg_5576 [Rhizobium leguminosarum bv. trifolii WSM1325] Length = 87 Score = 39.2 bits (90), Expect = 0.81, Method: Composition-based stats. Identities = 10/63 (15%), Positives = 24/63 (38%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 K+ A + ++ V L I + L T+ ++L + G++++ Sbjct: 5 PARKTSKPRAASSDMLVRSKIPVWIVKALLSSGIKRVSKLSSMTDDELLALPGIGKRAIE 64 Query: 305 EIK 307 I+ Sbjct: 65 LIR 67 >gi|89257073|ref|YP_514435.1| transcription elongation factor NusA [Francisella tularensis subsp. holarctica LVS] gi|115315429|ref|YP_764152.1| transcription elongation factor NusA [Francisella tularensis subsp. holarctica OSU18] gi|156503283|ref|YP_001429348.1| transcription elongation factor NusA [Francisella tularensis subsp. holarctica FTNF002-00] gi|167009460|ref|ZP_02274391.1| transcription termination factor NusA [Francisella tularensis subsp. holarctica FSC200] gi|290954351|ref|ZP_06558972.1| transcription elongation factor NusA [Francisella tularensis subsp. holarctica URFT1] gi|295312215|ref|ZP_06803015.1| transcription elongation factor NusA [Francisella tularensis subsp. holarctica URFT1] gi|89144904|emb|CAJ80249.1| N utilization substance protein A [Francisella tularensis subsp. holarctica LVS] gi|115130328|gb|ABI83515.1| N utilization substance protein A [Francisella tularensis subsp. holarctica OSU18] gi|156253886|gb|ABU62392.1| transcription termination factor NusA [Francisella tularensis subsp. holarctica FTNF002-00] Length = 489 Score = 39.2 bits (90), Expect = 0.82, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 349 DAEQEEKQMSIVEKFVEALDIDHNFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 408 Query: 305 EIKG 308 E++ Sbjct: 409 ELQE 412 >gi|282889932|ref|ZP_06298467.1| hypothetical protein pah_c008o015 [Parachlamydia acanthamoebae str. Hall's coccus] gi|281500125|gb|EFB42409.1| hypothetical protein pah_c008o015 [Parachlamydia acanthamoebae str. Hall's coccus] Length = 422 Score = 39.2 bits (90), Expect = 0.83, Method: Composition-based stats. Identities = 15/80 (18%), Positives = 31/80 (38%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 E+ + E ++ L + + L LS + CL + DL++ D++ Sbjct: 112 HEKQQLEFDFGPGFRNWISPIFLDEPIHILGLSQHAEKCLEKNGKCLIQDLLKADTQDLI 171 Query: 294 RMANFGRKSLVEIKGVLGTM 313 + G+ + EI+ L Sbjct: 172 FLKGMGQGHIDEIQQTLKKY 191 >gi|282918053|ref|ZP_06325803.1| hypothetical protein SATG_00955 [Staphylococcus aureus subsp. aureus D139] gi|283767772|ref|ZP_06340687.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus H19] gi|282318338|gb|EFB48698.1| hypothetical protein SATG_00955 [Staphylococcus aureus subsp. aureus D139] gi|283461651|gb|EFC08735.1| conserved hypothetical protein [Staphylococcus aureus subsp. aureus H19] Length = 191 Score = 39.2 bits (90), Expect = 0.84, Method: Composition-based stats. Identities = 11/55 (20%), Positives = 23/55 (41%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPP 326 L + I + D+ Q T++ ++ M G K++ ++ L L + P Sbjct: 13 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILEQALFQHQLHFKTEVHSSLP 67 >gi|56707228|ref|YP_169124.1| transcription elongation factor NusA [Francisella tularensis subsp. tularensis SCHU S4] gi|110669698|ref|YP_666255.1| transcription elongation factor NusA [Francisella tularensis subsp. tularensis FSC198] gi|134301263|ref|YP_001121231.1| transcription elongation factor NusA [Francisella tularensis subsp. tularensis WY96-3418] gi|224456289|ref|ZP_03664762.1| transcription elongation factor NusA [Francisella tularensis subsp. tularensis MA00-2987] gi|254369913|ref|ZP_04985921.1| hypothetical protein [Francisella tularensis subsp. tularensis FSC033] gi|254874067|ref|ZP_05246777.1| transcription factor nusA [Francisella tularensis subsp. tularensis MA00-2987] gi|56603720|emb|CAG44682.1| N utilization substance protein A [Francisella tularensis subsp. tularensis SCHU S4] gi|110320031|emb|CAL08065.1| N utilization substance protein A [Francisella tularensis subsp. tularensis FSC198] gi|134049040|gb|ABO46111.1| transcription factor NusA [Francisella tularensis subsp. tularensis WY96-3418] gi|151568159|gb|EDN33813.1| hypothetical protein FTBG_01505 [Francisella tularensis subsp. tularensis FSC033] gi|254840066|gb|EET18502.1| transcription factor nusA [Francisella tularensis subsp. tularensis MA00-2987] gi|282158336|gb|ADA77727.1| transcription elongation factor NusA [Francisella tularensis subsp. tularensis NE061598] Length = 489 Score = 39.2 bits (90), Expect = 0.86, Method: Composition-based stats. Identities = 24/134 (17%), Positives = 50/134 (37%), Gaps = 11/134 (8%) Query: 181 KKVSYTVESAREGQVLDYDKLSMTIDTDGSITG---EDSVALASR---ILQDQLGMFINF 234 V Y + S D ++++ +T+ SI ++S++ A + I + Sbjct: 284 DMVQYAINSLSPVDAADILEVNVDEETN-SIDIVVKQESLSKAIGKNGVNVRLASSLIGW 342 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + E + + K VE L++ L E I + DL A++L Sbjct: 343 KINVLSDAEQEEKQMS----IVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLE 398 Query: 295 MANFGRKSLVEIKG 308 + F + + E++ Sbjct: 399 IEGFDEEIVDELQE 412 >gi|289615067|emb|CBI58137.1| unnamed protein product [Sordaria macrospora] Length = 311 Score = 39.2 bits (90), Expect = 0.88, Method: Composition-based stats. Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 4/50 (8%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + + Q + R FA N+LRRV+++ + AI V+I+ Sbjct: 17 VVKISQADSTRVKFELSNTELCFA----NSLRRVMLAEIPTIAIDLVEIE 62 >gi|260950839|ref|XP_002619716.1| hypothetical protein CLUG_00875 [Clavispora lusitaniae ATCC 42720] gi|238847288|gb|EEQ36752.1| hypothetical protein CLUG_00875 [Clavispora lusitaniae ATCC 42720] Length = 307 Score = 39.2 bits (90), Expect = 0.88, Method: Composition-based stats. Identities = 49/248 (19%), Positives = 84/248 (33%), Gaps = 45/248 (18%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHE------ 71 + + Q E + I RG ++ N+LRR ++S + AI V+ID V Sbjct: 12 VTIRQTERDHVDFIL----RGVDLSVANSLRRTMLSEVPTLAIDLVEID-VNTSVLADEL 66 Query: 72 ISSIKGVHEDLTDIILNIK--------------GINLKMSGDSHKRVTIFKRGPGVVTAG 117 +S G+ ++ I N+ + L+++ T+ + Sbjct: 67 LSHRLGLIPLNSEGIENLSYSRDCTCDQYCPNCSVKLELTAKCDSDSTMNVYSSDLAKFH 126 Query: 118 DIQTVNDIEVLNPDHV---ICNLDVDAVVRMELTVSKGHGYVPAKHHR-----TENDPIG 169 + + D + +P H IC L +R+ KG AK E DP Sbjct: 127 NGSKLGDPVIRDPAHRGPLICKLRKHQELRLTCIAKKGIAKEHAKWSPCAAIGFEYDPWN 186 Query: 170 -------LITIDALYSPIKKVSYTVESARE-GQVLDYD----KLSMTIDTDGSITGEDSV 217 DA K + E A + DY+ + ++T GS+ + V Sbjct: 187 KLKHTDFWYEDDAEAEWPKSANCEWEEAPDPEAPFDYNAKPANFYVDVETVGSLAPNEVV 246 Query: 218 ALASRILQ 225 LQ Sbjct: 247 VRGIETLQ 254 >gi|46105474|ref|XP_380541.1| hypothetical protein FG00365.1 [Gibberella zeae PH-1] Length = 381 Score = 39.2 bits (90), Expect = 0.88, Method: Composition-based stats. Identities = 34/177 (19%), Positives = 56/177 (31%), Gaps = 47/177 (26%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIK--GVHEDLTDIIL---- 87 L NA RR+L+S + A+ V I+ + H + I G E L + + Sbjct: 82 LANAFRRILLSEIPTLAVENVYIENNTSVIQDEVLAHRLGLIPFKGGREGLHNFLKWHKK 141 Query: 88 --------------NIKGINLKMSGDSHKRVT------IFKRGPGVVTAGDIQTVND--- 124 N + L ++ ++ + + V A DI V Sbjct: 142 PEAGDDPYAGCFDWNTVRLELNVTCTVNEDASPTENDPLKAYHNAHVYARDIVFVPTGRQ 201 Query: 125 ---------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLIT 172 I NPD +I L + + + + KG G AK L+ Sbjct: 202 AEYFSGENAIAPTNPDILIAKLRPRQTINLAMHMHKGIGSDHAKFSPVATASYRLLP 258 >gi|15226523|ref|NP_179145.1| NRPB3; DNA binding / DNA-directed RNA polymerase/ protein dimerization [Arabidopsis thaliana] gi|11134646|sp|Q39211|RPB3A_ARATH RecName: Full=DNA-directed RNA polymerase II subunit RPB3-A; Short=RNA polymerase II subunit 3-A; Short=RNA polymerase II subunit B3-A; AltName: Full=DNA-directed RNA polymerase II 36 kDa polypeptide A gi|514318|gb|AAB03741.1| RNA polymerase II third largest subunit [Arabidopsis thaliana] gi|4544370|gb|AAD22281.1| DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] gi|17381018|gb|AAL36321.1| putative DNA-directed RNA polymerase II third largest subunit [Arabidopsis thaliana] gi|20465883|gb|AAM20046.1| putative DNA-directed RNA polymerase II [Arabidopsis thaliana] gi|330251306|gb|AEC06400.1| DNA-directed RNA polymerase II subunit RPB3-A [Arabidopsis thaliana] Length = 319 Score = 39.2 bits (90), Expect = 0.88, Method: Composition-based stats. Identities = 28/174 (16%), Positives = 55/174 (31%), Gaps = 34/174 (19%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG--------- 67 I + + +++ R ++ NALRRV++S + AI V+I+ Sbjct: 11 KIKIRELKDDYAKFEL----RETDVSMANALRRVMISEVPTVAIDLVEIEVNSSVLNDEF 66 Query: 68 VLHEISSIKGVHEDLTDI-------------ILNIKGINLKMSGDSHKRVTIFKRGPGVV 114 + H + I E + + ++S T+ + Sbjct: 67 IAHRLGLIPLTSERAMSMRFSRDCDACDGDGQCEFCSVEFRLSSKCVTDQTLDVTSRDLY 126 Query: 115 TAGDIQTVNDIEV--------LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 +A T D + + +I L +++ KG G AK Sbjct: 127 SADPTVTPVDFTIDSSVSDSSEHKGIIIVKLRRGQELKLRAIARKGIGKDHAKW 180 >gi|161527936|ref|YP_001581762.1| RNA polymerase insert [Nitrosopumilus maritimus SCM1] gi|160339237|gb|ABX12324.1| RNA polymerase insert [Nitrosopumilus maritimus SCM1] Length = 221 Score = 39.2 bits (90), Expect = 0.92, Method: Composition-based stats. Identities = 30/146 (20%), Positives = 52/146 (35%), Gaps = 16/146 (10%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRRV ++ + A+ V I +G+ H + I + DL+ K Sbjct: 35 ANALRRVCLNGVPVFAVDTVDIIENSSVLPDEGLAHRLGLIP-LKTDLSRFNEPSKCECQ 93 Query: 95 KMSGDSHKRVTIFK-RGPGVVTAGDIQT-----VNDIEVLNPDHVICNLDVDAVVRMELT 148 +G S+ +V + G VT + + I ++ I L +++E Sbjct: 94 SETGCSNCKVMLVLDSGDSDVTRTVLSNELSSEDDSITPISDKIPIVELAPGQRIKVECY 153 Query: 149 VSKGHGYVPAKHHRTENDPIGLITID 174 G G AK + + D Sbjct: 154 ARLGRGTEHAKWNSANVSMLTETDKD 179 >gi|167038401|ref|YP_001665979.1| DNA-directed DNA polymerase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|167038865|ref|YP_001661850.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X514] gi|256751141|ref|ZP_05492023.1| DNA-directed DNA polymerase [Thermoanaerobacter ethanolicus CCSD1] gi|300913550|ref|ZP_07130867.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X561] gi|307723435|ref|YP_003903186.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X513] gi|320116805|ref|YP_004186964.1| DNA-directed DNA polymerase [Thermoanaerobacter brockii subsp. finnii Ako-1] gi|166853105|gb|ABY91514.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X514] gi|166857235|gb|ABY95643.1| DNA-directed DNA polymerase [Thermoanaerobacter pseudethanolicus ATCC 33223] gi|256750047|gb|EEU63069.1| DNA-directed DNA polymerase [Thermoanaerobacter ethanolicus CCSD1] gi|300890235|gb|EFK85380.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X561] gi|307580496|gb|ADN53895.1| DNA-directed DNA polymerase [Thermoanaerobacter sp. X513] gi|319929896|gb|ADV80581.1| DNA-directed DNA polymerase [Thermoanaerobacter brockii subsp. finnii Ako-1] Length = 389 Score = 39.2 bits (90), Expect = 0.92, Method: Composition-based stats. Identities = 18/163 (11%), Positives = 60/163 (36%), Gaps = 13/163 (7%) Query: 188 ESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINV 247 E+ + +D + + ++ + + +++ + ++ + + K + I Sbjct: 104 EAYLDVTDIDKNPEIIALEIKKKVKETTGLTISAGVSYNKFLAKLASDWNKPDGFMVITE 163 Query: 248 KSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADM------------LRM 295 +P L + + +S L+ I +GDL++ ++ ++ LR+ Sbjct: 164 DMIPDILKPLPVSKVYGIGQKSEERLKSMGINTIGDLLKLSQENLVEIFGKVGVEIYLRI 223 Query: 296 ANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 + + ++ + ++G + + + AK + D Sbjct: 224 RGIDERPVETMREI-KSIGKEKTLEKDTKDKKLLLRYAKLFSD 265 >gi|294500353|ref|YP_003564053.1| hypothetical protein BMQ_3606 [Bacillus megaterium QM B1551] gi|294350290|gb|ADE70619.1| conserved hypothetical protein [Bacillus megaterium QM B1551] Length = 56 Score = 39.2 bits (90), Expect = 0.98, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 23/53 (43%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + L I + L + +E ++L+ G SL +++ L GL Sbjct: 2 LSAPARRALENNGITSLQQLSKFSEKEILQFHGMGPASLPKLRTALQANGLAF 54 >gi|294634514|ref|ZP_06713049.1| L factor [Edwardsiella tarda ATCC 23685] gi|291092028|gb|EFE24589.1| L factor [Edwardsiella tarda ATCC 23685] Length = 495 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 17/97 (17%), Positives = 34/97 (35%), Gaps = 8/97 (8%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +E ++ + A+ + L++ L E + +L E ++L Sbjct: 334 WELNVMTAEDLQAKHQAEAHAAIDTFTKHLDIDEEFATLLVEEGFSTLEELAYVPERELL 393 Query: 294 RMANFGRKSLVEI----KGVLGTMGL----FLGMNLP 322 + +S+ + K L T+ L LG N P Sbjct: 394 AIDGLDEESVEALRTRAKNALTTLALAQEESLGDNKP 430 >gi|21593370|gb|AAM65319.1| DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] Length = 319 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 29/174 (16%), Positives = 62/174 (35%), Gaps = 34/174 (19%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID---GVLH-EI 72 I + + +++ R ++ NALRRV++S + AI V+I+ VL+ E Sbjct: 11 KIKIRELKDDYAKFEL----RETDVSMANALRRVMISEVPTVAIDLVEIEVNSSVLNDEF 66 Query: 73 -SSIKGVHEDLTDIILNIK-----------------GINLKMSGDSHKRVTIFKRGPGVV 114 + G+ ++ ++++ + ++S T+ + Sbjct: 67 IAHRLGLISLTSERAMSMRFSRDCDACDGDGQCEFCSVEFRLSSKCVTDQTLDVTSRDLY 126 Query: 115 TAGDIQTVNDIEV--------LNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 +A T D + + +I L +++ KG G AK Sbjct: 127 SADPTVTPVDFTIDSSVSDSSEHKGIIIVKLRRGQELKLRAIARKGIGKDHAKW 180 >gi|150009774|ref|YP_001304517.1| hypothetical protein BDI_3189 [Parabacteroides distasonis ATCC 8503] gi|149938198|gb|ABR44895.1| conserved hypothetical protein [Parabacteroides distasonis ATCC 8503] Length = 301 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 4/60 (6%) Query: 258 KKVEELELSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 + + L LS CL I + DL++ + +L M FG L ++K L Sbjct: 221 QPITNLTLSPYIRKCLAKLEIETIEDLLRYAKKKGLDSLLDMPGFGTLGLDQLKFQLEKH 280 >gi|172213|gb|AAA34889.1| RNA polymerase II (EC 2.7.7.6) [Saccharomyces cerevisiae] Length = 318 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 43/271 (15%), Positives = 84/271 (30%), Gaps = 53/271 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 + N+LRRV+++ + AI +V+++ + H + I + + L Sbjct: 29 MANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIP--LQSMDIEQLEYSRDC 86 Query: 94 LKMSGDSHKRVTIFKRGPGV------VTAGDIQTVNDIEVLNPDHV-----------ICN 136 V + + G V + D+ V+++ N H IC Sbjct: 87 FCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICK 146 Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVES------- 189 L +++ KG AK ++ +K Y E Sbjct: 147 LRKGQELKLTCVAKKGIAKEHAKWGPAAGIEFEYDP----WNKLKHTDYWYEQDSAKEWP 202 Query: 190 ----------AREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFE 235 EG DY D M +++ GSI + V LQ ++ + Sbjct: 203 QSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLAL 262 Query: 236 EPKKEVKEDINVKSLPFNPALLKKVEELELS 266 + K + +L E++ ++ Sbjct: 263 TQMDQDKVNFASGDNNTASNMLGSNEDVMMT 293 >gi|299536426|ref|ZP_07049738.1| hypothetical protein BFZC1_10407 [Lysinibacillus fusiformis ZC1] gi|298727910|gb|EFI68473.1| hypothetical protein BFZC1_10407 [Lysinibacillus fusiformis ZC1] Length = 94 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 15/55 (27%), Positives = 24/55 (43%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + N + + L TE D+L+M G SL ++ L +GL Sbjct: 39 SKLSSPARNAFVHAGVDTLEKLSMYTEKDILKMHGIGPASLPFMRSSLKEVGLSF 93 >gi|300707120|ref|XP_002995782.1| hypothetical protein NCER_101243 [Nosema ceranae BRL01] gi|239604995|gb|EEQ82111.1| hypothetical protein NCER_101243 [Nosema ceranae BRL01] Length = 233 Score = 39.2 bits (90), Expect = 1.0, Method: Composition-based stats. Identities = 30/157 (19%), Positives = 62/157 (39%), Gaps = 20/157 (12%) Query: 17 YIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIK 76 I++ + +N +A NALRR+L+S + I V+I+ ++ S Sbjct: 2 KILIEESTDNIIKFTLRDTYVSYA----NALRRILISEVPTVTIDLVEIE--INNTSLPD 55 Query: 77 GVHEDLTDI--ILNIKGINLK-------MSGDSHKRVTIFKR----GPGVVTAGDIQTVN 123 + + + K + + + +T+ P VVT D+++ + Sbjct: 56 EMISHRLGLVPLYTKKDLVFRDDCACDDICDKCSVSLTLNVSNNTDMPMVVTCKDLKSQD 115 Query: 124 DIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 D+ + + VIC L +++ KG G + +K Sbjct: 116 DVVIRSSP-VICKLGTRQNLKVICKAFKGVGKIHSKW 151 >gi|283471912|emb|CAQ51123.1| putative DNA-binding protein [Staphylococcus aureus subsp. aureus ST398] Length = 191 Score = 38.8 bits (89), Expect = 1.1, Method: Composition-based stats. Identities = 10/50 (20%), Positives = 22/50 (44%) Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 L + I + D+ Q T++ ++ M G K++ ++ L L + Sbjct: 13 ALNSQGIYTLEDVSQYTKSSLMEMHGVGPKAISILENALFQHQLHFKTEV 62 >gi|329766306|ref|ZP_08257853.1| RNA polymerase insert [Candidatus Nitrosoarchaeum limnia SFB1] gi|329137208|gb|EGG41497.1| RNA polymerase insert [Candidatus Nitrosoarchaeum limnia SFB1] Length = 212 Score = 38.8 bits (89), Expect = 1.2, Method: Composition-based stats. Identities = 28/138 (20%), Positives = 49/138 (35%), Gaps = 16/138 (11%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRR+ ++ + AI V I +G+ H + I + DL+ K Sbjct: 26 ANALRRICLNGIPVFAIDTVDIIENSSVLPDEGLAHRLGLIP-LQTDLSRFNEPSKCDCK 84 Query: 95 KMSGDSHKRVTIFK-RGPGVVTA-----GDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 +G S+ +V + G VT ++ + I L +++E Sbjct: 85 SETGCSNCKVMLVLDSGDSDVTRTILSNELTSEDESVKPTSDKIPIVQLAAGQRIKVECY 144 Query: 149 VSKGHGYVPAKHHRTEND 166 G G AK + + Sbjct: 145 ARLGRGTEHAKWNSSNIS 162 >gi|268324993|emb|CBH38581.1| putative DNA-directed RNA polymerase, subunit D [uncultured archaeon] Length = 213 Score = 38.8 bits (89), Expect = 1.2, Method: Composition-based stats. Identities = 31/205 (15%), Positives = 71/205 (34%), Gaps = 49/205 (23%) Query: 43 LGNALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSH 101 NALRRV+++ + AI + I + + L + ++K Sbjct: 24 FANALRRVMIAEVPKLAIDELNIRENTSLLYDEQLALRLALVPLKTDLKD------YKEE 77 Query: 102 KRVTIFKRGPGVVTAGDI------------------QTVNDIEVLNPDHVICNLDVDA-- 141 ++T+ + AG + + +++++ + I + A Sbjct: 78 DQITLTLKATSPEKAGHTMVYSKELISSYPKVEAASENIPIVKLISTEREIGAIKTVARQ 137 Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 + ++ G G AK P+ Y + D + L Sbjct: 138 KIDLDAIARWGRGEEHAKWQ-----------------PVTICGY-----KNISDEDVNNL 175 Query: 202 SMTIDTDGSITGEDSVALASRILQD 226 T+++DG++ ++ + A+RI+Q+ Sbjct: 176 LFTVESDGALPVDEIILEAARIMQE 200 >gi|299139239|ref|ZP_07032415.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8] gi|298598919|gb|EFI55081.1| transcription termination factor NusA [Acidobacterium sp. MP5ACTX8] Length = 544 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 17/90 (18%), Positives = 36/90 (40%), Gaps = 4/90 (4%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++LQ ++ + E+ ++ ++ + P P EL L Sbjct: 328 VRLAAKLLQWKIDIKSEEEKRQEVEQQMQAMTGGPSTPIEQV----TELGESVMEKLIAA 383 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I + L T ++ + G K++ +I Sbjct: 384 GITTVESLADMTAEELGEVPGIGDKTVEKI 413 >gi|156371210|ref|XP_001628658.1| predicted protein [Nematostella vectensis] gi|156215640|gb|EDO36595.1| predicted protein [Nematostella vectensis] Length = 274 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 47/274 (17%), Positives = 93/274 (33%), Gaps = 52/274 (18%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG----- 67 N +L +EN I + ++ N LRR+ ++ AI VQI+ Sbjct: 5 NQPSVKILELTDENV-KFII---EKT-GMSMANGLRRIFIAETPTIAIDWVQIENNTSVL 59 Query: 68 ----VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT--- 105 + H + + +++ D + + +++K + DS + VT Sbjct: 60 HDEFIAHRLGLVPLTSDEVVDRMTFSRDCTCDEFCDDCSIEFTLDVKCTDDSTRHVTTQD 119 Query: 106 -IFKRGPGV-VTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 I V VT+ + + + + D +I L +++ KG AK + T Sbjct: 120 LISTNPRCVPVTSRNREDDSREYMEQDDILIVKLRKGQELKLRAFAKKGFAKEHAKWNPT 179 Query: 164 ENDPIGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTD 208 +AL Y+ +++ Y A DK + +++ Sbjct: 180 AGVAFEYDPDNALRHTTYPRPEEWPKSEYTELEEDQY---QAPFDPNAKADKFYINVESC 236 Query: 209 GSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 GS+ E+ V IL+ +L + Sbjct: 237 GSLKPENIVLSGLAILKKKLSDLQTQHSHEVAAD 270 >gi|332184778|gb|AEE27032.1| Transcription termination protein NusA [Francisella cf. novicida 3523] Length = 489 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 349 DAEQEEKQMSIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 408 Query: 305 EIKG 308 E++ Sbjct: 409 ELQE 412 >gi|331211573|ref|XP_003307056.1| RNA polymerase II subunit 3 [Puccinia graminis f. sp. tritici CRL 75-36-700-3] gi|309297459|gb|EFP74050.1| RNA polymerase II subunit 3 [Puccinia graminis f. sp. tritici CRL 75-36-700-3] Length = 312 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 34/147 (23%), Positives = 51/147 (34%), Gaps = 17/147 (11%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + + ++ I E + G L N+LRR +++ L AI +V E Sbjct: 21 VKVTELDDQHAAFILEGIELG----LANSLRRTMIADLTTIAIHSV-------EFEENTS 69 Query: 78 VHED--LTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVT-AGDIQTVNDIEVLNPDHV- 133 V D + + I I L V V+T D D+ P V Sbjct: 70 VLPDEMIAHRLGLIPLIILSTKCTLVGDVLAVNSHDLVITPREDGAHRGDVG--KPYRVL 127 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKH 160 I L VR++ KG G AK Sbjct: 128 ITKLRKGQEVRLKCRAIKGIGQEHAKW 154 >gi|116328714|ref|YP_798434.1| transcription elongation factor NusA [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116330628|ref|YP_800346.1| transcription elongation factor NusA [Leptospira borgpetersenii serovar Hardjo-bovis JB197] gi|116121458|gb|ABJ79501.1| Transcription elongation factor [Leptospira borgpetersenii serovar Hardjo-bovis L550] gi|116124317|gb|ABJ75588.1| Transcription elongation factor [Leptospira borgpetersenii serovar Hardjo-bovis JB197] Length = 462 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 1/70 (1%) Query: 244 DINVKSLPFNPALLKKVEELE-LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS 302 + + P L +E+L LS R L+ E I + LI+ ++ D+ ++ G + Sbjct: 385 EEAKVAAPQEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQDDLAKLQGIGHTT 444 Query: 303 LVEIKGVLGT 312 +I +L Sbjct: 445 AGQILKLLRE 454 >gi|91772121|ref|YP_564813.1| DNA-directed RNA polymerase subunit D [Methanococcoides burtonii DSM 6242] gi|91711136|gb|ABE51063.1| DNA-directed RNA polymerase subunit D [Methanococcoides burtonii DSM 6242] Length = 267 Score = 38.8 bits (89), Expect = 1.3, Method: Composition-based stats. Identities = 29/173 (16%), Positives = 57/173 (32%), Gaps = 24/173 (13%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDGVLHE-IS 73 I + + + I +T N +RR +++ + AI V I Sbjct: 3 IDILELSDRSAKFILS-------NTTAAFANGVRRAMLADVPTLAIDDVNIYNNTSVLYD 55 Query: 74 SIKGVHEDLTDIILNIKGINL--KMSGD------SHKRVTIFKR----GPGVVTAGDIQ- 120 + L + + K + D +T+ G +V +GDI Sbjct: 56 EQLALRLGLIPLTTSFDDFVPQDKCTCDGAGCPACTVSLTLSVETDESGQTIVHSGDIVS 115 Query: 121 TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITI 173 + +++ + + I +L V V +E G+G AK ++ I Sbjct: 116 SDPNVQPADKNIPIIDLRVGQKVVLEAIAHMGYGNKHAKWQAGVACGYKIMPI 168 >gi|118498223|ref|YP_899273.1| transcription elongation factor NusA [Francisella tularensis subsp. novicida U112] gi|194324407|ref|ZP_03058180.1| transcription termination factor NusA [Francisella tularensis subsp. novicida FTE] gi|208780250|ref|ZP_03247592.1| transcription termination factor NusA [Francisella novicida FTG] gi|118424129|gb|ABK90519.1| transcription elongation factor [Francisella novicida U112] gi|194321472|gb|EDX18957.1| transcription termination factor NusA [Francisella tularensis subsp. novicida FTE] gi|208743899|gb|EDZ90201.1| transcription termination factor NusA [Francisella novicida FTG] Length = 489 Score = 38.8 bits (89), Expect = 1.4, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 349 DAEQEEKQMSIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 408 Query: 305 EIKG 308 E++ Sbjct: 409 ELQE 412 >gi|187931005|ref|YP_001890989.1| transcription elongation factor NusA [Francisella tularensis subsp. mediasiatica FSC147] gi|187711914|gb|ACD30211.1| transcription termination factor NusA [Francisella tularensis subsp. mediasiatica FSC147] Length = 489 Score = 38.8 bits (89), Expect = 1.4, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 349 DAEQEEKQMSIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 408 Query: 305 EIKG 308 E++ Sbjct: 409 ELQE 412 >gi|254375031|ref|ZP_04990511.1| transcription elongation factor [Francisella novicida GA99-3548] gi|151572749|gb|EDN38403.1| transcription elongation factor [Francisella novicida GA99-3548] Length = 489 Score = 38.8 bits (89), Expect = 1.4, Method: Composition-based stats. Identities = 13/64 (20%), Positives = 25/64 (39%) Query: 245 INVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 + + K VE L++ L E I + DL A++L + F + + Sbjct: 349 DAEQEEKQMSIVEKFVEALDIDHDFALVLIEEGIETLEDLAYLDRAELLEIEGFDEEIVD 408 Query: 305 EIKG 308 E++ Sbjct: 409 ELQE 412 >gi|118576727|ref|YP_876470.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Cenarchaeum symbiosum A] gi|118195248|gb|ABK78166.1| DNA-directed RNA polymerase, alpha subunit/40 kD subunit [Cenarchaeum symbiosum A] Length = 212 Score = 38.4 bits (88), Expect = 1.4, Method: Composition-based stats. Identities = 23/134 (17%), Positives = 53/134 (39%), Gaps = 16/134 (11%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRR+ ++ + A+ V I +G+ H + I + D ++ N+ I+ Sbjct: 26 ANALRRICLNGVPVFAVDTVDIVENTSVLADEGLAHRLGLIP-LRTDSSEF-KNLAEIDP 83 Query: 95 KMSGDSHKRVTIF----KRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVS 150 + +T+ V+++ + + ++ ++ I L +++E Sbjct: 84 DDPINR-VMLTLDSGEAAETRTVLSSELVSEDSSVKPISDTIPIVELAPGQRIKVEAYAR 142 Query: 151 KGHGYVPAKHHRTE 164 G G AK + + Sbjct: 143 LGRGTEHAKWNSSN 156 >gi|91094813|ref|XP_970635.1| PREDICTED: similar to DNA-directed RNA polymerase II subunit [Tribolium castaneum] gi|270006567|gb|EFA03015.1| hypothetical protein TcasGA2_TC010438 [Tribolium castaneum] Length = 274 Score = 38.4 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 43/259 (16%), Positives = 91/259 (35%), Gaps = 57/259 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + ++ E T + N++RRVL++ AI V+++ Sbjct: 9 VHITDLTDDNVKFYIE-------DTDLSVANSIRRVLIAETPTLAIDWVKLEANSTVLSD 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRVT---IF 107 + H I I + +D+ + + +++K + D + VT + Sbjct: 62 EFLAHRIGLIPLISDDVVQRLQYPRDCICTDFCHECSVEFTLDVKCTDDHTRHVTTADLK 121 Query: 108 KRGPGVVTA-GDIQTVNDIEVLNPDHV-ICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 P V+ A + E + D + I L ++++ KG G AK + T Sbjct: 122 SSDPRVIPATSKHRDDESSEYGDTDEILIIKLRKGQELKVKAYAKKGFGKEHAKWNPTAG 181 Query: 166 DPIGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS 210 +A+ YS + + Y + L +K ++ G+ Sbjct: 182 VAFEYDPDNAMRHTLFPKPDEWPKSEYSELDEDQYEADFNW---ELKPNKFYFNVEAAGA 238 Query: 211 ITGEDSVALASRILQDQLG 229 + E+ V + +L+D+L Sbjct: 239 LKPENIVIMGVAMLKDKLS 257 >gi|224141187|ref|XP_002323956.1| predicted protein [Populus trichocarpa] gi|222866958|gb|EEF04089.1| predicted protein [Populus trichocarpa] Length = 73 Score = 38.4 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 13/62 (20%), Positives = 25/62 (40%), Gaps = 3/62 (4%) Query: 137 LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVL 196 L + + L + + HGY +N G +IDA++ ++ ++ V S G Sbjct: 9 LKEPIDLHIGLEIERNHGYC---MKPPKNFQDGSYSIDAIFMHVRNANHNVHSYGNGNEK 65 Query: 197 DY 198 Sbjct: 66 SQ 67 >gi|301310999|ref|ZP_07216928.1| conserved hypothetical protein [Bacteroides sp. 20_3] gi|300831062|gb|EFK61703.1| conserved hypothetical protein [Bacteroides sp. 20_3] Length = 301 Score = 38.4 bits (88), Expect = 1.5, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 4/53 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 LS CL+ + M DL++ +L++ FG L ++K L Sbjct: 228 LSPYIRKCLQKLELETMEDLLRYARKKGLDSLLKIPGFGPLGLDQLKFQLEKH 280 >gi|302833623|ref|XP_002948375.1| hypothetical protein VOLCADRAFT_88650 [Volvox carteri f. nagariensis] gi|300266595|gb|EFJ50782.1| hypothetical protein VOLCADRAFT_88650 [Volvox carteri f. nagariensis] Length = 272 Score = 38.4 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 43/266 (16%), Positives = 86/266 (32%), Gaps = 49/266 (18%) Query: 44 GNALRRVLMSSLRGAAITAVQIDG----VLHEI-SSIKGVHEDLTDIILNIKGINLKMSG 98 NALRRV+++ + AI V+++ + E + G+ ++ + K + Sbjct: 13 ANALRRVMIAEVPTIAIDLVEMENNTTVLNDEFLAHRLGLLPLVSTEAVAWKRPFEWSND 72 Query: 99 DSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDH---------------VICNLDVDAVV 143 V T ND+ LNP+H VIC + + Sbjct: 73 ADMIETAFSLDVTCTVDGVMDVTSNDLVPLNPEHGVFPVNYQNPDEKPIVICKMRRGQQL 132 Query: 144 RMELTVSKGHGYVPAKHHRTENDPIGLITI-DALYSPIKKVSYTVESAREGQVLDYDKLS 202 ++ KG G D I + A++ K + + ++ D +K Sbjct: 133 KLVARARKGIG----------KDHAKFIPVATAVFQ--YKPRIVLSHSAMAEMTDEEKQI 180 Query: 203 MTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKK--V 260 + +D S T + E + E + + L L + V Sbjct: 181 F-VHSDPSKTFK-------------FNPITRMIEVENEEAYMYDEECLVKARELGRPDLV 226 Query: 261 EELELSVRSTNCLRGENIVYMGDLIQ 286 +L + G ++ + D+++ Sbjct: 227 TITQLQDHFIFRVEGTGVLRVADIVR 252 >gi|152992166|ref|YP_001357887.1| isocitrate dehydrogenase, NADP-dependent [Sulfurovum sp. NBC37-1] gi|151424027|dbj|BAF71530.1| isocitrate dehydrogenase, NADP-dependent [Sulfurovum sp. NBC37-1] Length = 727 Score = 38.4 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 25/119 (21%), Positives = 49/119 (41%), Gaps = 17/119 (14%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 + A + L ++ V + SL + E ELS Sbjct: 11 IDEAPALATYSLLPIVSKFTNAAGVDVKTSDISLAGRVLAAMGLAEDELSK--------- 61 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEELA 333 +G+L+ + EA+++++ N S+ ++K + + G ++PD+P PE+ EE A Sbjct: 62 ----LGELVHKPEANIIKLPNISA-SIGQLKECIAELQ-SQGFDIPDFPENPETEEEKA 114 >gi|268592826|ref|ZP_06127047.1| L factor [Providencia rettgeri DSM 1131] gi|291311611|gb|EFE52064.1| L factor [Providencia rettgeri DSM 1131] Length = 502 Score = 38.4 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 19/126 (15%), Positives = 46/126 (36%), Gaps = 9/126 (7%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++L+ +E +E + ++ + L++ L E Sbjct: 325 VRLAAQLLKKH-RGDDKWELNVMTAEELNAKHQAEAHASIDTFTKHLDIDEEFATALVEE 383 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKG----VLGTMGL----FLGMNLPDWPPES 328 + +L ++L + +++ ++ L T+ L LG N P + Sbjct: 384 GFSTLEELAYVPINELLEIDGLDEETVEVLRERAKAALTTIELAQKESLGDNQPAEDLLN 443 Query: 329 IEELAK 334 +E + + Sbjct: 444 LEGMDR 449 >gi|150009203|ref|YP_001303946.1| hypothetical protein BDI_2605 [Parabacteroides distasonis ATCC 8503] gi|149937627|gb|ABR44324.1| conserved hypothetical protein [Parabacteroides distasonis ATCC 8503] Length = 301 Score = 38.4 bits (88), Expect = 1.6, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 4/53 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 LS CL+ + M DL++ +L++ FG L ++K L Sbjct: 228 LSPYIRKCLQKLELETMEDLLRYARKKGLDSLLKIPGFGPLGLDQLKFQLEKH 280 >gi|298377009|ref|ZP_06986963.1| conserved hypothetical protein [Bacteroides sp. 3_1_19] gi|298265993|gb|EFI07652.1| conserved hypothetical protein [Bacteroides sp. 3_1_19] Length = 303 Score = 38.4 bits (88), Expect = 1.7, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 4/53 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 LS CL+ + M DL++ +L++ FG L ++K L Sbjct: 230 LSPYIRKCLQKLELETMEDLLRYARKKGLDSLLKIPGFGPLGLDQLKFQLEKH 282 >gi|255015810|ref|ZP_05287936.1| hypothetical protein B2_18033 [Bacteroides sp. 2_1_7] gi|256841759|ref|ZP_05547265.1| conserved hypothetical protein [Parabacteroides sp. D13] gi|256736653|gb|EEU49981.1| conserved hypothetical protein [Parabacteroides sp. D13] Length = 303 Score = 38.4 bits (88), Expect = 1.7, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 4/53 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 LS CL+ + M DL++ +L++ FG L ++K L Sbjct: 230 LSPYIRKCLQKLELETMEDLLRYARKKGLDSLLKIPGFGPLGLDQLKFQLEKH 282 >gi|262384091|ref|ZP_06077227.1| conserved hypothetical protein [Bacteroides sp. 2_1_33B] gi|262294989|gb|EEY82921.1| conserved hypothetical protein [Bacteroides sp. 2_1_33B] Length = 301 Score = 38.4 bits (88), Expect = 1.7, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%), Gaps = 4/53 (7%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTM 313 LS CL+ + M DL++ +L++ FG L ++K L Sbjct: 228 LSPYIRKCLQKLELETMEDLLRYARKKGLDSLLKIPGFGPLGLDQLKFQLEKH 280 >gi|119872211|ref|YP_930218.1| RNA polymerase, insert [Pyrobaculum islandicum DSM 4184] gi|166229321|sp|A1RSE3|RPOD_PYRIL RecName: Full=DNA-directed RNA polymerase subunit D gi|119673619|gb|ABL87875.1| DNA-directed RNA polymerase, subunit D [Pyrobaculum islandicum DSM 4184] Length = 262 Score = 38.4 bits (88), Expect = 1.7, Method: Composition-based stats. Identities = 36/218 (16%), Positives = 66/218 (30%), Gaps = 33/218 (15%) Query: 45 NALRRVLMSSLRGAAITAVQI-DGVLHEISSIKGVHEDLTDIILNIK--------GINLK 95 N++RRV++S L AI V I + L + ++ L Sbjct: 27 NSIRRVIISELPVMAIDYVVIVSNTSVMYDEMLAHRLGLVPLTTPLQALPPIEDCETGLV 86 Query: 96 MSGDSHK--RVTIFKRGPGVVTAGDIQTV-NDIEVLNPDHVICNLDVDAVVRMELTVSKG 152 + + I +V +GD+ + D+ + D I L + +E G Sbjct: 87 DPSECTVRLMLQINAESDKIVYSGDLVSERPDVVPVYKDIPIVKLVKGQSIILEAYAKLG 146 Query: 153 HGYVPAKHHRTENDPIGLITI------------DALYSPIKKVSYTVESAREGQVLDYDK 200 AK I D T A + + D+ Sbjct: 147 RAKEHAKWQAALASYYYYPRIKVLDEKCKEECKDICKELTNPFECTFNKAWTCRDICGDR 206 Query: 201 LSMT---------IDTDGSITGEDSVALASRILQDQLG 229 L + +++ G+ E ++ A RIL+ + Sbjct: 207 LIVEWDRYKYVFWVESFGNYDVETALREAFRILKKKFS 244 >gi|160886398|ref|ZP_02067401.1| hypothetical protein BACOVA_04409 [Bacteroides ovatus ATCC 8483] gi|156108283|gb|EDO10028.1| hypothetical protein BACOVA_04409 [Bacteroides ovatus ATCC 8483] Length = 288 Score = 38.4 bits (88), Expect = 1.7, Method: Composition-based stats. Identities = 19/91 (20%), Positives = 34/91 (37%), Gaps = 9/91 (9%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 + E + + I L + EL+ +RS + +I + +L+Q T Sbjct: 184 MLMREAEETNPEIFIPEDIKAAKALLDTPITELKFDIRSQRIISEADIKTLRELLQITSQ 243 Query: 291 -------DMLRMANFGRKSLVEIKGVLGTMG 314 DML NFG S +++ L + Sbjct: 244 YGFRKLRDML--RNFGLVSQKKVEKRLKELN 272 >gi|326933967|ref|XP_003213069.1| PREDICTED: integrin beta-3-like [Meleagris gallopavo] Length = 781 Score = 38.0 bits (87), Expect = 1.8, Method: Composition-based stats. Identities = 16/72 (22%), Positives = 30/72 (41%), Gaps = 8/72 (11%) Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD--------WPPES 328 +I Y+ DL + D+ + N G K E++ + + + G + PPE+ Sbjct: 131 DIYYLMDLSNSMKDDLRNIQNLGTKLASEMRKLTSNLRIGFGAFVDKPISPYMYISPPEA 190 Query: 329 IEELAKKYEDKC 340 I + +KC Sbjct: 191 IRNPCYEIGEKC 202 >gi|321475674|gb|EFX86636.1| hypothetical protein DAPPUDRAFT_313021 [Daphnia pulex] Length = 274 Score = 38.0 bits (87), Expect = 1.8, Method: Composition-based stats. Identities = 40/231 (17%), Positives = 76/231 (32%), Gaps = 44/231 (19%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDGVLH----EI-SSIKGVH-----EDLTDIILNIK 90 ++ N+LRRV ++ AI VQ + E + G+ E + + + Sbjct: 28 LSVANSLRRVFIAETPTLAIDWVQFEANSTVLFDEFLAHRVGLIPLTSDESVEKMQYSRD 87 Query: 91 GINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNP-------------------D 131 D T+ + VT T D++ +P + Sbjct: 88 CTCPDFCVDCSVEFTLDVKCSEDVTRN--VTTADLKSTDPRVVPATSKRDEEPPDDNDNE 145 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPI-------KKVS 184 +I L ++M KG G AK + T ++L + + Sbjct: 146 ILIVKLRKGQELKMRAYAKKGFGKEHAKWNPTAGVAFEYDPDNSLRHTLFPKPEEWPRSE 205 Query: 185 YTVESAREGQVLDYD------KLSMTIDTDGSITGEDSVALASRILQDQLG 229 Y+ + YD K + +++ GS+ E+ V + IL+ +L Sbjct: 206 YSELGESDQHQAPYDPDGKPNKFFVNVESCGSLRPENIVLMGIAILKKKLS 256 >gi|257094932|ref|YP_003168573.1| serine/threonine protein kinase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] gi|257047456|gb|ACV36644.1| serine/threonine protein kinase [Candidatus Accumulibacter phosphatis clade IIA str. UW-1] Length = 1413 Score = 38.0 bits (87), Expect = 1.8, Method: Composition-based stats. Identities = 15/96 (15%), Positives = 30/96 (31%), Gaps = 4/96 (4%) Query: 212 TGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN 271 + A +D L + + + + + EL+ SV + N Sbjct: 763 DFRERFDNA----EDMLRDWRKIFDQADTQTAADPFEVIALRATRETAIGELDYSVEAQN 818 Query: 272 CLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L I + +L+ + + G K EI+ Sbjct: 819 VLDRMGIHSVRELLAVDRVRFRYLKSVGDKVRKEIR 854 >gi|281358582|ref|ZP_06245061.1| DNA ligase (NAD(+)) [Victivallis vadensis ATCC BAA-548] gi|281314930|gb|EFA98964.1| DNA ligase (NAD(+)) [Victivallis vadensis ATCC BAA-548] Length = 626 Score = 38.0 bits (87), Expect = 1.9, Method: Composition-based stats. Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 6/64 (9%) Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKS----LVEIKG--VLGTMGLFLGM 319 + + ++GDL + T D+LR+ F KS + EI+ ++ L + Sbjct: 405 EPTLRKLMENSGVRHLGDLFELTAMDLLRLDGFAAKSAANLIEEIQKARIVNDYQLLAAL 464 Query: 320 NLPD 323 N+P+ Sbjct: 465 NIPN 468 >gi|66517558|ref|XP_624836.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB3-like [Apis mellifera] Length = 276 Score = 38.0 bits (87), Expect = 1.9, Method: Composition-based stats. Identities = 40/256 (15%), Positives = 86/256 (33%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + E E ++ N++RRV ++ AI +Q++ + Sbjct: 9 VHISDLTEENVKFQVEDTE----LSVANSMRRVFIAETPTMAIDWIQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRV-TIFKRGPG 112 H I I + +D+ D I + +++K + D + V T + Sbjct: 65 AHRIGMIPLISDDVVDRIQYTRDCQCMDFCPECSVEFTLDVKCTEDQTRHVTTADFKSSD 124 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 VT+ + + +I L +++ KG G AK + T Sbjct: 125 PRVLPVTSRHREDDASEYGETDEILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVSF 184 Query: 169 GLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 +A+ YS +++ Y E + Y +++ G++ Sbjct: 185 EYDPDNAMRHTLFPKPDEWPKSEYSELEEDQYEAPFNWEAKPNKY---YFNVESSGALKP 241 Query: 214 EDSVALASRILQDQLG 229 E+ V + L+++L Sbjct: 242 ENIVMMGIAALKNKLS 257 >gi|319956111|ref|YP_004167374.1| isocitrate dehydrogenase, nADP-dependent [Nitratifractor salsuginis DSM 16511] gi|319418515|gb|ADV45625.1| isocitrate dehydrogenase, NADP-dependent [Nitratifractor salsuginis DSM 16511] Length = 728 Score = 38.0 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 15/59 (25%), Positives = 32/59 (54%), Gaps = 2/59 (3%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYEDK 339 +G+L+ + EA+++++ N SL ++K + + G ++PD+P E K+ K Sbjct: 63 LGELVHKPEANIIKLPNISA-SLTQLKECIAELQEH-GHDIPDYPENPQTEEEKQIAAK 119 >gi|257471948|pdb|3I4M|C Chain C, 8-Oxoguanine Containing Rna Polymerase Ii Elongation Complex D gi|257471963|pdb|3I4N|C Chain C, 8-Oxoguanine Containing Rna Polymerase Ii Elongation Complex E Length = 324 Score = 38.0 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 46/268 (17%), Positives = 88/268 (32%), Gaps = 47/268 (17%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 + N+LRRV+++ + AI +V+++ + H + I + + L Sbjct: 35 MANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIP--LQSMDIEQLEYSRDC 92 Query: 94 LKMSGDSHKRVTIFKRGPGV------VTAGDIQTVNDIEVLNPDHV-----------ICN 136 V + + G V + D+ V+++ N H IC Sbjct: 93 FCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICK 152 Query: 137 LDVDAVVRMELTVSKGHG-----YVPAKHHRTENDP-------IGLITIDAL--YSPIKK 182 L +++ KG + PA E DP D+ + K Sbjct: 153 LRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKN 212 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 Y + EG DY D M +++ GSI + V LQ ++ + Sbjct: 213 CEYE-DPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQM 271 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELS 266 + K + +L E++ ++ Sbjct: 272 DQDKVNFASGDNNTASNMLGSNEDVMMT 299 >gi|6322168|ref|NP_012243.1| Rpb3p [Saccharomyces cerevisiae S288c] gi|730603|sp|P16370|RPB3_YEAST RecName: Full=DNA-directed RNA polymerase II subunit RPB3; Short=RNA polymerase II subunit 3; Short=RNA polymerase II subunit B3; AltName: Full=B44.5; AltName: Full=DNA-directed RNA polymerase II 45 kDa polypeptide gi|14278326|pdb|1I3Q|C Chain C, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution gi|14278337|pdb|1I50|C Chain C, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution gi|14278367|pdb|1I6H|C Chain C, Rna Polymerase Ii Elongation Complex gi|20150715|pdb|1K83|C Chain C, Crystal Structure Of Yeast Rna Polymerase Ii Complexed With The Inhibitor Alpha Amanitin gi|30749618|pdb|1NIK|C Chain C, Wild Type Rna Polymerase Ii gi|30749739|pdb|1NT9|C Chain C, Complete 12-Subunit Rna Polymerase Ii gi|34810555|pdb|1PQV|C Chain C, Rna Polymerase Ii-Tfiis Complex gi|46015417|pdb|1R5U|C Chain C, Rna Polymerase Ii Tfiib Complex gi|46015782|pdb|1SFO|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex gi|56965913|pdb|1R9S|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex, Matched Nucleotide gi|56965925|pdb|1R9T|C Chain C, Rna Polymerase Ii Strand Separated Elongation Complex, Mismatched Nucleotide gi|56966109|pdb|1TWA|C Chain C, Rna Polymerase Ii Complexed With Atp gi|56966123|pdb|1TWC|C Chain C, Rna Polymerase Ii Complexed With Gtp gi|56966133|pdb|1TWF|C Chain C, Rna Polymerase Ii Complexed With Utp At 2.3 A Resolution gi|56966143|pdb|1TWG|C Chain C, Rna Polymerase Ii Complexed With Ctp gi|56966153|pdb|1TWH|C Chain C, Rna Polymerase Ii Complexed With 2'datp gi|58177166|pdb|1WCM|C Chain C, Complete 12-Subunit Rna Polymerase Ii At 3.8 Ang gi|61679446|pdb|1Y1W|C Chain C, Complete Rna Polymerase Ii Elongation Complex gi|61679463|pdb|1Y77|C Chain C, Complete Rna Polymerase Ii Elongation Complex With Substrate Analogue Gmpcpp gi|61679504|pdb|1Y1V|C Chain C, Refined Rna Polymerase Ii-Tfiis Complex gi|61679517|pdb|1Y1Y|C Chain C, Rna Polymerase Ii-Tfiis-DnaRNA COMPLEX gi|83754245|pdb|2B63|C Chain C, Complete Rna Polymerase Ii-Rna Inhibitor Complex gi|110590856|pdb|2B8K|C Chain C, 12-Subunit Rna Polymerase Ii gi|122920063|pdb|2E2H|C Chain C, Rna Polymerase Ii Elongation Complex At 5 Mm Mg2+ With Gtp gi|122920078|pdb|2E2I|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'- Dgtp gi|122920093|pdb|2E2J|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With Gmpcpp gi|122921032|pdb|2NVQ|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With 2'dutp gi|122921068|pdb|2NVT|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With Gmpcpp gi|122921084|pdb|2NVX|C Chain C, Rna Polymerase Ii Elongation Complex In 5 Mm Mg+2 With 2'- Dutp gi|122921099|pdb|2NVY|C Chain C, Rna Polymerase Ii Form Ii In 150 Mm Mn+2 gi|122921111|pdb|2NVZ|C Chain C, Rna Polymerase Ii Elongation Complex With Utp, Updated 112006 gi|134104676|pdb|2JA5|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex A gi|134104691|pdb|2JA6|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex B gi|134104712|pdb|2JA7|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex C gi|134104724|pdb|2JA7|O Chain O, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex C gi|134104736|pdb|2JA8|C Chain C, Cpd Lesion Containing Rna Polymerase Ii Elongation Complex D gi|146387186|pdb|2YU9|C Chain C, Rna Polymerase Ii Elongation Complex In 150 Mm Mg+2 With Utp gi|160877775|pdb|2R7Z|C Chain C, Cisplatin Lesion Containing Rna Polymerase Ii Elongation Complex gi|161172229|pdb|2R92|C Chain C, Elongation Complex Of Rna Polymerase Ii With Artificial Rdrp Scaffold gi|161172242|pdb|2R93|C Chain C, Elongation Complex Of Rna Polymerase Ii With A Hepatitis Delta Virus-Derived Rna Stem Loop gi|190613464|pdb|2VUM|C Chain C, Alpha-Amanitin Inhibited Complete Rna Polymerase Ii Elongation Complex gi|194368736|pdb|3CQZ|C Chain C, Crystal Structure Of 10 Subunit Rna Polymerase Ii In Complex With The Inhibitor Alpha-Amanitin gi|224983592|pdb|3FKI|C Chain C, 12-Subunit Rna Polymerase Ii Refined With Zn-Sad Data gi|239781918|pdb|3GTG|C Chain C, Backtracked Rna Polymerase Ii Complex With 12mer Rna gi|239781931|pdb|3GTJ|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer Rna gi|239781944|pdb|3GTK|C Chain C, Backtracked Rna Polymerase Ii Complex With 18mer Rna gi|239781957|pdb|3GTL|C Chain C, Backtracked Rna Polymerase Ii Complex With 13mer With G<>u Mismatch gi|239781970|pdb|3GTM|C Chain C, Co-Complex Of Backtracked Rna Polymerase Ii With Tfiis gi|239781984|pdb|3GTO|C Chain C, Backtracked Rna Polymerase Ii Complex With 15mer Rna gi|239781997|pdb|3GTP|C Chain C, Backtracked Rna Polymerase Ii Complex With 24mer Rna gi|239782010|pdb|3GTQ|C Chain C, Backtracked Rna Polymerase Ii Complex Induced By Damage gi|240104513|pdb|3H3V|D Chain D, Yeast Rnap Ii Containing Poly(A)-Signal Sequence In The Active Site gi|254839443|pdb|3HOU|C Chain C, Complete Rna Polymerase Ii Elongation Complex I With A T-U Mismatch gi|254839458|pdb|3HOU|O Chain O, Complete Rna Polymerase Ii Elongation Complex I With A T-U Mismatch gi|254839473|pdb|3HOV|C Chain C, Complete Rna Polymerase Ii Elongation Complex Ii gi|266618767|pdb|3K1F|C Chain C, Crystal Structure Of Rna Polymerase Ii In Complex With Tfiib gi|269914554|pdb|3K7A|C Chain C, Crystal Structure Of An Rna Polymerase Ii-Tfiib Complex gi|295982477|pdb|3M3Y|C Chain C, Rna Polymerase Ii Elongation Complex C gi|295982490|pdb|3M4O|C Chain C, Rna Polymerase Ii Elongation Complex B gi|325053965|pdb|3PO2|C Chain C, Arrested Rna Polymerase Ii Elongation Complex gi|325053980|pdb|3PO3|C Chain C, Arrested Rna Polymerase Ii Reactivation Intermediate gi|326634540|pdb|3QT1|C Chain C, Rna Polymerase Ii Variant Containing A Chimeric Rpb9-C11 Subunit gi|599978|emb|CAA86971.1| RNA polymerase II [Saccharomyces cerevisiae] gi|151943136|gb|EDN61471.1| RNA polymerase B [Saccharomyces cerevisiae YJM789] gi|190406243|gb|EDV09510.1| RNA polymerase II 45 kDa subunit [Saccharomyces cerevisiae RM11-1a] gi|207344276|gb|EDZ71474.1| YIL021Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi|256272154|gb|EEU07153.1| Rpb3p [Saccharomyces cerevisiae JAY291] gi|259147237|emb|CAY80490.1| Rpb3p [Saccharomyces cerevisiae EC1118] gi|285812625|tpg|DAA08524.1| TPA: Rpb3p [Saccharomyces cerevisiae S288c] gi|323333059|gb|EGA74460.1| Rpb3p [Saccharomyces cerevisiae AWRI796] gi|323354620|gb|EGA86456.1| Rpb3p [Saccharomyces cerevisiae VL3] Length = 318 Score = 38.0 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 46/268 (17%), Positives = 88/268 (32%), Gaps = 47/268 (17%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 + N+LRRV+++ + AI +V+++ + H + I + + L Sbjct: 29 MANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIP--LQSMDIEQLEYSRDC 86 Query: 94 LKMSGDSHKRVTIFKRGPGV------VTAGDIQTVNDIEVLNPDHV-----------ICN 136 V + + G V + D+ V+++ N H IC Sbjct: 87 FCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICK 146 Query: 137 LDVDAVVRMELTVSKGHG-----YVPAKHHRTENDP-------IGLITIDAL--YSPIKK 182 L +++ KG + PA E DP D+ + K Sbjct: 147 LRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKN 206 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 Y + EG DY D M +++ GSI + V LQ ++ + Sbjct: 207 CEYE-DPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQM 265 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELS 266 + K + +L E++ ++ Sbjct: 266 DQDKVNFASGDNNTASNMLGSNEDVMMT 293 >gi|189199142|ref|XP_001935908.1| DNA-directed RNA polymerase subunit D [Pyrenophora tritici-repentis Pt-1C-BFP] gi|187983007|gb|EDU48495.1| DNA-directed RNA polymerase subunit D [Pyrenophora tritici-repentis Pt-1C-BFP] Length = 334 Score = 38.0 bits (87), Expect = 2.0, Method: Composition-based stats. Identities = 41/260 (15%), Positives = 79/260 (30%), Gaps = 57/260 (21%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI--------TAVQIDG-VLHEI 72 + R I + N+LRRV++S + AI T+V D V H + Sbjct: 16 EANSQRASFIVQNFN----LETANSLRRVMLSEIPTLAIDVVEVLDNTSVLADEFVCHRL 71 Query: 73 SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVN----- 123 + + + D+I + + +++ + G V A D+ + Sbjct: 72 GLVPLSSKGVDDLIYSRDCDCEGYCDNCAVVLSLNAKCTGSEIMKVYARDLVIESRTPND 131 Query: 124 DI---EVLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT-------------- 163 ++ + + + I L + M KG AK + Sbjct: 132 EVGKPVITDSEGTGSCIVKLRRGQAINMRCIAKKGIAKEHAKWAPSAAIGFEYDPANKLH 191 Query: 164 ------ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD----KLSMTIDTDGSITG 213 E DP D +++ + D+D + ++T G I Sbjct: 192 HLDYWHEEDPEKEWPKDEA-----RINLDGGPENPDERFDFDAVPTRFFYDVETVGGIDP 246 Query: 214 EDSVALASRILQDQLGMFIN 233 + V LQ +L + Sbjct: 247 DQIVTKGIHRLQLKLAEIVQ 266 >gi|228982978|ref|ZP_04143237.1| RNA polymerase alpha subunit [Bacillus thuringiensis Bt407] gi|228777161|gb|EEM25469.1| RNA polymerase alpha subunit [Bacillus thuringiensis Bt407] Length = 85 Score = 38.0 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 14/37 (37%), Positives = 23/37 (62%) Query: 259 KVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRM 295 +EEL+L + L+ NI + DL+Q+TE D ++M Sbjct: 12 PIEELKLQACTNRLLKQNNIHSLYDLLQKTEDDFMKM 48 >gi|328785531|ref|XP_625072.3| PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC1-like [Apis mellifera] Length = 510 Score = 38.0 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 5/61 (8%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 N K I+ + E+ G+ NA RRVL+S + AI V Sbjct: 32 NLSNFKKEFKIQVMR-ESEDTRELEFDL----IGYPVGFANAFRRVLLSEVPTMAIEKVY 86 Query: 65 I 65 I Sbjct: 87 I 87 >gi|225851246|ref|YP_002731480.1| isocitrate dehydrogenase, NADP-dependent [Persephonella marina EX-H1] gi|225646248|gb|ACO04434.1| isocitrate dehydrogenase, NADP-dependent [Persephonella marina EX-H1] Length = 747 Score = 38.0 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 17/59 (28%), Positives = 33/59 (55%), Gaps = 2/59 (3%) Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 YMG+L+ + EA+++++ N S+ ++K + + G LPD+P E KK ++ Sbjct: 68 YMGELVWKPEANIMKLPNISA-SVPQLKEAIKELQEQ-GYPLPDYPENPQTEEEKKIKE 124 >gi|326389369|ref|ZP_08210937.1| DNA-directed DNA polymerase [Thermoanaerobacter ethanolicus JW 200] gi|325994732|gb|EGD53156.1| DNA-directed DNA polymerase [Thermoanaerobacter ethanolicus JW 200] Length = 389 Score = 38.0 bits (87), Expect = 2.1, Method: Composition-based stats. Identities = 13/109 (11%), Positives = 43/109 (39%), Gaps = 2/109 (1%) Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +D + + ++ + + +++ + ++ + + K + I +P Sbjct: 112 IDKNPEIIALEIKKKVKETTGLTISAGVSYNKFLAKLASDWNKPDGFMVITEDMIPDILK 171 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 L + + +S L+ I + DL++ ++ ++ + FG+ L Sbjct: 172 PLPVSKVYGIGEKSEQKLKAMGINTIDDLLKLSQESLIEI--FGKLGLE 218 >gi|260173471|ref|ZP_05759883.1| hypothetical protein BacD2_16485 [Bacteroides sp. D2] gi|299146878|ref|ZP_07039946.1| hypothetical protein HMPREF9010_02358 [Bacteroides sp. 3_1_23] gi|315921741|ref|ZP_07917981.1| conserved hypothetical protein [Bacteroides sp. D2] gi|298517369|gb|EFI41250.1| hypothetical protein HMPREF9010_02358 [Bacteroides sp. 3_1_23] gi|313695616|gb|EFS32451.1| conserved hypothetical protein [Bacteroides sp. D2] Length = 288 Score = 38.0 bits (87), Expect = 2.2, Method: Composition-based stats. Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 9/91 (9%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 E + + I L + EL+ +RS + +I + +L+Q T Sbjct: 184 MFMREAEETNPEIFIPEDIKAAKALLDTPITELKFDIRSQRIISEADIKTLRELLQITSQ 243 Query: 291 -------DMLRMANFGRKSLVEIKGVLGTMG 314 DML NFG S +++ L + Sbjct: 244 YGFRKLRDML--RNFGLVSQKKVEKRLKELN 272 >gi|221113635|ref|XP_002157486.1| PREDICTED: similar to predicted protein [Hydra magnipapillata] Length = 289 Score = 38.0 bits (87), Expect = 2.2, Method: Composition-based stats. Identities = 34/189 (17%), Positives = 65/189 (34%), Gaps = 36/189 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---VLH-EI- 72 + + + ++ I E ++ N+LRR+ ++ + AI VQI+ VLH E Sbjct: 9 VKILEWTDDNLKFILENTD----LSVANSLRRIFIAEVPTIAIDWVQIENNTSVLHDEFI 64 Query: 73 SSIKGVH-----EDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 + G+ E + + + + + + T+ + G T T D+ Sbjct: 65 AHRIGLIPLTSDEKVDKMCYSRDCTCSEFCDECSVKFTLDVKCTGETTR--HVTSRDLIS 122 Query: 128 LNP--------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 +P + VI L +++ KG G AK + T Sbjct: 123 EDPKVIPVTSRIKDDDTGYGETDEIVIVKLRKGQELKLHAFAKKGFGKEHAKWNPTAGVS 182 Query: 168 IGLITIDAL 176 +AL Sbjct: 183 FEYDPDNAL 191 >gi|222112349|ref|YP_002554613.1| sigma-70 region 4 domain-containing protein [Acidovorax ebreus TPSY] gi|221731793|gb|ACM34613.1| sigma-70 region 4 domain protein [Acidovorax ebreus TPSY] Length = 893 Score = 38.0 bits (87), Expect = 2.2, Method: Composition-based stats. Identities = 19/100 (19%), Positives = 36/100 (36%) Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 I D S + V S + + K +N L K++ L Sbjct: 173 DIWDDESYIANEHVLDTSNRHIIGIARYTLIAGEKPSASGILNNLHACPPWFLNDKLQNL 232 Query: 264 ELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSL 303 +VR N +G N+ + + + +L++ N G+ S+ Sbjct: 233 NTTVRMANVFKGHNLSTVAHIAAKGYNGLLKLPNLGQGSV 272 >gi|325295318|ref|YP_004281832.1| isocitrate dehydrogenase, NADP-dependent [Desulfurobacterium thermolithotrophum DSM 11699] gi|325065766|gb|ADY73773.1| isocitrate dehydrogenase, NADP-dependent [Desulfurobacterium thermolithotrophum DSM 11699] Length = 735 Score = 38.0 bits (87), Expect = 2.2, Method: Composition-based stats. Identities = 17/64 (26%), Positives = 34/64 (53%), Gaps = 5/64 (7%) Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYE-- 337 Y+G+L+ + EA+++++ N S+ ++ + + G +LPD+P E K+ Sbjct: 62 YLGELVWKPEANIMKLPNISA-SIPQLIDAVKELQ-SQGYDLPDFPENPQTEEEKEIRAK 119 Query: 338 -DKC 340 DKC Sbjct: 120 YDKC 123 >gi|298482936|ref|ZP_07001118.1| hypothetical protein HMPREF0106_03403 [Bacteroides sp. D22] gi|298270908|gb|EFI12487.1| hypothetical protein HMPREF0106_03403 [Bacteroides sp. D22] Length = 288 Score = 38.0 bits (87), Expect = 2.3, Method: Composition-based stats. Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 9/91 (9%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 E + + I L + EL+ +RS + +I + +L+Q T Sbjct: 184 MFMREAEETNPEIFIPEDIKAAKALLDTPITELKFDIRSQRIISEADIKTLRELLQITSQ 243 Query: 291 -------DMLRMANFGRKSLVEIKGVLGTMG 314 DML NFG S +++ L + Sbjct: 244 YGFRKLRDML--RNFGLVSQKKVEKRLKELN 272 >gi|307267048|ref|ZP_07548562.1| DNA-directed DNA polymerase [Thermoanaerobacter wiegelii Rt8.B1] gi|306917928|gb|EFN48188.1| DNA-directed DNA polymerase [Thermoanaerobacter wiegelii Rt8.B1] Length = 389 Score = 38.0 bits (87), Expect = 2.3, Method: Composition-based stats. Identities = 13/109 (11%), Positives = 43/109 (39%), Gaps = 2/109 (1%) Query: 196 LDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +D + + ++ + + +++ + ++ + + K + I +P Sbjct: 112 IDKNPEIIALEIKKKVKETTGLTISAGVSYNKFLAKLASDWNKPDGFMVITEDMIPDILK 171 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLV 304 L + + +S L+ I + DL++ ++ ++ + FG+ L Sbjct: 172 PLPVSKVYGIGEKSEQKLKAMGINTIDDLLKLSQESLIEI--FGKLGLE 218 >gi|293372761|ref|ZP_06619142.1| hypothetical protein CUY_2408 [Bacteroides ovatus SD CMC 3f] gi|292632270|gb|EFF50867.1| hypothetical protein CUY_2408 [Bacteroides ovatus SD CMC 3f] Length = 288 Score = 37.7 bits (86), Expect = 2.3, Method: Composition-based stats. Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 9/91 (9%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 E + + I L + EL+ +RS + +I + +L+Q T Sbjct: 184 MFMREAEETNPEIFIPEDIKAAKALLDTPITELKFDIRSQRIISEADIKTLRELLQITSQ 243 Query: 291 -------DMLRMANFGRKSLVEIKGVLGTMG 314 DML NFG S +++ L + Sbjct: 244 YGFRKLRDML--RNFGLVSQKKVEKRLKELN 272 >gi|324521335|gb|ADY47834.1| DNA-directed RNA polymerase II subunit RPB3 [Ascaris suum] Length = 275 Score = 37.7 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 46/292 (15%), Positives = 85/292 (29%), Gaps = 88/292 (30%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKG 91 ++ N+LRR+ ++ + AI VQI+ + H + I ++ D + Sbjct: 28 LSVANSLRRIFIAEVPTMAIDWVQIEANTSVLHDEFIAHRMGLIPLTSNNVVDKFQYSRD 87 Query: 92 INLKMSG-DSHKRVTIFKRGPGV----VTAGDIQTVNDIEV---------------LNPD 131 + + + R VT D+++ N V + D Sbjct: 88 CQCNDFCPECAVEMRLSVRWDDEGTRSVTTADLESSNAAVVPACGRHLQGRNAEDGTSED 147 Query: 132 HVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAR 191 +I L +RM+ KG G AK + T +AL Sbjct: 148 ILIVKLRRGQEIRMKCYAKKGFGKEHAKWNPTCGVAFEYDPDNAL--------------- 192 Query: 192 EGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 + E PK E + + Sbjct: 193 ----------------------------------RHTVLAKPEEWPKSEYSQLEEDEYEA 218 Query: 252 FNPALLKKVEELELSVRSTNCLRGENI---------VYMGDLIQRTEADMLR 294 + K + +V S+ L+ ENI +GDL + + ++L+ Sbjct: 219 PYDPMAKPNKFW-FTVESSGALKAENIVLSGINVLKKKLGDLQNQLQRELLQ 269 >gi|330947784|ref|XP_003306966.1| hypothetical protein PTT_20284 [Pyrenophora teres f. teres 0-1] gi|311315237|gb|EFQ84939.1| hypothetical protein PTT_20284 [Pyrenophora teres f. teres 0-1] Length = 334 Score = 37.7 bits (86), Expect = 2.4, Method: Composition-based stats. Identities = 43/264 (16%), Positives = 80/264 (30%), Gaps = 65/264 (24%) Query: 22 QEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI--------TAVQIDG-VLHEI 72 + R I + N+LRRV++S + AI T+V D V H + Sbjct: 16 EASSQRASFIVQNFN----LETANSLRRVMLSEIPTLAIDVVEVLDNTSVLADEFVCHRL 71 Query: 73 SSIK----GVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPG----VVTAGDIQTVN- 123 I GV + + + +G + +++ + G V A D+ + Sbjct: 72 GLIPLSSKGVDDLVYSRDCDCEGYC----DNCAVVLSLNAKCTGSEIMKVYARDLVIESR 127 Query: 124 ----DI---EVLNPD---HVICNLDVDAVVRMELTVSKGHGYVPAKHHRT---------- 163 ++ + + + I L + M KG AK + Sbjct: 128 TPNDEVGKPVITDSEGTGSCIVKLRRGQAINMRCIAKKGIAKEHAKWAPSAAIGFEYDPA 187 Query: 164 ----------ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYD----KLSMTIDTDG 209 E DP D +++ + D+D + ++T G Sbjct: 188 NKLHHLDYWHEEDPEKEWPKDEA-----RINLDGGPENPDERFDFDAVPTRFFYDVETVG 242 Query: 210 SITGEDSVALASRILQDQLGMFIN 233 I + V LQ +L + Sbjct: 243 GIDPDQIVTKGIHRLQLKLAEIVQ 266 >gi|254839488|pdb|3HOW|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iii With A T-U Mismatch And A Frayed Rna 3'-Uridine gi|254839503|pdb|3HOX|C Chain C, Complete Rna Polymerase Ii Elongation Complex V gi|254839518|pdb|3HOY|C Chain C, Complete Rna Polymerase Ii Elongation Complex Vi gi|254839533|pdb|3HOZ|C Chain C, Complete Rna Polymerase Ii Elongation Complex Iv With A T-U Mismatch And A Frayed Rna 3'-Guanine Length = 347 Score = 37.7 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 46/268 (17%), Positives = 88/268 (32%), Gaps = 47/268 (17%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 + N+LRRV+++ + AI +V+++ + H + I + + L Sbjct: 58 MANSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLIP--LQSMDIEQLEYSRDC 115 Query: 94 LKMSGDSHKRVTIFKRGPGV------VTAGDIQTVNDIEVLNPDHV-----------ICN 136 V + + G V + D+ V+++ N H IC Sbjct: 116 FCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICK 175 Query: 137 LDVDAVVRMELTVSKGHG-----YVPAKHHRTENDP-------IGLITIDAL--YSPIKK 182 L +++ KG + PA E DP D+ + K Sbjct: 176 LRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKN 235 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 Y + EG DY D M +++ GSI + V LQ ++ + Sbjct: 236 CEYE-DPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQM 294 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELS 266 + K + +L E++ ++ Sbjct: 295 DQDKVNFASGDNNTASNMLGSNEDVMMT 322 >gi|237723263|ref|ZP_04553744.1| conserved hypothetical protein [Bacteroides sp. 2_2_4] gi|229447785|gb|EEO53576.1| conserved hypothetical protein [Bacteroides sp. 2_2_4] Length = 288 Score = 37.7 bits (86), Expect = 2.5, Method: Composition-based stats. Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 9/91 (9%) Query: 231 FINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEA 290 E + + I L + EL+ +RS + +I + +L+Q T Sbjct: 184 MFMREAEETNPEIFIPEDIKAAKALLDTPITELKFDIRSQRIISEADIKTLRELLQITSQ 243 Query: 291 -------DMLRMANFGRKSLVEIKGVLGTMG 314 DML NFG S +++ L + Sbjct: 244 YGFRKLRDML--RNFGLVSQKKVEKRLKELN 272 >gi|67611563|ref|XP_667165.1| DNA-directed RNA polymerase I [Cryptosporidium hominis TU502] gi|54658273|gb|EAL36936.1| DNA-directed RNA polymerase I [Cryptosporidium hominis] Length = 344 Score = 37.7 bits (86), Expect = 2.6, Method: Composition-based stats. Identities = 33/176 (18%), Positives = 58/176 (32%), Gaps = 40/176 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---DGV------ 68 I + + + + G ++ NALRR+L+ + AI VQI +GV Sbjct: 57 IKVNELKSDYINFDIS----GIDASIANALRRILLVEIPTVAIETVQIYQNNGVIQDEVL 112 Query: 69 LHEISSIKGVHEDLTDIILNIKG-------INLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 H + I + + T N + K++ K +T+ I + Sbjct: 113 AHRLGLIPMLIDPNTIEFRNEDEDLNEKNSVCFKLNVKCTKD---DINHEKGITSKAIYS 169 Query: 122 VNDI-----------------EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + + +V+ D +I L + L K G V AK Sbjct: 170 KDLVWIPLSDNQRKKFGKSPPKVVTDDILITKLRPGQSIEAILYCEKNIGRVHAKW 225 >gi|66356630|ref|XP_625493.1| RNA polymerase III C5 subunit [Cryptosporidium parvum Iowa II] gi|46226487|gb|EAK87481.1| RNA polymerase III C5 subunit [Cryptosporidium parvum Iowa II] gi|323509937|dbj|BAJ77861.1| cgd8_300 [Cryptosporidium parvum] Length = 344 Score = 37.7 bits (86), Expect = 2.6, Method: Composition-based stats. Identities = 33/176 (18%), Positives = 58/176 (32%), Gaps = 40/176 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQI---DGV------ 68 I + + + + G ++ NALRR+L+ + AI VQI +GV Sbjct: 57 IKVNELKSDYINFDIS----GIDASIANALRRILLVEIPTVAIETVQIYQNNGVIQDEVL 112 Query: 69 LHEISSIKGVHEDLTDIILNIKG-------INLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 H + I + + T N + K++ K +T+ I + Sbjct: 113 AHRLGLIPMLIDPNTIEFRNEDEDLNEKNSVCFKLNVKCTKD---DINHEKGITSKAIYS 169 Query: 122 VNDI-----------------EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + + +V+ D +I L + L K G V AK Sbjct: 170 KDLVWIPLSDNQRKKFGKTPPKVVTDDILITKLRPGQSIEAILYCEKNIGRVHAKW 225 >gi|85119573|ref|XP_965664.1| DNA-directed RNA polymerases I and III 40 kDa polypeptide [Neurospora crassa OR74A] gi|28927476|gb|EAA36428.1| DNA-directed RNA polymerases I and III 40 kDa polypeptide [Neurospora crassa OR74A] Length = 378 Score = 37.7 bits (86), Expect = 2.7, Method: Composition-based stats. Identities = 36/208 (17%), Positives = 70/208 (33%), Gaps = 45/208 (21%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI---- 60 +W ++ K +V Q + G ++ NA RR++++ + AI Sbjct: 53 SW-DIEKFRESVRVVFHQNDPYEAQFSL----IGVDASIANAFRRIMIADIPTLAIEDIF 107 Query: 61 ----TAVQIDGVL-HEISSIK--GVHEDLTDIIL-----------NIKGINLKMSGDSHK 102 T+V D VL H + I G E L + + N + LK+ ++++ Sbjct: 108 MWNNTSVIQDEVLGHRLGLIPFTGGKEGLHNFLKWYKKGETPCDYNTVELELKVKCENNE 167 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVL------------------NPDHVICNLDVDAVVR 144 + P + DI+ + NPD ++ + + Sbjct: 168 SAPADSKDPKELYHNAHVYAKDIKFVPKGRQAKYFSGENAIRPTNPDILVAKMRPGQEID 227 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLIT 172 + + + KG G AK L+ Sbjct: 228 LTMHMHKGVGSDHAKFSPVATASYRLMP 255 >gi|319641964|ref|ZP_07996631.1| hypothetical protein HMPREF9011_02230 [Bacteroides sp. 3_1_40A] gi|317386389|gb|EFV67301.1| hypothetical protein HMPREF9011_02230 [Bacteroides sp. 3_1_40A] Length = 219 Score = 37.7 bits (86), Expect = 2.8, Method: Composition-based stats. Identities = 15/101 (14%), Positives = 33/101 (32%), Gaps = 6/101 (5%) Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 A+ + + L+ + L+++ R LR NI Sbjct: 106 YAALLT--HSQECGGQNFKNVVIVVREQDIPSECVDLLVTPLGNLDINFRVLRALRKYNI 163 Query: 279 VYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTMGL 315 + DL++ + + R+ G KS+ ++ L + Sbjct: 164 YQLEDLLRFIKYNGFDALCRIPGMGMKSVEQLYHTLKERNI 204 >gi|323308700|gb|EGA61941.1| Rpb3p [Saccharomyces cerevisiae FostersO] Length = 318 Score = 37.7 bits (86), Expect = 2.9, Method: Composition-based stats. Identities = 46/268 (17%), Positives = 87/268 (32%), Gaps = 47/268 (17%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDG---------VLHEISSIKGVHEDLTDIILNIKGIN 93 + N+LRRV++ + AI +V+++ + H + I + + L Sbjct: 29 MANSLRRVMIXEIPTLAIDSVEVETNTTVLADEFIAHRLGLIP--LQSMDIEQLEYSRDC 86 Query: 94 LKMSGDSHKRVTIFKRGPGV------VTAGDIQTVNDIEVLNPDHV-----------ICN 136 V + + G V + D+ V+++ N H IC Sbjct: 87 FCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVSNLMGRNIGHPIIQDKEGNGVLICK 146 Query: 137 LDVDAVVRMELTVSKGHG-----YVPAKHHRTENDP-------IGLITIDAL--YSPIKK 182 L +++ KG + PA E DP D+ + K Sbjct: 147 LRKGQELKLTCVAKKGIAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWPQSKN 206 Query: 183 VSYTVESAREGQVLDY----DKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPK 238 Y + EG DY D M +++ GSI + V LQ ++ + Sbjct: 207 CEYE-DPPNEGDPFDYKAQADTFYMNVESVGSIPVDQVVVRGIDTLQKKVASILLALTQM 265 Query: 239 KEVKEDINVKSLPFNPALLKKVEELELS 266 + K + +L E++ ++ Sbjct: 266 DQDKVNFASGDNNTASNMLGSNEDVMMT 293 >gi|254882695|ref|ZP_05255405.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] gi|254835488|gb|EET15797.1| conserved hypothetical protein [Bacteroides sp. 4_3_47FAA] Length = 226 Score = 37.7 bits (86), Expect = 2.9, Method: Composition-based stats. Identities = 15/101 (14%), Positives = 33/101 (32%), Gaps = 6/101 (5%) Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 A+ + + L+ + L+++ R LR NI Sbjct: 113 YAALLT--HSQECGGQNFKNVVIVVREQDIPSECVDLLVTPLGNLDINFRVLRALRKYNI 170 Query: 279 VYMGDLIQRTE----ADMLRMANFGRKSLVEIKGVLGTMGL 315 + DL++ + + R+ G KS+ ++ L + Sbjct: 171 YQLEDLLRFIKYNGFDALCRIPGMGMKSVEQLYHTLKERNI 211 >gi|94971244|ref|YP_593292.1| NusA antitermination factor [Candidatus Koribacter versatilis Ellin345] gi|94553294|gb|ABF43218.1| NusA antitermination factor [Candidatus Koribacter versatilis Ellin345] Length = 534 Score = 37.7 bits (86), Expect = 3.0, Method: Composition-based stats. Identities = 19/90 (21%), Positives = 39/90 (43%), Gaps = 4/90 (4%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++L ++ + + EE ++EV++ ++ P L K +L L Sbjct: 328 VRLAAKLLGWKIDI-KSEEEKRQEVEQQMSALVNPSITPLDKVP---DLGEAIIEKLSAA 383 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEI 306 I + L T + + G K++ +I Sbjct: 384 GINSVEALADMTPEQLEEVPGIGPKTVDKI 413 >gi|189203213|ref|XP_001937942.1| DNA-directed RNA polymerases I and III subunit RPAC1 [Pyrenophora tritici-repentis Pt-1C-BFP] gi|187985041|gb|EDU50529.1| DNA-directed RNA polymerases I and III subunit RPAC1 [Pyrenophora tritici-repentis Pt-1C-BFP] Length = 376 Score = 37.7 bits (86), Expect = 3.0, Method: Composition-based stats. Identities = 35/196 (17%), Positives = 60/196 (30%), Gaps = 57/196 (29%) Query: 34 PLPRGFAHT-----LGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIK--G 77 PL F+ T + NA RR+L+S + AI V I + + H + I G Sbjct: 59 PLDAQFSLTGIDTSVANAFRRILLSEIPTLAIEDVYIYQNTSIIQDEVLAHRLGLIPLCG 118 Query: 78 VHEDLTDIILNIKGINLK-----MSGDSHKRVTIFKRGP--------------------- 111 L + K + + ++ +T+ + Sbjct: 119 DRATLRRMKWYAKPTDEDEGSGGPTSENTVALTLKTKCTWQPGGVARAVAGETDPDRLYV 178 Query: 112 -GVVTAGDIQTVND--------------IEVLNPDHVICNLDVDAVVRMELTVSKGHGYV 156 V A D++ + I NPD +IC + + + + KG G Sbjct: 179 GHNVYAKDMRFEPNGNQAENLSEAEGKHIRSTNPDILICKMRPGQELEIRMHAIKGIGQD 238 Query: 157 PAKHHRTENDPIGLIT 172 AK L+ Sbjct: 239 HAKFSPVATASYRLMP 254 >gi|32564376|ref|NP_492732.2| yeast SEC homolog family member (sec-8) [Caenorhabditis elegans] gi|30179897|sp|Q9XWS2|EXOC4_CAEEL RecName: Full=Exocyst complex component 4; AltName: Full=Exocyst complex component Sec8 gi|25005036|emb|CAA21575.2| C. elegans protein Y106G6H.7, partially confirmed by transcript evidence [Caenorhabditis elegans] Length = 893 Score = 37.7 bits (86), Expect = 3.0, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 7/57 (12%) Query: 264 ELSVRSTNCLRG-----ENIVYMGDLIQRTEADMLRM--ANFGRKSLVEIKGVLGTM 313 ++S + +NC + + L++ D+ ++ N +KS+ EI L + Sbjct: 87 DVSSKISNCRERIHNVRNALHTVKSLLELRRDDLKKLWHENAQQKSVCEIMAKLEEL 143 >gi|312792292|ref|YP_004025215.1| secretion protein hlyd family protein [Caldicellulosiruptor kristjanssonii 177R1B] gi|312179432|gb|ADQ39602.1| secretion protein HlyD family protein [Caldicellulosiruptor kristjanssonii 177R1B] Length = 542 Score = 37.3 bits (85), Expect = 3.1, Method: Composition-based stats. Identities = 31/173 (17%), Positives = 64/173 (36%), Gaps = 21/173 (12%) Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +L+ + S+ +S R GQ L I+T+GS+ + SV + Q + I Sbjct: 170 SLFLTVAFPSWLFKSIRVGQKLKVVLTEYDIETEGSVDAKSSVFYINDNGQSVFDVKIVV 229 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + K + + + ++V + E I+ M +++ ++E + R Sbjct: 230 DNEGKSLPSGAKAFCVMTSGNFYQEVRSV-----------NEGILKMDEIVIKSEVE-GR 277 Query: 295 MANFGRKSLVEIK--GVLGTM-------GLFLGMNLPDWPPESIEELAKKYED 338 + K IK +L + + + E+IE L K+ + Sbjct: 278 IKKIFVKQYDRIKKGDILIEFFDQDIREQIDVKKDQIYETKEAIENLKKEINN 330 >gi|84996255|ref|XP_952849.1| meiotic recombination (DMC1-like) protein [Theileria annulata strain Ankara] gi|65303847|emb|CAI76224.1| meiotic recombination (DMC1-like) protein, putative [Theileria annulata] Length = 409 Score = 37.3 bits (85), Expect = 3.1, Method: Composition-based stats. Identities = 13/72 (18%), Positives = 31/72 (43%) Query: 237 PKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMA 296 K V + ++ ++++EE+ ++V N L+ I + +IQ T+ D+ + Sbjct: 8 KSKGVTIQSSTDTITKPFLPIERLEEMGINVSDINKLKSAGICTILGVIQTTKKDLCNIK 67 Query: 297 NFGRKSLVEIKG 308 + +I Sbjct: 68 GLTEMKVEKISD 79 >gi|196010261|ref|XP_002114995.1| hypothetical protein TRIADDRAFT_59063 [Trichoplax adhaerens] gi|190582378|gb|EDV22451.1| hypothetical protein TRIADDRAFT_59063 [Trichoplax adhaerens] Length = 349 Score = 37.3 bits (85), Expect = 3.1, Method: Composition-based stats. Identities = 37/192 (19%), Positives = 62/192 (32%), Gaps = 46/192 (23%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ 64 + K IE I + EE G ++ NA RR+++S + AI V Sbjct: 39 SLNSFRKNFKIEIIKVDNEEMEFD-------MIGIDASIANAYRRIMLSEVPAMAIEKVV 91 Query: 65 IDG---------VLHEISSIK----------------GVHEDLTDIILNIKGINLKM-SG 98 I + H + I +++ L IK I + Sbjct: 92 IHNNTSIIQDEVLAHRLGLIPIAADPKLFDNFNPGDTPTNKNSITFTLQIKCIRNRSAHS 151 Query: 99 DSHKRVTIFKRGPGVVTAGDIQT-----------VNDIEVLNPDHVICNLDVDAVVRMEL 147 D+ ++ VT D++ DI ++ D +I L + +E+ Sbjct: 152 DATDPEELYINS--KVTTKDLKLKYNEDQDNAIPNKDIRPVHEDILIAKLRPGQEIDLEM 209 Query: 148 TVSKGHGYVPAK 159 KG G AK Sbjct: 210 ICVKGTGADHAK 221 >gi|322793846|gb|EFZ17186.1| hypothetical protein SINV_07940 [Solenopsis invicta] Length = 325 Score = 37.3 bits (85), Expect = 3.2, Method: Composition-based stats. Identities = 50/304 (16%), Positives = 95/304 (31%), Gaps = 54/304 (17%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + E E ++ N++RRV ++ AI +Q++ + Sbjct: 9 VHISDLTEENVKFQVEDTE----LSVANSMRRVFIAETPTMAIDWIQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 H I I + +D+ D I + + T+ + T T D + Sbjct: 65 AHRIGMIPLISDDVVDRIQYTRDCQCMDFCPECSVEFTLDVKCTEDQTR--HVTTADFKS 122 Query: 128 LNP---------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +P + +I L +++ KG G AK + T Sbjct: 123 SDPRVLPVTSRHREDEASEYGETDEILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAGV 182 Query: 167 PIGLITIDALYSPIK-------KVSYT-VESAREGQVLDYDKLSMTIDTDGSITGEDSVA 218 +++ + K YT +E + L Y++ + +T E Sbjct: 183 SFEYDPDNSMRHTLYPKPDEWPKSEYTELEEDQCEYNLFYERNIVM------MTSEIKFC 236 Query: 219 LASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENI 278 I Q + E + ++ S K + +V S+ L+ ENI Sbjct: 237 YGILIWLKQFTSIFSIGE---NLIFYMHHLSYEAPFNWEAKPNKYYFNVESSGALKPENI 293 Query: 279 VYMG 282 V MG Sbjct: 294 VMMG 297 >gi|321248338|ref|XP_003191096.1| small nucleolar ribonucleoprotein protein [Cryptococcus gattii WM276] gi|317457563|gb|ADV19309.1| small nucleolar ribonucleoprotein protein, putative [Cryptococcus gattii WM276] Length = 773 Score = 37.3 bits (85), Expect = 3.2, Method: Composition-based stats. Identities = 22/139 (15%), Positives = 45/139 (32%), Gaps = 22/139 (15%) Query: 205 IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELE 264 + TDG E A Q + + ++ +ED + +EE Sbjct: 110 LTTDGF-DPEQVWAQLELRAQGVVNAVKSIDDSNGNAEEDFEGNPGSDDSDEDMTLEEF- 167 Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMAN-----FGRKSLVEIKGVLGTMGLFLGM 319 L+ D+ +E +++ M N SL E + +L G Sbjct: 168 -----REMLKEAGYD---DVDSMSEEELIEMRNEMEGGEDAMSLEEFREMLKESG----- 214 Query: 320 NLPDWPPESIEELAKKYED 338 + + E+L ++ ++ Sbjct: 215 --ENVDDMTEEKLMERMDE 231 >gi|319790038|ref|YP_004151671.1| PHP domain protein [Thermovibrio ammonificans HB-1] gi|317114540|gb|ADU97030.1| PHP domain protein [Thermovibrio ammonificans HB-1] Length = 575 Score = 37.3 bits (85), Expect = 3.2, Method: Composition-based stats. Identities = 12/76 (15%), Positives = 29/76 (38%), Gaps = 2/76 (2%) Query: 243 EDINVKSLPFNPALLKKVEELELSVRSTNCL-RGENIVYMGDLIQRTEA-DMLRMANFGR 300 E+ + ++ + ++ L I + DL + E ++L++ FG Sbjct: 77 EEFEKLKQQVPDTIFTLLDIPGVGPKTVKLLYEELGIRSIEDLKRAIERGELLKLPGFGP 136 Query: 301 KSLVEIKGVLGTMGLF 316 K + +IK + + Sbjct: 137 KRVEKIKKGIELLEKS 152 >gi|146320291|ref|YP_001200002.1| superfamily II helicase [Streptococcus suis 98HAH33] gi|145691097|gb|ABP91602.1| Superfamily II helicase [Streptococcus suis 98HAH33] Length = 117 Score = 37.3 bits (85), Expect = 3.2, Method: Composition-based stats. Identities = 7/35 (20%), Positives = 15/35 (42%) Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 I + D TE ++L + G ++ ++K Sbjct: 77 EAGIQSVADFANHTEKELLALKGIGPATIKQLKEK 111 >gi|290559364|gb|EFD92697.1| RNA polymerase insert [Candidatus Parvarchaeum acidophilus ARMAN-5] Length = 247 Score = 37.3 bits (85), Expect = 3.3, Method: Composition-based stats. Identities = 27/113 (23%), Positives = 48/113 (42%), Gaps = 5/113 (4%) Query: 43 LGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK 102 + NA+RR +++ + AI V I + S V +I I +K G Sbjct: 23 MANAIRRAIINGVYTLAIDDVTIY--KNTSSMFDEVLAARLGLIPIKTPIEVKGKGKF-- 78 Query: 103 RVTIFKRGPGVVTAGDIQ-TVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 + + + GP V A D+ + D+ P+ +I NL + +E + G+G Sbjct: 79 LLKLKEMGPKAVHASDLVSSDKDVVPAIPEMLIINLKDGESLELEAETTWGNG 131 >gi|209524184|ref|ZP_03272734.1| DEAD/DEAH box helicase domain protein [Arthrospira maxima CS-328] gi|209495275|gb|EDZ95580.1| DEAD/DEAH box helicase domain protein [Arthrospira maxima CS-328] Length = 670 Score = 37.3 bits (85), Expect = 3.4, Method: Composition-based stats. Identities = 25/156 (16%), Positives = 49/156 (31%), Gaps = 10/156 (6%) Query: 142 VVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKL 201 ++ L+V G+ + I+ID L I ++ + G Y +L Sbjct: 10 RLQKALSVEAERGFNNIQGKEYRFHEFLQISIDKLIEIIPLEAHDLGRKLVGDFAIYSQL 69 Query: 202 SMT------IDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPA 255 +T + + + A Q +L E I + P Sbjct: 70 ITEDRQHLIAETRNFLLQAERLLEA----QKKLAPNQPPEPSPPPRSRSITQEVTPPKSP 125 Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 L + + + R+++ L I + DL+ D Sbjct: 126 QLDQGLKELVGPRNSDLLARLGIYTIYDLLYYYPRD 161 >gi|330832305|ref|YP_004401130.1| hypothetical protein SSUST3_0479 [Streptococcus suis ST3] gi|329306528|gb|AEB80944.1| hypothetical protein SSUST3_0479 [Streptococcus suis ST3] Length = 128 Score = 37.3 bits (85), Expect = 3.4, Method: Composition-based stats. Identities = 7/35 (20%), Positives = 15/35 (42%) Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 I + D TE ++L + G ++ ++K Sbjct: 88 EAGIQSVADFANHTEKELLALKGIGPATIKQLKEK 122 >gi|300312899|ref|YP_003776991.1| transcription elongation factor protein [Herbaspirillum seropedicae SmR1] gi|300075684|gb|ADJ65083.1| transcription elongation factor protein [Herbaspirillum seropedicae SmR1] Length = 519 Score = 37.3 bits (85), Expect = 3.4, Method: Composition-based stats. Identities = 13/92 (14%), Positives = 37/92 (40%), Gaps = 8/92 (8%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+ + + Q+ + +E + + +E+L++ + L E Sbjct: 327 VRLAAELTRWQINIM--------TAEESADKSAAETALIRTLFMEKLDVDQEVADILVEE 378 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKG 308 + ++ +ML + +F +++ E++ Sbjct: 379 GFSTLEEIAYVPINEMLEIESFDEETVNELRN 410 >gi|308499521|ref|XP_003111946.1| CRE-SEC-8 protein [Caenorhabditis remanei] gi|308268427|gb|EFP12380.1| CRE-SEC-8 protein [Caenorhabditis remanei] Length = 893 Score = 37.3 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 7/57 (12%) Query: 264 ELSVRSTNCLRG-----ENIVYMGDLIQRTEADMLRM--ANFGRKSLVEIKGVLGTM 313 ++S + +NC + + L++ D+ ++ N +KS+ EI L + Sbjct: 87 DVSSKISNCRERIHNVRNALHTVKSLLELRRDDLKKLWHENAQQKSVCEIMAKLEEL 143 >gi|325679666|ref|ZP_08159241.1| acetolactate synthase, large subunit, biosynthetic type [Ruminococcus albus 8] gi|324108696|gb|EGC02937.1| acetolactate synthase, large subunit, biosynthetic type [Ruminococcus albus 8] Length = 565 Score = 37.3 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 31/167 (18%), Positives = 58/167 (34%), Gaps = 11/167 (6%) Query: 60 ITAVQIDGVL--HEISSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAG 117 I ++ID IS V D+ I + + M + + V Sbjct: 296 IIHIEIDPAEIGKNISVYHHVTGDVKHAIARLNELLPDMQHPEWYNEVMGWKRDYEVHMQ 355 Query: 118 DIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALY 177 I+ +++ PD VI LD + ++ G + A + P A Sbjct: 356 PIEREDEVL---PDQVIAELDRLTDGKAIISTEVGQHQMWAAQYYNFKCPRSF----ASS 408 Query: 178 SPIKKVSYTVESAREGQVLDYDKLSMTIDTDGS--ITGEDSVALASR 222 + + Y + +A +V + D+ + I DGS + + +LA Sbjct: 409 GGLGTMGYGLGAAMGCKVGNPDRTVVNIAGDGSFFMNCNELSSLAKH 455 >gi|300773134|ref|ZP_07083003.1| conserved domain protein [Sphingobacterium spiritivorum ATCC 33861] gi|300759305|gb|EFK56132.1| conserved domain protein [Sphingobacterium spiritivorum ATCC 33861] Length = 103 Score = 37.3 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 13/53 (24%), Positives = 22/53 (41%) Query: 265 LSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 LS + N L I + L T +L + G+ S+ ++ +L GL Sbjct: 42 LSNPAKNSLLYHGIDTLEALSAYTRKQILNLHGIGKASIPTLEKLLAGQGLSF 94 >gi|308499659|ref|XP_003112015.1| CRE-RPB-3 protein [Caenorhabditis remanei] gi|308268496|gb|EFP12449.1| CRE-RPB-3 protein [Caenorhabditis remanei] Length = 297 Score = 37.3 bits (85), Expect = 3.5, Method: Composition-based stats. Identities = 26/141 (18%), Positives = 43/141 (30%), Gaps = 18/141 (12%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQID---GVLH-EI-SSIKGVH---EDLTDIILNIKGI 92 ++ N+LRRV M+ + AI VQI+ VLH E + G+ D + Sbjct: 28 LSVANSLRRVFMAEVPTIAIDWVQIETNTSVLHDEFIAHRMGLIPFLSDYHVEKMQYTRE 87 Query: 93 NLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVV--------- 143 + + A T D+ +N D VI + Sbjct: 88 CECAEFCDECSIPFILQMKCKDEATLAVTTADLRCMNNDTVIVCSKKVVTILACFQTVRP 147 Query: 144 -RMELTVSKGHGYVPAKHHRT 163 + +G G + Sbjct: 148 ACGKALRERGTGREDFHNREE 168 >gi|24213642|ref|NP_711123.1| transcription elongation factor NusA [Leptospira interrogans serovar Lai str. 56601] gi|45658541|ref|YP_002627.1| transcription elongation factor NusA [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] gi|24194444|gb|AAN48141.1| transcription elongation factor NusA [Leptospira interrogans serovar Lai str. 56601] gi|45601784|gb|AAS71264.1| NusA [Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130] Length = 460 Score = 37.3 bits (85), Expect = 3.6, Method: Composition-based stats. Identities = 15/74 (20%), Positives = 28/74 (37%) Query: 239 KEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 V+E L + LS R L+ E I + LI+ ++ D+ ++ Sbjct: 379 SPVEETKVSMEQEEEEELTPLEDLPGLSARIVGILKSEGIKDLETLIEYSQDDLAKLQGI 438 Query: 299 GRKSLVEIKGVLGT 312 G + +I +L Sbjct: 439 GHTTAGQILKLLRE 452 >gi|223932586|ref|ZP_03624586.1| conserved hypothetical protein [Streptococcus suis 89/1591] gi|223898696|gb|EEF65057.1| conserved hypothetical protein [Streptococcus suis 89/1591] Length = 128 Score = 37.3 bits (85), Expect = 3.6, Method: Composition-based stats. Identities = 7/35 (20%), Positives = 15/35 (42%) Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 I + D TE ++L + G ++ ++K Sbjct: 88 EAGIQSVADFANHTEKELLALKGIGPATIKQLKEK 122 >gi|256089309|ref|XP_002580754.1| DNA-directed rna polymerase II subunit [Schistosoma mansoni] gi|238666362|emb|CAZ36993.1| DNA-directed rna polymerase II subunit, putative [Schistosoma mansoni] Length = 266 Score = 37.3 bits (85), Expect = 3.8, Method: Composition-based stats. Identities = 38/231 (16%), Positives = 79/231 (34%), Gaps = 45/231 (19%) Query: 41 HTLGNALRRVLMSSLRGAAITAVQIDG----VLHEI-----SSIKGVHEDLTDIILNIKG 91 ++ NA+RRV ++ + AI VQI+ + E I +++ D + + Sbjct: 28 LSVANAIRRVCIAEVPTLAIDWVQIEDNNTMLNDEFIAQRVGLIPLTCDNVVDKMTYFRE 87 Query: 92 INLKMSGD-SHKRVTIFK----RGPGVVTAGDIQTVN-DIEVL-----NPDHV------- 133 + + +T+ P VT D+ + N D++ + + Sbjct: 88 CPCREFCEQCSVELTLDVCCTTDAPRHVTGADLISSNRDVQPVPSRDADESSYVGQESIL 147 Query: 134 ICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDAL---------------YS 178 I + +++ KG G AK + T +AL YS Sbjct: 148 IVKMRKGQRLKLRAIAKKGFGKEHAKWNPTAGVGFEYDPDNALRHTFLHKPEEWPRSEYS 207 Query: 179 PIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + + + G+ ++ I+T GS+ + +L+ +L Sbjct: 208 TLPENEHQAPYDPTGKP---NRFYFNIETCGSLQPRAIIFSGLTVLKRKLQ 255 >gi|124507008|ref|XP_001352101.1| DNA-directed RNA polymerase II, putative [Plasmodium falciparum 3D7] gi|23505130|emb|CAD51912.1| DNA-directed RNA polymerase II, putative [Plasmodium falciparum 3D7] Length = 335 Score = 37.3 bits (85), Expect = 3.8, Method: Composition-based stats. Identities = 28/144 (19%), Positives = 50/144 (34%), Gaps = 26/144 (18%) Query: 43 LGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIK----GVHEDLTDIILNI 89 + NALRR+++S + AI V + + + H + I V+ Sbjct: 34 IANALRRIMLSEIPTLAIDVVNVYENTSAFHDEFIAHRLGLIPIDSRNVNNYEFREKCKC 93 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT---VNDIEVLNPD----------HVICN 136 K K + V V+ DI++ ++ + P I Sbjct: 94 KETCSKCTIQYIIEVKCNHSNKIDVSHYDIESLEHEPNVPMPIPHGNKNSVSENAIPIVT 153 Query: 137 LDVDAVVRMELTVSKGHGYVPAKH 160 L + + M+L +KG G + AK Sbjct: 154 LSKNQTLHMKLIATKGIGKMHAKW 177 >gi|291276638|ref|YP_003516410.1| isocitrate dehydrogenase [Helicobacter mustelae 12198] gi|290963832|emb|CBG39668.1| isocitrate dehydrogenase [Helicobacter mustelae 12198] Length = 742 Score = 37.3 bits (85), Expect = 3.9, Method: Composition-based stats. Identities = 17/68 (25%), Positives = 36/68 (52%), Gaps = 9/68 (13%) Query: 266 SVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 S R N L +G+L++ +A++++ N S+ ++K + + G N+P++P Sbjct: 56 SQRIPNALEA-----LGELVKHKDANLIKTPNISA-SIPQLKNAIAELQAK-GYNVPNYP 108 Query: 326 --PESIEE 331 P++ EE Sbjct: 109 DNPKNQEE 116 >gi|229199623|ref|ZP_04326277.1| DNA-damage repair protein [Bacillus cereus m1293] gi|228583849|gb|EEK42013.1| DNA-damage repair protein [Bacillus cereus m1293] Length = 421 Score = 37.3 bits (85), Expect = 3.9, Method: Composition-based stats. Identities = 30/218 (13%), Positives = 64/218 (29%), Gaps = 31/218 (14%) Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 +DI ++NP M+ + G + +ID + + Sbjct: 76 SDIIIVNPIMHT---------YMKCST-YITGLALKYVAPED---FHQYSIDEFFMDMTA 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + S L + + + I + L + + K+ K Sbjct: 123 SIHLFASNPREFALKFKREIYE---------RTRIESTIGIGPNLLLSKVAMDVEAKKNK 173 Query: 243 EDINVKSLPFNPALL----KKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + I + P L + +S ++ L + I +GDL Q + + +F Sbjct: 174 DGIAHWTYDDIPEKLWRIRPLSKFWGISYKTEIKLNRKGIHTIGDLAQYPLKYLKQ--SF 231 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G E+ L + G+ + P + + Sbjct: 232 GVIG-EELH--LHSNGIDFSRIAEKYVPATTSIAKSQI 266 >gi|297543787|ref|YP_003676089.1| DNA-directed DNA polymerase [Thermoanaerobacter mathranii subsp. mathranii str. A3] gi|296841562|gb|ADH60078.1| DNA-directed DNA polymerase [Thermoanaerobacter mathranii subsp. mathranii str. A3] Length = 389 Score = 37.3 bits (85), Expect = 3.9, Method: Composition-based stats. Identities = 12/89 (13%), Positives = 38/89 (42%), Gaps = 2/89 (2%) Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRG 275 + +++ + ++ + + K + I +P L + + +S L+ Sbjct: 132 GLTISAGVSYNKFLAKLASDWNKPDGFTVITEDMIPDILKPLPVSKVYGIGEKSEERLKS 191 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLV 304 I +GDL++ ++ +++ + FG+ + Sbjct: 192 MGINTIGDLLKLSQENLVEI--FGKVGVE 218 >gi|253751300|ref|YP_003024441.1| hypothetical protein SSUSC84_0394 [Streptococcus suis SC84] gi|253753201|ref|YP_003026341.1| hypothetical protein SSU0409 [Streptococcus suis P1/7] gi|253755024|ref|YP_003028164.1| hypothetical protein SSUBM407_0397 [Streptococcus suis BM407] gi|251815589|emb|CAZ51172.1| conserved hypothetical protein [Streptococcus suis SC84] gi|251817488|emb|CAZ55229.1| conserved hypothetical protein [Streptococcus suis BM407] gi|251819446|emb|CAR44940.1| conserved hypothetical protein [Streptococcus suis P1/7] gi|292557870|gb|ADE30871.1| Superfamily II helicase [Streptococcus suis GZ1] gi|319757582|gb|ADV69524.1| hypothetical protein SSUJS14_0423 [Streptococcus suis JS14] Length = 128 Score = 37.3 bits (85), Expect = 3.9, Method: Composition-based stats. Identities = 7/35 (20%), Positives = 15/35 (42%) Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV 309 I + D TE ++L + G ++ ++K Sbjct: 88 EAGIQSVADFANHTEKELLALKGIGPATIKQLKEK 122 >gi|289577475|ref|YP_003476102.1| DNA-directed DNA polymerase [Thermoanaerobacter italicus Ab9] gi|289527188|gb|ADD01540.1| DNA-directed DNA polymerase [Thermoanaerobacter italicus Ab9] Length = 389 Score = 36.9 bits (84), Expect = 4.1, Method: Composition-based stats. Identities = 12/89 (13%), Positives = 38/89 (42%), Gaps = 2/89 (2%) Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRG 275 + +++ + ++ + + K + I +P L + + +S L+ Sbjct: 132 GLTISAGVSYNKFLAKLASDWNKPDGFTVITEDMIPDILKPLPVSKVYGIGEKSEERLKS 191 Query: 276 ENIVYMGDLIQRTEADMLRMANFGRKSLV 304 I +GDL++ ++ +++ + FG+ + Sbjct: 192 MGINTIGDLLKLSQENLVEI--FGKVGVE 218 >gi|288556417|ref|YP_003428352.1| hypothetical protein BpOF4_17085 [Bacillus pseudofirmus OF4] gi|288547577|gb|ADC51460.1| hypothetical protein BpOF4_17085 [Bacillus pseudofirmus OF4] Length = 66 Score = 36.9 bits (84), Expect = 4.1, Method: Composition-based stats. Identities = 15/55 (27%), Positives = 25/55 (45%) Query: 263 LELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFL 317 +LS + + L E I + L TE ++L++ G SL ++ L GL Sbjct: 9 SKLSSPARSALVHEGIDTLEKLSTYTEKEILKLHGVGPASLPTMRASLVEAGLSF 63 >gi|288554984|ref|YP_003426919.1| NAD-dependent DNA ligase LigA [Bacillus pseudofirmus OF4] gi|288546144|gb|ADC50027.1| NAD-dependent DNA ligase LigA [Bacillus pseudofirmus OF4] Length = 668 Score = 36.9 bits (84), Expect = 4.1, Method: Composition-based stats. Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 8/51 (15%) Query: 278 IVYMGDLIQRTEADMLRMANFGRKSLVEI--------KGVLGTMGLFLGMN 320 I + DL Q +++L++ G KS+ + + L + LG+ Sbjct: 463 IHTVADLYQLDRSELLKLERMGEKSVDNLMKAIEASKENSLEKLLFGLGIR 513 >gi|307175611|gb|EFN65520.1| DNA-directed RNA polymerase II subunit RPB3 [Camponotus floridanus] Length = 276 Score = 36.9 bits (84), Expect = 4.2, Method: Composition-based stats. Identities = 38/258 (14%), Positives = 82/258 (31%), Gaps = 55/258 (21%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + E E ++ N++RRV ++ AI +Q++ + Sbjct: 9 VHISDLTEENVKFQVEDTE----LSVANSMRRVFIAETPTMAIDWIQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 H I I + +D+ D I + + T+ + T T D + Sbjct: 65 AHRIGMIPLISDDVVDRIQFTRDCQCMDFCPECSVEFTLDVKCIEDQTR--HVTTADFKS 122 Query: 128 LNP---------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEND 166 +P + +I L +++ KG G AK + T Sbjct: 123 SDPRVLPVTSRHREDDASEYGETDEILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAGV 182 Query: 167 PIGLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSI 211 +A+ Y+ +++ Y E + Y +++ G++ Sbjct: 183 SFEYDPDNAMRHTLYPKPDEWPKSEYTELEEDQYEAPFNWEAKPNKY---YFNVESSGAL 239 Query: 212 TGEDSVALASRILQDQLG 229 E+ V + L+++L Sbjct: 240 KPENIVMMGIAALKNKLS 257 >gi|147901420|ref|NP_001085237.1| polymerase (RNA) I polypeptide C, 30kDa [Xenopus laevis] gi|47937458|gb|AAH72033.1| MGC78824 protein [Xenopus laevis] Length = 347 Score = 36.9 bits (84), Expect = 4.2, Method: Composition-based stats. Identities = 39/211 (18%), Positives = 66/211 (31%), Gaps = 46/211 (21%) Query: 9 LIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI-------- 60 K I+ + + + I E G ++ NA RR+L+S + A+ Sbjct: 45 FEKNFRIDIVKMEDD-------ILEFDMVGIDASIANAFRRILLSEVPTVAVEKVYVYNN 97 Query: 61 TA---------------VQIDGVLHEI---SSIKGVHEDLTDIILNIKGI-NLKMSGDSH 101 T+ ++ D L E +G D LN+K N + S D Sbjct: 98 TSIIQDEILAHRLGLIPIRADPRLFEYRSADDAEGTEIDTLQFELNVKCTRNPRASKDCS 157 Query: 102 KRVTIFKRGPGVVTAGDIQTVNDIEV-----------LNPDHVICNLDVDAVVRMELTVS 150 ++ V T +V ++ D +I L + + + Sbjct: 158 DPNELYLN-HKVYTGHMKWLPQGNQVDLFPETDPPRPVHKDILIAQLRPGQEINVIMHCV 216 Query: 151 KGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 KG G AK L+ L S I+ Sbjct: 217 KGIGKDHAKFSPVATASYRLLPEVTLLSSIE 247 >gi|308490301|ref|XP_003107343.1| hypothetical protein CRE_14524 [Caenorhabditis remanei] gi|308252449|gb|EFO96401.1| hypothetical protein CRE_14524 [Caenorhabditis remanei] Length = 1766 Score = 36.9 bits (84), Expect = 4.3, Method: Composition-based stats. Identities = 17/125 (13%), Positives = 37/125 (29%), Gaps = 16/125 (12%) Query: 210 SITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRS 269 S+ ++ + A+ ++ + E K KE L + L+ + Sbjct: 1436 SMDIQEILR-AASTIKKHAKILEKIENEKAADKEKEIEIHLAPKWGIDPTKSTLDEMEQL 1494 Query: 270 TNCLRGENIVYMGDLIQRTEAD---------------MLRMANFGRKSLVEIKGVLGTMG 314 L+ E + DL E + + ++ N K E+ + Sbjct: 1495 IAQLKEEGAEFQKDLESAKEEERIAHQKFVCHLDKSKIKKIENLTVKRAEELNKEADELE 1554 Query: 315 LFLGM 319 + M Sbjct: 1555 KEVNM 1559 >gi|227357076|ref|ZP_03841446.1| transcription elongation protein (N utilization substance protein A) [Proteus mirabilis ATCC 29906] gi|227162768|gb|EEI47731.1| transcription elongation protein (N utilization substance protein A) [Proteus mirabilis ATCC 29906] Length = 502 Score = 36.9 bits (84), Expect = 4.5, Method: Composition-based stats. Identities = 21/128 (16%), Positives = 46/128 (35%), Gaps = 9/128 (7%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LA+++L+ +E E N A+ + L++ L E Sbjct: 325 VRLAAQLLKKH-RGDDKWELNVMTADELNAKHQAEANAAIEIFTKHLDIDEDFATVLVEE 383 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKG----VLGTMGL----FLGMNLPDWPPES 328 + +L+ ++L + +++ ++ L T+ L LG N P + Sbjct: 384 GFSTLEELVYVPIDELLAIDGLDEETVEALRERAKAALTTIELAQKESLGDNQPAEDLLA 443 Query: 329 IEELAKKY 336 +E + + Sbjct: 444 LEGMERSL 451 >gi|212224494|ref|YP_002307730.1| ski2-like helicase [Thermococcus onnurineus NA1] gi|212009451|gb|ACJ16833.1| DNA helicase [Thermococcus onnurineus NA1] Length = 726 Score = 36.9 bits (84), Expect = 4.5, Method: Composition-based stats. Identities = 20/123 (16%), Positives = 46/123 (37%), Gaps = 10/123 (8%) Query: 216 SVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTN---C 272 + LA ++ + ++ FE K + ++ + + +E + L Sbjct: 601 ILELADWLMYSLIELYKLFEPKKDVLDYLRDLHLRLKHGVREELLELVRLPNIGRKRARA 660 Query: 273 LRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEEL 332 L D+++ +++L + G K V+ + + G+ LP +S EE Sbjct: 661 LYNAGFRTTEDIMRAKVSELLAVEGIGLK-------VVEGLFMHFGVELPKASKKSTEEN 713 Query: 333 AKK 335 K+ Sbjct: 714 RKR 716 >gi|66362260|ref|XP_628094.1| RNA polymerase II B3 subunit [Cryptosporidium parvum Iowa II] gi|46227424|gb|EAK88359.1| RNA polymerase II B3 subunit [Cryptosporidium parvum Iowa II] Length = 355 Score = 36.9 bits (84), Expect = 4.5, Method: Composition-based stats. Identities = 36/171 (21%), Positives = 57/171 (33%), Gaps = 35/171 (20%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDG--VLH-EISS 74 + + N ++ N LRR++++ + AI V ID VLH E Sbjct: 13 EITELTPNSIRFTLSNTD----LSMANTLRRIILAEIPTLAIDLVTMIDNTSVLHDEF-- 66 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVT-------IFKRGPG----VVTAGDIQT-- 121 I + NI+ N K + +R + G VT DIQ Sbjct: 67 IVHRMGLIPLDSTNIRDFNFKDRCECQERCNKCSVEYLLDVTCEGGATRNVTHYDIQPVA 126 Query: 122 ------------VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + ++ +N +I L + M +T KG G AK Sbjct: 127 TSTLVPMPVPKKDDSVDGMNNGILIAKLGPGQRIAMRMTACKGIGKFHAKW 177 >gi|289615804|emb|CBI57545.1| unnamed protein product [Sordaria macrospora] Length = 378 Score = 36.9 bits (84), Expect = 4.6, Method: Composition-based stats. Identities = 36/208 (17%), Positives = 70/208 (33%), Gaps = 45/208 (21%) Query: 5 NWQELIKPNNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAI---- 60 +W ++ K +V Q + G ++ NA RR++++ + AI Sbjct: 53 SW-DIEKFRENVRVVFHQNDPYEAQFSL----IGVDASIANAFRRIMIADIPTLAIEDIF 107 Query: 61 ----TAVQIDGVL-HEISSIK--GVHEDLTDIIL-----------NIKGINLKMSGDSHK 102 T+V D VL H + I G E L + + N + LK+ ++++ Sbjct: 108 MWNNTSVIQDEVLGHRLGLIPFTGGKEGLHNFLKWYKKGETPCDYNTVELELKVKCENNQ 167 Query: 103 RVTIFKRGPGVVTAGDIQTVNDIEVL------------------NPDHVICNLDVDAVVR 144 + P + DI+ + NPD ++ + + Sbjct: 168 NAPTDSKDPKELYHNAHVYAKDIKFVPKGRQAKYFSGENVIRPTNPDILVAKMRPGQEID 227 Query: 145 MELTVSKGHGYVPAKHHRTENDPIGLIT 172 + + + KG G AK L+ Sbjct: 228 LTMHMHKGVGSDHAKFSPVATASYRLMP 255 >gi|307202125|gb|EFN81625.1| DNA-directed RNA polymerase II subunit RPB3 [Harpegnathos saltator] Length = 276 Score = 36.9 bits (84), Expect = 4.6, Method: Composition-based stats. Identities = 39/256 (15%), Positives = 86/256 (33%), Gaps = 51/256 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + E E ++ N++RRV ++ AI +Q++ + Sbjct: 9 VHISDLTEENVKFQVEYTE----LSVANSMRRVFIAETPTMAIDWIQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG---------------INLKMSGDSHKRV-TIFKRGPG 112 H I I + +D+ D I + +++K + D + V T + Sbjct: 65 AHRIGMIPLISDDVVDRIQYTRDCQCMDFCPECSVEFTLDVKCTEDQTRHVTTADFKSSD 124 Query: 113 ----VVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPI 168 VT+ + + +I L +++ KG G AK + T Sbjct: 125 PRVLPVTSRHREDDASEYGETDEILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVSF 184 Query: 169 GLITIDAL---------------YSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITG 213 +++ YS +++ Y E + Y +++ G++ Sbjct: 185 EYDPDNSMRHTLFPKPDEWPKSEYSELEEDQYEAPFNWEAKPNKY---YFNVESSGALKP 241 Query: 214 EDSVALASRILQDQLG 229 E+ V + L+++L Sbjct: 242 ENIVMMGIAALKNKLS 257 >gi|328772591|gb|EGF82629.1| hypothetical protein BATDEDRAFT_34351 [Batrachochytrium dendrobatidis JAM81] Length = 354 Score = 36.9 bits (84), Expect = 4.7, Method: Composition-based stats. Identities = 23/150 (15%), Positives = 55/150 (36%), Gaps = 17/150 (11%) Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 A + V YT + Q Y+++ T+ + + I+ DQL Sbjct: 164 AASASCLMVDYTSYFDVKIQNAIYERIVRN-TTNTPLLFD--------IMTDQLVA---- 210 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + + E+ + + + +++++ ++ L+ + I + + T ++L+ Sbjct: 211 -DQDVMLDENDSTGEGQLDFMEIDRLQDVGINQADIAKLKTQGITTIRGIQMATSRNLLK 269 Query: 295 MANFGRKSLVEIKG---VLGTMGLFLGMNL 321 + F + +IK L G G L Sbjct: 270 VKGFSEIKVEKIKDAASKLIANGFITGTEL 299 >gi|228912455|ref|ZP_04076136.1| DNA-damage repair protein [Bacillus thuringiensis IBL 200] gi|228847192|gb|EEM92165.1| DNA-damage repair protein [Bacillus thuringiensis IBL 200] Length = 421 Score = 36.9 bits (84), Expect = 4.8, Method: Composition-based stats. Identities = 27/168 (16%), Positives = 52/168 (30%), Gaps = 18/168 (10%) Query: 164 ENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRI 223 + +ID + I + + L + + I + + I Sbjct: 104 PIEDFHQYSIDEFFMDITDSIHLFANNPYEFALTFKRE---------IYAKTRIECTIGI 154 Query: 224 LQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKV----EELELSVRSTNCLRGENIV 279 + L I + K+ K I P L + + +S ++ L + I Sbjct: 155 GPNPLMSKIALDIEAKKNKNGIAYWKYEDVPTKLWSIRPLNKFWGISYKTEEKLNRKGIH 214 Query: 280 YMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPE 327 +GDL + + NFG K E+ L + G+ + P Sbjct: 215 SIGDLANYPLKYLKQ--NFG-KIGEELH--LHSHGIDFSRISEKYVPA 257 >gi|67624207|ref|XP_668386.1| conjugation stage-specific protein [Cryptosporidium hominis TU502] gi|54659581|gb|EAL38151.1| conjugation stage-specific protein [Cryptosporidium hominis] Length = 355 Score = 36.9 bits (84), Expect = 4.9, Method: Composition-based stats. Identities = 36/171 (21%), Positives = 57/171 (33%), Gaps = 35/171 (20%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDG--VLH-EISS 74 + + N ++ N LRR++++ + AI V ID VLH E Sbjct: 13 EITELTPNSIRFTLSNTD----LSMANTLRRIILAEIPTLAIDLVTMIDNTSVLHDEF-- 66 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVT-------IFKRGPG----VVTAGDIQT-- 121 I + NI+ N K + +R + G VT DIQ Sbjct: 67 IVHRMGLIPLDSTNIRDFNFKDRCECQERCNKCSVEYLLDVTCEGGATRNVTHYDIQPVA 126 Query: 122 ------------VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + ++ +N +I L + M +T KG G AK Sbjct: 127 TSTLVPMPVPKKDDSVDGMNNGILIAKLGPGQRIAMRMTACKGIGKFHAKW 177 >gi|125984946|ref|XP_001356237.1| GA20659 [Drosophila pseudoobscura pseudoobscura] gi|195164762|ref|XP_002023215.1| GL21238 [Drosophila persimilis] gi|54644558|gb|EAL33299.1| GA20659 [Drosophila pseudoobscura pseudoobscura] gi|194105300|gb|EDW27343.1| GL21238 [Drosophila persimilis] Length = 275 Score = 36.9 bits (84), Expect = 5.0, Method: Composition-based stats. Identities = 38/260 (14%), Positives = 85/260 (32%), Gaps = 58/260 (22%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + + ++ + E ++ N+LRRV ++ AI VQ++ + Sbjct: 9 VQITELTDDNVKFVLEDTE----LSVANSLRRVFIAETPTLAIDWVQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEV 127 H I I + +D+ + + + I L + T+ + T T D++ Sbjct: 65 AHRIGLIPLISDDVVERLQYTRDCICLDFCPECSVEFTLDVKCSEEQTR--HVTTADLKT 122 Query: 128 LNP----------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTEN 165 NP + +I L +++ KG G AK + T Sbjct: 123 SNPKVLPVTSRNQGEEDNEYGESSDEILIIKLRKGQELKLRAYAKKGFGKEHAKWNPTAG 182 Query: 166 DPIGLITIDALYSPIKKVSY-------TVESAREGQ---------VLDYDKLSMTIDTDG 209 + ++ Y E +K +++ G Sbjct: 183 VCFEYDPD----NCMRHTLYPKPDEWPKSEHTELEDDQFEAPYNWEAKPNKFFFNVESSG 238 Query: 210 SITGEDSVALASRILQDQLG 229 ++ E+ V + ++L+++L Sbjct: 239 ALKPENIVIMGVQVLKNKLS 258 >gi|270013672|gb|EFA10120.1| hypothetical protein TcasGA2_TC012300 [Tribolium castaneum] Length = 448 Score = 36.9 bits (84), Expect = 5.0, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 10/62 (16%) Query: 280 YMGDLIQ--RTEADMLRMAN-FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 +G+ + T ++ ++ N F +S EIK LG + L P E I +L +++ Sbjct: 130 TLGEAVTDTYTPDELKKIKNEF--RSYDEIKKTLGDLKLT-----PKMDAEIIADLLQRH 182 Query: 337 ED 338 ++ Sbjct: 183 QE 184 >gi|195472723|ref|XP_002088649.1| GE18688 [Drosophila yakuba] gi|194174750|gb|EDW88361.1| GE18688 [Drosophila yakuba] Length = 275 Score = 36.9 bits (84), Expect = 5.0, Method: Composition-based stats. Identities = 38/258 (14%), Positives = 87/258 (33%), Gaps = 54/258 (20%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + + ++ + E ++ N+LRRV ++ AI VQ++ + Sbjct: 9 VQITELTDDNVKFVLEDTE----LSVANSLRRVFIAETPTLAIDWVQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVTIFKRGPGV----VTAGDI---- 119 H I I + +D+ + + + I L + T+ + VT D+ Sbjct: 65 AHRIGLIPLISDDVVERLQYTRDCICLDFCPECSVEFTLDVKCSEEQTRHVTTADLKSSN 124 Query: 120 ------------QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDP 167 + N+ N + +I L +++ KG G AK + T Sbjct: 125 AKVLPVTSRNQGEEDNEYGESNDEILIIKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVC 184 Query: 168 IGLITIDALYSPIKKVSY-------TVESAREGQ---------VLDYDKLSMTIDTDGSI 211 ++ ++ Y E +K +++ G++ Sbjct: 185 FEYDPDNS----MRHTLYPKPDEWPKSEHTELEDDQYEAPYNWEAKPNKFFFNVESSGAL 240 Query: 212 TGEDSVALASRILQDQLG 229 E+ V + ++L+++L Sbjct: 241 KPENIVVMGVQVLKNKLS 258 >gi|323508505|dbj|BAJ77146.1| cgd1_2710 [Cryptosporidium parvum] Length = 252 Score = 36.9 bits (84), Expect = 5.1, Method: Composition-based stats. Identities = 36/171 (21%), Positives = 57/171 (33%), Gaps = 35/171 (20%) Query: 19 VLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQ-IDG--VLH-EISS 74 + + N ++ N LRR++++ + AI V ID VLH E Sbjct: 13 EITELTPNSIRFTLSNTD----LSMANTLRRIILAEIPTLAIDLVTMIDNTSVLHDEF-- 66 Query: 75 IKGVHEDLTDIILNIKGINLKMSGDSHKRVT-------IFKRGPG----VVTAGDIQT-- 121 I + NI+ N K + +R + G VT DIQ Sbjct: 67 IVHRMGLIPLDSTNIRDFNFKDRCECQERCNKCSVEYLLDVTCEGGATRNVTHYDIQPVA 126 Query: 122 ------------VNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 + ++ +N +I L + M +T KG G AK Sbjct: 127 TSTLVPMPVPKKDDSVDGMNNGILIAKLGPGQRIAMRMTACKGIGKFHAKW 177 >gi|221107404|ref|XP_002157633.1| PREDICTED: similar to predicted protein, partial [Hydra magnipapillata] Length = 349 Score = 36.9 bits (84), Expect = 5.1, Method: Composition-based stats. Identities = 10/45 (22%), Positives = 19/45 (42%) Query: 279 VYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPD 323 Y+ D+ + E D ++ + G+K EI + L G + Sbjct: 46 YYLMDMSKSMEDDQEKLKSLGKKIAEEINKITKNYQLAFGSFVDK 90 >gi|327399680|ref|YP_004340549.1| isocitrate dehydrogenase, NADP-dependent [Hippea maritima DSM 10411] gi|327182309|gb|AEA34490.1| isocitrate dehydrogenase, NADP-dependent [Hippea maritima DSM 10411] Length = 745 Score = 36.9 bits (84), Expect = 5.2, Method: Composition-based stats. Identities = 14/51 (27%), Positives = 33/51 (64%), Gaps = 2/51 (3%) Query: 275 GENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP 325 +++ Y+G+L+ + EA+++++ N S+V++K + + G N+PD+P Sbjct: 65 NDDLAYLGELVNKPEANIIKLPNISA-SVVQLKEAIKELQEK-GYNVPDYP 113 >gi|319401348|gb|EFV89559.1| impB/mucB/samB family protein [Staphylococcus epidermidis FRI909] Length = 420 Score = 36.5 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 24/181 (13%), Positives = 50/181 (27%), Gaps = 28/181 (15%) Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 NDI ++NP M ++ + + +ID + + Sbjct: 76 NDIYIINP-------------SMRKYLNVSVAISKIALRYVPPEDLHQYSIDEFFMDVTD 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + S + + E + I + L + + K + Sbjct: 123 SYHRFNSTVFAFCKRFQNEILE---------ETGIHCTIGIGSNMLLSKVAMDIEAKHTE 173 Query: 243 EDINVKSLPFNPALLKKV----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 I P L + + ++ R+ L I +GDL + + +F Sbjct: 174 NGIAEWRYQDVPEKLWPIQPLRDFWGINKRTEKKLNKRGIFTIGDLAKYPYHYLK--RDF 231 Query: 299 G 299 G Sbjct: 232 G 232 >gi|254496140|ref|ZP_05109038.1| transcription elongation factor NusA [Legionella drancourtii LLAP12] gi|254354627|gb|EET13264.1| transcription elongation factor NusA [Legionella drancourtii LLAP12] Length = 502 Score = 36.5 bits (83), Expect = 5.4, Method: Composition-based stats. Identities = 30/134 (22%), Positives = 50/134 (37%), Gaps = 19/134 (14%) Query: 217 VALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE 276 V LAS++ L + E K +E + L + LE+ L Sbjct: 337 VRLASQLTGWTLNVMTTDEFENKNQEESSKIVKLFTSA--------LEIDEEIATLLVAH 388 Query: 277 NIVYMGDLIQRTEADMLRMANFGRKSLVEIKGV----LGTMGLFLGMNLPDWPPESI--- 329 + ++ + ++L + F + + E++ L TM L G L P ES+ Sbjct: 389 GFSSLEEVAYVPKEELLAIEEFDDEIVEELRNRANDNLLTMALTSGKGLAGAPDESLLAM 448 Query: 330 ----EELAKKYEDK 339 EELA K +K Sbjct: 449 DGMTEELANKLAEK 462 >gi|242242643|ref|ZP_04797088.1| possible DNA-directed DNA polymerase [Staphylococcus epidermidis W23144] gi|242233779|gb|EES36091.1| possible DNA-directed DNA polymerase [Staphylococcus epidermidis W23144] Length = 420 Score = 36.5 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 24/181 (13%), Positives = 50/181 (27%), Gaps = 28/181 (15%) Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 NDI ++NP M ++ + + +ID + + Sbjct: 76 NDIYIINP-------------SMRKYLNVSVAISKIALRYVPPEDLHQYSIDEFFMDVTD 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + S + + E + I + L + + K + Sbjct: 123 SYHRFNSTVFAFCKRFQNEILE---------ETGIHCTIGIGSNMLLSKVAMDIEAKHTE 173 Query: 243 EDINVKSLPFNPALLKKV----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 I P L + + ++ R+ L I +GDL + + +F Sbjct: 174 NGIAEWRYQDVPEKLWPIQPLRDFWGINKRTEKKLNKRGIFTIGDLAKYPYHYLK--RDF 231 Query: 299 G 299 G Sbjct: 232 G 232 >gi|242005128|ref|XP_002423425.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212506494|gb|EEB10687.1| conserved hypothetical protein [Pediculus humanus corporis] Length = 1014 Score = 36.5 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 24/121 (19%), Positives = 54/121 (44%), Gaps = 13/121 (10%) Query: 228 LGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQR 287 + + EE +K++KE S NP + EE ++ + + DL++ Sbjct: 825 IKLQQKMEEARKKLKELDVRLSAESNPDNISGSEEGSINSKDNQRSKRSQ----EDLVRI 880 Query: 288 TEA------DMLRMANFGRKSLVEIKGVLGTMGLFL---GMNLPDWPPESIEELAKKYED 338 ++ D+ + + GRK+L +K + L L G ++ + + +E+L ++ +D Sbjct: 881 SKVTSNAPIDVGKTGSLGRKTLESLKEIEKNRQLHLAKQGSHVIEEERKRVEQLKRRAQD 940 Query: 339 K 339 + Sbjct: 941 E 941 >gi|145328718|ref|NP_001077894.1| NRPE3B; DNA binding / DNA-directed RNA polymerase/ protein dimerization [Arabidopsis thaliana] gi|330251304|gb|AEC06398.1| DNA-directed RNA polymerase II subunit RPB3-B [Arabidopsis thaliana] Length = 235 Score = 36.5 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 4/49 (8%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + + + +++ R ++ NALRRV++S + AI V+I+ Sbjct: 12 VKIRELKDDYAKFEL----RETDVSMANALRRVMISEVPTMAIHLVKIE 56 >gi|514320|gb|AAB03740.1| RNA polymerase II third largest subunit [Arabidopsis thaliana] Length = 319 Score = 36.5 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 4/49 (8%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + + + +++ R ++ NALRRV++S + AI V+I+ Sbjct: 12 VKIRELKDDYAKFEL----RETDVSMANALRRVMISEVPTMAIHLVKIE 56 >gi|15226509|ref|NP_179142.1| NRPE3B; DNA binding / DNA-directed RNA polymerase/ protein dimerization [Arabidopsis thaliana] gi|12643753|sp|Q39212|RPB3B_ARATH RecName: Full=DNA-directed RNA polymerase II subunit RPB3-B; Short=RNA polymerase II subunit 3-B; Short=RNA polymerase II subunit B3-B; AltName: Full=DNA-directed RNA polymerase II 36 kDa polypeptide B gi|4544373|gb|AAD22284.1| DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] gi|28973621|gb|AAO64135.1| putative DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] gi|29824193|gb|AAP04057.1| putative DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] gi|110736768|dbj|BAF00345.1| DNA-directed RNA polymerase II, third largest subunit [Arabidopsis thaliana] gi|330251303|gb|AEC06397.1| DNA-directed RNA polymerase II subunit RPB3-B [Arabidopsis thaliana] Length = 319 Score = 36.5 bits (83), Expect = 5.6, Method: Composition-based stats. Identities = 12/49 (24%), Positives = 25/49 (51%), Gaps = 4/49 (8%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQID 66 + + + +++ R ++ NALRRV++S + AI V+I+ Sbjct: 12 VKIRELKDDYAKFEL----RETDVSMANALRRVMISEVPTMAIHLVKIE 56 >gi|297527612|ref|YP_003669636.1| RNA polymerase insert [Staphylothermus hellenicus DSM 12710] gi|297256528|gb|ADI32737.1| RNA polymerase insert [Staphylothermus hellenicus DSM 12710] Length = 280 Score = 36.5 bits (83), Expect = 5.8, Method: Composition-based stats. Identities = 30/147 (20%), Positives = 53/147 (36%), Gaps = 19/147 (12%) Query: 45 NALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHE---DLTDIILNIKGI 92 N++RRV+++ + AI +V + + H + I E D K Sbjct: 26 NSIRRVVIAEVPTMAIDSVVFTMNSSVFYDEYIAHRLGLIPLTSEAALDKYKSPEECKEA 85 Query: 93 NLKMSGDSHKRVTIFKRGPGV----VT--AGDIQT-VNDIEVLNPDHVICNLDVDAVVRM 145 + + V + G G VT +GD++T D++ + + I L + +R+ Sbjct: 86 SDRGLFTEDCFVKLDLEGKGEEGKLVTLHSGDLKTSDPDVKPVYDNIPIIVLGKNQEIRL 145 Query: 146 ELTVSKGHGYVPAKHHRTENDPIGLIT 172 E G G AK I Sbjct: 146 EAYARLGRGKEHAKWSPVSIAAHKYIA 172 >gi|148643488|ref|YP_001274001.1| DNA-directed RNA polymerase subunit D [Methanobrevibacter smithii ATCC 35061] gi|261350417|ref|ZP_05975834.1| RNA polymerase Rpb3/Rpb11 dimerization domain protein [Methanobrevibacter smithii DSM 2374] gi|166229318|sp|A5UN55|RPOD_METS3 RecName: Full=DNA-directed RNA polymerase subunit D gi|148552505|gb|ABQ87633.1| DNA-directed RNA polymerase, subunit D, RpoD [Methanobrevibacter smithii ATCC 35061] gi|288861200|gb|EFC93498.1| RNA polymerase Rpb3/Rpb11 dimerization domain protein [Methanobrevibacter smithii DSM 2374] Length = 274 Score = 36.5 bits (83), Expect = 5.8, Method: Composition-based stats. Identities = 44/247 (17%), Positives = 81/247 (32%), Gaps = 57/247 (23%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED---LTDIILNIK---GINLKMSG 98 NA+RR M ++ AI V I + ++ + V LT ++ N+ G+ L Sbjct: 26 NAIRRCAMVNVPKIAIEDVNI--MRNDSAMFNEVLAHRLGLTPLVSNMDAIEGLPLPGDD 83 Query: 99 DSHK----RVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 D + ++ + GP VV + D+ + + I+ + + L + +E G+ Sbjct: 84 DYEENNSVMFSLKEEGPKVVYSKDLISSDSKIKPVYDTIPLVKLKEGEKLNIEAVAKVGY 143 Query: 154 GYVPAKHHRTENDPIGLIT--------------IDALYSPIKKVSYTVESAREGQVLD-- 197 G AK T DA + K + + + D Sbjct: 144 GKEHAKWMPTTVCVYKQYPEITFNEDVGIDYECADACPRGVLKSDKRSKEIKILDIEDCA 203 Query: 198 ----------------------------YDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + I+TDGS+ ++ + A L ++ Sbjct: 204 MCKSCVRASIRNAQSEGKDESYINVGYHENDFIFRIETDGSMPPKEVLLQACDELGEKAD 263 Query: 230 MFINFEE 236 FI F E Sbjct: 264 KFIRFSE 270 >gi|156537038|ref|XP_001601281.1| PREDICTED: similar to ENSANGP00000013316 [Nasonia vitripennis] Length = 461 Score = 36.5 bits (83), Expect = 6.0, Method: Composition-based stats. Identities = 29/144 (20%), Positives = 51/144 (35%), Gaps = 3/144 (2%) Query: 194 QVLDYDKLSMTIDTDGSIT-GEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPF 252 Q LDY K+ +T GS+ G++ + +++ I Q F K ++ Sbjct: 19 QKLDYTKVYRVSET-GSLALGKEEIKMSAIIGQPFWTTFKVIPPEGKRDNKNYRKGPPST 77 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGT 312 K +L + +I G + ++ D+L + + G KS EI L Sbjct: 78 LVVAEKSDTLEDLKKAVASGCDNRSINDDGKSQKLSKDDILGLRDAG-KSGREIVSSLIE 136 Query: 313 MGLFLGMNLPDWPPESIEELAKKY 336 + I + KKY Sbjct: 137 NNASFSEKTEYSQEKYIRKKEKKY 160 >gi|189240695|ref|XP_973127.2| PREDICTED: similar to sil1 [Tribolium castaneum] Length = 391 Score = 36.5 bits (83), Expect = 6.1, Method: Composition-based stats. Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 10/62 (16%) Query: 280 YMGDLIQ--RTEADMLRMAN-FGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 +G+ + T ++ ++ N F +S EIK LG + L P E I +L +++ Sbjct: 73 TLGEAVTDTYTPDELKKIKNEF--RSYDEIKKTLGDLKLT-----PKMDAEIIADLLQRH 125 Query: 337 ED 338 ++ Sbjct: 126 QE 127 >gi|229012374|ref|ZP_04169551.1| DNA-damage repair protein [Bacillus mycoides DSM 2048] gi|228749010|gb|EEL98858.1| DNA-damage repair protein [Bacillus mycoides DSM 2048] Length = 421 Score = 36.5 bits (83), Expect = 6.1, Method: Composition-based stats. Identities = 30/218 (13%), Positives = 64/218 (29%), Gaps = 31/218 (14%) Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 DI ++NP M+ + G + +ID + + Sbjct: 76 PDIIIVNPIMHT---------YMKCST-YITGLALQYVAPED---FHQYSIDEFFMDMTA 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + S L + + + I + L + + K+ K Sbjct: 123 SIHLFASNPCEFALKFKREIYE---------RTRIESTIGIGPNLLLSKVAMDVEAKKNK 173 Query: 243 EDINVKSLPFNPALLKKV----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 + I + P L + + +S ++ L + I +GDL Q + + +F Sbjct: 174 DGIAYWTYDDIPEKLWSIRPLSKFWGISYKTEMKLNRKGIHTIGDLAQYPLKYLKQ--SF 231 Query: 299 GRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKY 336 G E+ L + G+ + P + + Sbjct: 232 GVIG-EELH--LHSNGIDFSRIAEKYVPATTSIAKSQI 266 >gi|332179033|gb|AEE14722.1| isocitrate dehydrogenase, NADP-dependent [Thermodesulfobium narugense DSM 14796] Length = 745 Score = 36.5 bits (83), Expect = 6.4, Method: Composition-based stats. Identities = 13/58 (22%), Positives = 30/58 (51%), Gaps = 2/58 (3%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 +G+L+ + + ++++ N SL ++K + + G N+PD+P E +K + Sbjct: 70 LGELVNKPDTILIKLPNISA-SLPQLKDAIKELQAK-GFNIPDYPDELKSAQDEKIRE 125 >gi|70945964|ref|XP_742745.1| DNA-directed RNA polymerase II [Plasmodium chabaudi chabaudi] gi|56521898|emb|CAH80621.1| DNA-directed RNA polymerase II, putative [Plasmodium chabaudi chabaudi] Length = 331 Score = 36.5 bits (83), Expect = 6.6, Method: Composition-based stats. Identities = 31/177 (17%), Positives = 56/177 (31%), Gaps = 33/177 (18%) Query: 13 NNIEYIVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEI 72 + I + +N I L NALRR+++S + A+ V + Sbjct: 6 SKKHEIEIKSISKNEMSFILY----NSNTALANALRRIMLSEVPTLAVDIVNVYENTSPF 61 Query: 73 --SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVT-------IFKRG---------PGVV 114 I + NIK + + + I + + Sbjct: 62 HDEFIAHRIGLIPIDSRNIKSYEFRERCKCKETCSRCTVQYIIEVKCNNANKIDVSHYDI 121 Query: 115 TAGDIQTV-----------NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKH 160 A D + N+I+ ++ I L + + M+LT +KG G + AK Sbjct: 122 EALDHEPNIPMPIPNDNKHNNIDKMDTAIPIVTLSKNQTLHMKLTATKGIGKMHAKW 178 >gi|154493649|ref|ZP_02032969.1| hypothetical protein PARMER_02989 [Parabacteroides merdae ATCC 43184] gi|154086859|gb|EDN85904.1| hypothetical protein PARMER_02989 [Parabacteroides merdae ATCC 43184] Length = 310 Score = 36.5 bits (83), Expect = 6.7, Method: Composition-based stats. Identities = 26/160 (16%), Positives = 56/160 (35%), Gaps = 6/160 (3%) Query: 137 LDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 L + +++EL K G+ P H E D Y + VE Sbjct: 57 LLSNTPLQVELDFMKIKGHTPKNTPIEHMKEFYKDFDEMQDDFYDGMIITGAPVEQMPFE 116 Query: 194 QVLDYDKLSMTI--DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +V +++++ I +T + A++ ++ P K + P Sbjct: 117 EVNYWEEVT-EIFDWARTHVTSTLYICWAAQAGLYHFYGVPKYDLPAKMFGVFRHTLREP 175 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + P +E + +R E+++ + DL +E++ Sbjct: 176 YVPIFRGFDDEFYVPHSRHTEIRREDVMKVPDLTLLSESE 215 >gi|115975016|ref|XP_001187974.1| PREDICTED: similar to p107 [Strongylocentrotus purpuratus] Length = 985 Score = 36.5 bits (83), Expect = 6.7, Method: Composition-based stats. Identities = 20/114 (17%), Positives = 38/114 (33%), Gaps = 3/114 (2%) Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 + LK + ++ + I GP +V T +I ++P I + D T Sbjct: 297 LSHECLKSNRNAPRNCNI---GPLIVNKRPSPTTPEIITIDPGMPIASEGDDIEFDCSTT 353 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + G+ + +I+ D + IK V + +KL Sbjct: 354 LEDGNAVWFPIGGEPPPEDHIIISDDGSHMAIKNVRTNDTDVMACGIFCQEKLV 407 >gi|77410377|ref|ZP_00786773.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae COH1] gi|77171014|gb|EAO74487.1| DNA-directed RNA polymerase, alpha subunit [Streptococcus agalactiae COH1] Length = 30 Score = 36.5 bits (83), Expect = 6.8, Method: Composition-based stats. Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 4/32 (12%) Query: 8 ELIKPNNIEYIVLGQEEENRTLMIAEPLPRGF 39 E KP I E ++ + EPL RG+ Sbjct: 3 EFEKP----IITKIDENKDYGRFVIEPLERGY 30 >gi|237654460|ref|YP_002890774.1| hypothetical protein Tmz1t_3808 [Thauera sp. MZ1T] gi|237625707|gb|ACR02397.1| protein of unknown function DUF820 [Thauera sp. MZ1T] Length = 187 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 18/122 (14%), Positives = 48/122 (39%), Gaps = 7/122 (5%) Query: 131 DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESA 190 DHV+ L++ + + + + ++ DA++ P VS E Sbjct: 42 DHVVVALNIATSL-------RQKLRGTPCRAYISDMQLEVMQADAVFYPDVMVSCHPEDL 94 Query: 191 REGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSL 250 +VL + ++ + + +D + + A+ + D L ++ + ++ V+ + S Sbjct: 95 AAERVLHHPRVIIEVLSDSTAAYDRGAKFAAYRMLDSLQEYVLVDPERRSVEIFRRLPSN 154 Query: 251 PF 252 + Sbjct: 155 DW 156 >gi|225871009|ref|YP_002746956.1| DNA-binding protein [Streptococcus equi subsp. equi 4047] gi|225700413|emb|CAW94788.1| putative DNA-binding protein [Streptococcus equi subsp. equi 4047] Length = 322 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 23/52 (44%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+L + N I + D T ++L + G++ + +K Sbjct: 262 ELTFLEELDLPLSKVNLFNQYGIHTLEDFSAWTTQELLDIPGVGKQMIARLK 313 >gi|218262695|ref|ZP_03477053.1| hypothetical protein PRABACTJOHN_02732 [Parabacteroides johnsonii DSM 18315] gi|218223246|gb|EEC95896.1| hypothetical protein PRABACTJOHN_02732 [Parabacteroides johnsonii DSM 18315] Length = 310 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 26/160 (16%), Positives = 56/160 (35%), Gaps = 6/160 (3%) Query: 137 LDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 L + +++EL K G+ P H E D Y + VE Sbjct: 57 LLSNTPLQVELDFMKIKGHTPKNTPIEHMQEFYKDFDEMQDDFYDGMIITGAPVEQMPFE 116 Query: 194 QVLDYDKLSMTI--DTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +V +++++ I +T + A++ ++ P K + P Sbjct: 117 EVNYWEEVT-EIFDWARTHVTSTLYICWAAQAGLYHFYGVPKYDLPAKMFGVFRHTLREP 175 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 + P +E + +R E+++ + DL +E++ Sbjct: 176 YVPIFRGFDDEFYVPHSRHTEIRREDVMKVPDLTLLSESE 215 >gi|198422271|ref|XP_002119444.1| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide C isoform 2 [Ciona intestinalis] gi|198422273|ref|XP_002119542.1| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide C isoform 3 [Ciona intestinalis] gi|198422275|ref|XP_002119306.1| PREDICTED: similar to polymerase (RNA) II (DNA directed) polypeptide C isoform 1 [Ciona intestinalis] Length = 277 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 43/263 (16%), Positives = 81/263 (30%), Gaps = 63/263 (23%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHT---LGNALRRVLMSSLRGAAITAVQIDG------- 67 + + + E+ + E T N++RRV ++ + AI +QI+ Sbjct: 9 VSITELTEDNVKFVVE-------DTDLSTANSVRRVFIAEVPTLAIDWIQIEENSSVLND 61 Query: 68 --VLHEISSIKGVHEDLTDIILNIKGINLKMSG-DSHKRVTIFKRGPGVVTAGDIQTVND 124 + H I I +D+ D I + D + + G T T D Sbjct: 62 EFLSHRIGLIPLTSDDVVDKIQYSRDCMCDDFCQDCSVEFYLDVKCTGEGTRQ--VTTRD 119 Query: 125 IEVLNP---------------------DHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + +NP D +I L ++ + KG G AK Sbjct: 120 LISMNPKVVPITSRSRGDSSKSFGEQDDILIAKLRKGQSLKFKAFAKKGFGKEHAKWQCV 179 Query: 164 ENDPIGLITIDAL---------------YS--PIKKVSYTVESAREGQVLDYDKLSMTID 206 +AL YS + Y + G+ + ++ Sbjct: 180 SAVAFEYDPDNALRHTTYPKPEEWPKSEYSELADDEDKYQADFDPHGKPNKF---FFNVE 236 Query: 207 TDGSITGEDSVALASRILQDQLG 229 + G++ E+ V +L+ +L Sbjct: 237 STGALRPENIVLNGLAVLKKKLS 259 >gi|115707234|ref|XP_792215.2| PREDICTED: similar to p107 [Strongylocentrotus purpuratus] Length = 930 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 20/114 (17%), Positives = 38/114 (33%), Gaps = 3/114 (2%) Query: 89 IKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELT 148 + LK + ++ + I GP +V T +I ++P I + D T Sbjct: 297 LSHECLKSNRNAPRNCNI---GPLIVNKRPSPTTPEIITIDPGMPIASEGDDIEFDCSTT 353 Query: 149 VSKGHGYVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLS 202 + G+ + +I+ D + IK V + +KL Sbjct: 354 LEDGNAVWFPIGGEPPPEDHIIISDDGSHMAIKNVRTNDTDVMACGIFCQEKLV 407 >gi|57242655|ref|ZP_00370592.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter upsaliensis RM3195] gi|57016584|gb|EAL53368.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter upsaliensis RM3195] Length = 734 Score = 36.1 bits (82), Expect = 6.8, Method: Composition-based stats. Identities = 17/80 (21%), Positives = 40/80 (50%), Gaps = 9/80 (11%) Query: 254 PALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKGVLGTM 313 + + E L+ + N L +G+L+++ +A++++ N S+ ++K + + Sbjct: 44 RIIAEFSESLKEEQKCENALEN-----LGELVKKADANLIKTPNISA-SIPQLKAAIEEL 97 Query: 314 GLFLGMNLPDWP--PESIEE 331 G LP++P P++ EE Sbjct: 98 QKK-GYMLPNYPDEPKNDEE 116 >gi|332017912|gb|EGI58566.1| DNA-directed RNA polymerase II subunit RPB3 [Acromyrmex echinatior] Length = 256 Score = 36.1 bits (82), Expect = 6.9, Method: Composition-based stats. Identities = 34/236 (14%), Positives = 79/236 (33%), Gaps = 31/236 (13%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDGVLHEISSIKG 77 + + E E ++ N++RRV ++ AI +Q++ + I+ Sbjct: 9 VHISDLTEENVKFQVEDTE----LSVANSMRRVFIAETPTMAIDWIQLEANSTVVDRIQY 64 Query: 78 VHE----DLTDIILNIKGINLKMSGDSHKRV-TIFKRGPG----VVTAGDIQTVNDIEVL 128 + D +++K + + + V T + VT+ + Sbjct: 65 TRDCQCMDFCPECSVEFTLDVKCTEEQTRHVTTADFKSSDPRVLPVTSRHREDDASEYGE 124 Query: 129 NPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID-------------- 174 + +I L +++ KG G AK + T + Sbjct: 125 TDEILIVKLRKGQELKLRAYAKKGFGKEHAKWNPTAGVSFEYDPDNTMRHTLFPKADEWP 184 Query: 175 -ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 + YS +++ Y E + Y +++ G++ E+ V + L+++L Sbjct: 185 KSEYSELEEDQYEASFNWEAKPNKY---YFNVESSGALKPENIVMMGIAALKNKLS 237 >gi|167044506|gb|ABZ09181.1| putative RNA polymerase Rpb3/RpoA insert domain protein [uncultured marine crenarchaeote HF4000_APKG6J21] Length = 200 Score = 36.1 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 29/183 (15%), Positives = 59/183 (32%), Gaps = 40/183 (21%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRR+ ++ + AI V I +G+ + I + +L + + L Sbjct: 26 ANALRRICLNGVPIFAIDTVDIIENSSVIPDEGLALTLGMIP-LKTELNGFDESNSRVIL 84 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 + ++ + I A ++ ++ I +L +++E G G Sbjct: 85 VLDSEAAETTKIVTS------AELESKDQVVKPISKQIPIVHLAPGQRIKLEAYARLGRG 138 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 AK + A S + E +T++T GS+ Sbjct: 139 TEHAKWNS------------ANISVLTNADKEGEH------------ILTVETTGSLEPR 174 Query: 215 DSV 217 + Sbjct: 175 QII 177 >gi|86149178|ref|ZP_01067410.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni CF93-6] gi|88596941|ref|ZP_01100177.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 84-25] gi|218562183|ref|YP_002343962.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni NCTC 11168] gi|85840536|gb|EAQ57793.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni CF93-6] gi|88190630|gb|EAQ94603.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 84-25] gi|112359889|emb|CAL34677.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni NCTC 11168] Length = 734 Score = 36.1 bits (82), Expect = 7.0, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|195978634|ref|YP_002123878.1| hypothetical protein Sez_1532 [Streptococcus equi subsp. zooepidemicus MGCS10565] gi|195975339|gb|ACG62865.1| hypothetical protein Sez_1532 [Streptococcus equi subsp. zooepidemicus MGCS10565] Length = 322 Score = 36.1 bits (82), Expect = 7.1, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 23/52 (44%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+L + N I + D T ++L + G++ + +K Sbjct: 262 ELTFLEELDLPLSKVNLFNQYGIHTLEDFSAWTTQELLDIPGVGKQMIARLK 313 >gi|57238269|ref|YP_178650.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni RM1221] gi|57167073|gb|AAW35852.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni RM1221] gi|315057949|gb|ADT72278.1| Isocitrate dehydrogenase (NADP) ; Monomeric isocitrate dehydrogenase (NADP) [Campylobacter jejuni subsp. jejuni S3] Length = 734 Score = 36.1 bits (82), Expect = 7.1, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|225868039|ref|YP_002743987.1| DNA-binding protein [Streptococcus equi subsp. zooepidemicus] gi|225701315|emb|CAW98334.1| putative DNA-binding protein [Streptococcus equi subsp. zooepidemicus] Length = 322 Score = 36.1 bits (82), Expect = 7.2, Method: Composition-based stats. Identities = 12/52 (23%), Positives = 23/52 (44%) Query: 256 LLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIK 307 L +EEL+L + N I + D T ++L + G++ + +K Sbjct: 262 ELTFLEELDLPLSKVNLFNQYGIHTLEDFSAWTTQELLDIPGVGKQMIARLK 313 >gi|189212048|ref|XP_001942351.1| fatty acid synthase subunit alpha reductase [Pyrenophora tritici-repentis Pt-1C-BFP] gi|187979550|gb|EDU46176.1| fatty acid synthase subunit alpha reductase [Pyrenophora tritici-repentis Pt-1C-BFP] Length = 1618 Score = 36.1 bits (82), Expect = 7.2, Method: Composition-based stats. Identities = 27/140 (19%), Positives = 54/140 (38%), Gaps = 28/140 (20%) Query: 204 TIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLPFNPALLKKVEEL 263 +++DGS++ E + +A + + + D + + A K V++ Sbjct: 916 EMESDGSLSLEGCIEMA---------WIMGLIKHQTANPMDDDGVVGWVDAATQKPVKDS 966 Query: 264 ELS-VRSTNCLRGENIVYMG-DLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNL 321 E+ + L I + ++ +F ++SL E L L +L Sbjct: 967 EIPAQYLSRILEHSGIRTIEPEICDNGYD-----PDF-KESLQE---------LVLKRDL 1011 Query: 322 PDWP--PESIEELAKKYEDK 339 P + ES E+L +K+ DK Sbjct: 1012 PPFETSAESAEDLRRKHGDK 1031 >gi|27467964|ref|NP_764601.1| DNA-damage repair protein [Staphylococcus epidermidis ATCC 12228] gi|57866878|ref|YP_188513.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis RP62A] gi|251810796|ref|ZP_04825269.1| possible DNA-directed DNA polymerase [Staphylococcus epidermidis BCM-HMP0060] gi|282876200|ref|ZP_06285067.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis SK135] gi|293366670|ref|ZP_06613347.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis M23864:W2(grey)] gi|27315509|gb|AAO04643.1|AE016747_140 DNA-damage repair protein [Staphylococcus epidermidis ATCC 12228] gi|57637536|gb|AAW54324.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis RP62A] gi|251805631|gb|EES58288.1| possible DNA-directed DNA polymerase [Staphylococcus epidermidis BCM-HMP0060] gi|281295225|gb|EFA87752.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis SK135] gi|291319439|gb|EFE59808.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis M23864:W2(grey)] gi|329729814|gb|EGG66210.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis VCU144] gi|329735718|gb|EGG72000.1| ImpB/MucB/SamB family protein [Staphylococcus epidermidis VCU045] Length = 420 Score = 36.1 bits (82), Expect = 7.2, Method: Composition-based stats. Identities = 24/181 (13%), Positives = 50/181 (27%), Gaps = 28/181 (15%) Query: 123 NDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIKK 182 NDI ++NP M ++ + + +ID + + Sbjct: 76 NDIYIINP-------------SMRKYLNVSVAISKIALRYVPPEDLHQYSIDEFFMDVTD 122 Query: 183 VSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVK 242 + S + + E + I + L + + K + Sbjct: 123 SYHRFNSTVFAFCKRFQNEILE---------ETGIHCTIGIGSNMLLSKVAMDIEAKHSE 173 Query: 243 EDINVKSLPFNPALLKKV----EELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANF 298 I P L + + ++ R+ L I +GDL + + +F Sbjct: 174 NGIAEWRYQDVPEKLWPIQPLRDFWGINKRTEKKLNKRGIFTIGDLAKYPYHYLK--RDF 231 Query: 299 G 299 G Sbjct: 232 G 232 >gi|303256975|ref|ZP_07342989.1| transcription termination factor NusA [Burkholderiales bacterium 1_1_47] gi|330999163|ref|ZP_08322882.1| transcription termination factor NusA [Parasutterella excrementihominis YIT 11859] gi|302860466|gb|EFL83543.1| transcription termination factor NusA [Burkholderiales bacterium 1_1_47] gi|329575363|gb|EGG56907.1| transcription termination factor NusA [Parasutterella excrementihominis YIT 11859] Length = 499 Score = 36.1 bits (82), Expect = 7.3, Method: Composition-based stats. Identities = 9/74 (12%), Positives = 27/74 (36%) Query: 234 FEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADML 293 +E + + + P + + L++ L I + ++ E ++L Sbjct: 345 WEIEVMDDDQAAKKREDEIAPRRQELCDRLDIDEEVAQVLIENGIETLEEVAYLPEEELL 404 Query: 294 RMANFGRKSLVEIK 307 + F ++ E++ Sbjct: 405 SIEQFDEDTVKELR 418 >gi|205355387|ref|ZP_03222158.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni CG8421] gi|205346621|gb|EDZ33253.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni CG8421] Length = 734 Score = 36.1 bits (82), Expect = 7.3, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|86153463|ref|ZP_01071667.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni HB93-13] gi|85843189|gb|EAQ60400.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni HB93-13] Length = 734 Score = 36.1 bits (82), Expect = 7.3, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|157414812|ref|YP_001482068.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 81116] gi|157385776|gb|ABV52091.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 81116] gi|307747450|gb|ADN90720.1| Isocitrate dehydrogenase [NADP] [Campylobacter jejuni subsp. jejuni M1] gi|315931725|gb|EFV10680.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 327] Length = 734 Score = 36.1 bits (82), Expect = 7.3, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|86151846|ref|ZP_01070060.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 260.94] gi|85841475|gb|EAQ58723.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 260.94] Length = 734 Score = 36.1 bits (82), Expect = 7.4, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|315927029|gb|EFV06384.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni DFVF1099] gi|315930923|gb|EFV09903.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 305] Length = 767 Score = 36.1 bits (82), Expect = 7.5, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 99 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 150 >gi|315124055|ref|YP_004066059.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni ICDCCJ07001] gi|315017777|gb|ADT65870.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni ICDCCJ07001] Length = 734 Score = 36.1 bits (82), Expect = 7.5, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|47223252|emb|CAF98636.1| unnamed protein product [Tetraodon nigroviridis] Length = 1830 Score = 36.1 bits (82), Expect = 7.7, Method: Composition-based stats. Identities = 44/265 (16%), Positives = 85/265 (32%), Gaps = 28/265 (10%) Query: 66 DGVLHEI----SSIKGVHEDLTDIILNIKGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT 121 D V +E S V +++ + ++ ++ S +RV + A + Sbjct: 320 DSVFNEYRLIMSERDQVIKEVDKLQTELESAEARLKNTSSERVVAS----EELEALRQEL 375 Query: 122 VNDIEVLNPDHVICNLDV-------DAVVRMELTVSKGHGYVPAKHHRTENDPIGLITID 174 + +++ D IC + + + E + R E D G + Sbjct: 376 NSS--LVDRDRAICERNELLEKYCHEVKDKAEAQKELSQACKDIEMVREERDVAGKERTE 433 Query: 175 ALYSPIKKVSYTVESAREGQ-----VLDYDKLSMTIDTDGSITGEDSVALASRILQDQLG 229 A+ I++ E + Q L++D ++ E + +L+ Q Sbjct: 434 AI---IQRDQLLREYYQARQVAATAGLNFDSTRSEKQDTATLDMERANKE-IEVLRKQYE 489 Query: 230 MFINFEEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQ--R 287 + + E + K V E E + LR E + DL R Sbjct: 490 AMSQELKEATQEAEVAKCRRDWAFQERDKIVAERESIRTLCDNLRRERDRAVSDLADALR 549 Query: 288 TEADMLRMANFGRKSLVEIKGVLGT 312 DM + N + L EIK + + Sbjct: 550 NLDDMRKQKNDALRELKEIKEKMES 574 >gi|284925794|gb|ADC28146.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni IA3902] Length = 767 Score = 36.1 bits (82), Expect = 7.9, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 99 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 150 >gi|330433115|gb|AEC18174.1| transcription elongation factor NusA [Gallibacterium anatis UMN179] Length = 495 Score = 36.1 bits (82), Expect = 7.9, Method: Composition-based stats. Identities = 25/170 (14%), Positives = 49/170 (28%), Gaps = 36/170 (21%) Query: 202 SMTIDTDGSITGEDSVALASRILQ---------DQLGMFINFEEPKKEVKEDINVKSLPF 252 ++I D D A+ + Q + ++ E N L Sbjct: 293 VVSIVVDEDKKSMDIAVEAANLAQAIGRNGQNVNLASRLTGWKLNVMSSDELENKHQLEN 352 Query: 253 NPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLRMANFGRKSLVEIKG---- 308 + +E L+L N L E + ++ ++L + F E++ Sbjct: 353 QKTVNLFMESLDLDEEFANLLTEEGFRTLEEIAYVPTEELLEIDGFDEDLAEELRNRAKE 412 Query: 309 -----------------------VLGTMGLFLGMNLPDWPPESIEELAKK 335 L M L + L + ++EELA++ Sbjct: 413 VLTKIALAEEQALANIDVEEALLKLDGMNRHLAVKLAEKKITTLEELAEQ 462 >gi|150008125|ref|YP_001302868.1| homoserine O-succinyltransferase [Parabacteroides distasonis ATCC 8503] gi|255015078|ref|ZP_05287204.1| homoserine O-succinyltransferase [Bacteroides sp. 2_1_7] gi|256840696|ref|ZP_05546204.1| homoserine O-succinyltransferase [Parabacteroides sp. D13] gi|262381300|ref|ZP_06074438.1| homoserine O-succinyltransferase [Bacteroides sp. 2_1_33B] gi|298376450|ref|ZP_06986405.1| homoserine O-succinyltransferase [Bacteroides sp. 3_1_19] gi|301309770|ref|ZP_07215709.1| homoserine O-succinyltransferase [Bacteroides sp. 20_3] gi|166233685|sp|A6LC32|META_PARD8 RecName: Full=Homoserine O-succinyltransferase; AltName: Full=Homoserine O-transsuccinylase; Short=HTS gi|149936549|gb|ABR43246.1| homoserine O-succinyltransferase [Parabacteroides distasonis ATCC 8503] gi|256737968|gb|EEU51294.1| homoserine O-succinyltransferase [Parabacteroides sp. D13] gi|262296477|gb|EEY84407.1| homoserine O-succinyltransferase [Bacteroides sp. 2_1_33B] gi|298266328|gb|EFI07986.1| homoserine O-succinyltransferase [Bacteroides sp. 3_1_19] gi|300831344|gb|EFK61975.1| homoserine O-succinyltransferase [Bacteroides sp. 20_3] Length = 310 Score = 36.1 bits (82), Expect = 7.9, Method: Composition-based stats. Identities = 26/160 (16%), Positives = 54/160 (33%), Gaps = 6/160 (3%) Query: 137 LDVDAVVRMELTVSKGHGYVPAK---HHRTENDPIGLITIDALYSPIKKVSYTVESAREG 193 L + +++EL K G+ P H E D Y + VE Sbjct: 57 LLSNTPLQVELDFMKIKGHTPKNTPIEHMQEFYKDFDEMADDFYDGMIVTGAPVEQMPFE 116 Query: 194 QVLDYDKL--SMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEVKEDINVKSLP 251 +V ++++ +T + A++ ++ P K + P Sbjct: 117 EVSYWEEITQIFD-WARTHVTSTLYICWAAQAGLYHFYGVPKYDLPAKMFGVFRHSLREP 175 Query: 252 FNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEAD 291 F P +E + +R E+I+ + +L +E++ Sbjct: 176 FVPIFRGFDDEFFVPHSRHTEIRREDIMKVPELTLLSESE 215 >gi|283955953|ref|ZP_06373443.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni 1336] gi|283792613|gb|EFC31392.1| isocitrate dehydrogenase [Campylobacter jejuni subsp. jejuni 1336] Length = 767 Score = 36.1 bits (82), Expect = 8.0, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 99 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 150 >gi|121612541|ref|YP_001000231.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 81-176] gi|167005187|ref|ZP_02270945.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 81-176] gi|121504172|gb|EAQ73167.2| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 81-176] Length = 767 Score = 36.1 bits (82), Expect = 8.1, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 99 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 150 >gi|153951562|ref|YP_001398441.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. doylei 269.97] gi|152939008|gb|ABS43749.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. doylei 269.97] Length = 767 Score = 36.1 bits (82), Expect = 8.1, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 99 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 150 >gi|12545427|ref|NP_074977.1| hypothetical protein AsloCp17 [Euglena longa] gi|12329891|emb|CAC24588.1| hypothetical protein [Euglena longa] Length = 170 Score = 36.1 bits (82), Expect = 8.1, Method: Composition-based stats. Identities = 23/158 (14%), Positives = 63/158 (39%), Gaps = 27/158 (17%) Query: 69 LHEISSIKGVHEDLTDIILNIKGINLKMSGDSHK----RVTIFKRGPGVVTAGDIQTV-- 122 ++E I+ + E+L++I +N+K + K + ++K + + +A DI Sbjct: 27 VNEFFDIEEIKENLSNICINLKKLRFKFNPKNNKEKKTFIILNSFNKKSFSAKDIIIPST 86 Query: 123 NDIEVLNPDHVICN-LDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK 181 ++++++N + N + +++ + + Y Y+PIK Sbjct: 87 SNLKIVNLKEHLFNKISQKINLKVLIKIENNENY--------------------FYNPIK 126 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVAL 219 ++++ +E L+ I+ + +S+ Sbjct: 127 RINFILEKNNNIGKYIILDLNSDININPFKAFIESLKY 164 >gi|170064093|ref|XP_001867382.1| myosin I [Culex quinquefasciatus] gi|167881523|gb|EDS44906.1| myosin I [Culex quinquefasciatus] Length = 488 Score = 36.1 bits (82), Expect = 8.2, Method: Composition-based stats. Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 6/67 (8%) Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMG-DLIQRTEADMLRMANFGR 300 ++D V + A +K +EE + R+ + G DL + +E D+ + FG+ Sbjct: 105 EDDAQVGEDEVDLAKMKSLEEKSKNSRARVHYKK---FTRGKDLSRASEKDLANI--FGK 159 Query: 301 KSLVEIK 307 KSL E+K Sbjct: 160 KSLEEVK 166 >gi|222445013|ref|ZP_03607528.1| hypothetical protein METSMIALI_00629 [Methanobrevibacter smithii DSM 2375] gi|222434578|gb|EEE41743.1| hypothetical protein METSMIALI_00629 [Methanobrevibacter smithii DSM 2375] Length = 274 Score = 36.1 bits (82), Expect = 8.3, Method: Composition-based stats. Identities = 45/247 (18%), Positives = 82/247 (33%), Gaps = 57/247 (23%) Query: 45 NALRRVLMSSLRGAAITAVQIDGVLHEISSIKGVHED---LTDIILNIK---GINLKMSG 98 NA+RR M ++ AI V I + ++ + V LT ++ N+ G+ L Sbjct: 26 NAIRRCAMVNVPKIAIEDVNI--MRNDSAMFNEVLAHRLGLTPLVSNMDAIEGLPLPGDD 83 Query: 99 DSHK----RVTIFKRGPGVVTAGDIQT-VNDIEVLNPDHVICNLDVDAVVRMELTVSKGH 153 D + ++ + GP VV + D+ + + I+ + + L + +E G+ Sbjct: 84 DYEENNSVMFSLKEEGPKVVYSKDLISSDSKIKPVYDTIPLVKLKEGEKLNIEAVAKVGY 143 Query: 154 GYVPAKHHRTENDPIGLIT--------------IDALYSPIKKVSYTVESARE------- 192 G AK T DA + K + + Sbjct: 144 GKEHAKWMPTTVCVYKQYPEITFNEDVGIDYECADACPRGVLKSDKRSKEIKILDIENCA 203 Query: 193 ----------------GQVLDY-------DKLSMTIDTDGSITGEDSVALASRILQDQLG 229 G+ Y + I+TDGS+ ++ + A L ++ Sbjct: 204 MCKSCVRASIRNAQSEGKDESYINVGYHENDFIFRIETDGSMPPKEVLLQACDELGEKAD 263 Query: 230 MFINFEE 236 FI F E Sbjct: 264 KFIRFSE 270 >gi|17137650|ref|NP_477419.1| RNA polymerase II 33kD subunit [Drosophila melanogaster] gi|4490379|emb|CAB38635.1| RNA polymerase II p33 subunit [Drosophila melanogaster] gi|7298103|gb|AAF53342.1| RNA polymerase II 33kD subunit [Drosophila melanogaster] gi|16767948|gb|AAL28192.1| GH07456p [Drosophila melanogaster] gi|220944002|gb|ACL84544.1| RpII33-PA [synthetic construct] gi|220953902|gb|ACL89494.1| RpII33-PA [synthetic construct] Length = 275 Score = 36.1 bits (82), Expect = 8.3, Method: Composition-based stats. Identities = 30/176 (17%), Positives = 62/176 (35%), Gaps = 34/176 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + + ++ + E ++ N+LRRV ++ AI VQ++ + Sbjct: 9 VQITELTDDNVKFVLEDTE----LSVANSLRRVFIAETPTLAIDWVQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVTIFKRGPGV----VTAGDI---- 119 H I I + +D+ + + + I L + T+ + VT D+ Sbjct: 65 AHRIGLIPLISDDVVERLQYTRDCICLDFCPECSVEFTLDVKCSEEQTRHVTTADLKSSN 124 Query: 120 ------------QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + N+ N + +I L +++ KG G AK + T Sbjct: 125 AKVLPVTSRNQGEEDNEYGESNDEILIIKLRKGQELKLRAYAKKGFGKEHAKWNPT 180 >gi|283954181|ref|ZP_06371706.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 414] gi|283794460|gb|EFC33204.1| isocitrate dehydrogenase, NADP-dependent [Campylobacter jejuni subsp. jejuni 414] Length = 734 Score = 36.1 bits (82), Expect = 8.4, Method: Composition-based stats. Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 4/54 (7%) Query: 281 MGDLIQRTEADMLRMANFGRKSLVEIKGVLGTMGLFLGMNLPDWP--PESIEEL 332 +G+L++R++A++++ N S+ ++K + + G LP++P P++ EEL Sbjct: 66 LGELVKRSDANLIKTPNISA-SIPQLKAAIKELQDK-GYMLPNYPDEPKNDEEL 117 >gi|160880928|ref|YP_001559896.1| hypothetical protein Cphy_2797 [Clostridium phytofermentans ISDg] gi|189039771|sp|A9KNY7|Y2797_CLOPH RecName: Full=UPF0210 protein Cphy_2797 gi|160429594|gb|ABX43157.1| protein of unknown function DUF711 [Clostridium phytofermentans ISDg] Length = 454 Score = 36.1 bits (82), Expect = 8.5, Method: Composition-based stats. Identities = 34/265 (12%), Positives = 80/265 (30%), Gaps = 23/265 (8%) Query: 73 SSIKGVHEDLTDIILNIKGINL-------KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDI 125 S+++ +++++ D I + + + G I ++ A +T +D Sbjct: 36 SNLEELNQNIYDKITTVAKDLVTTGKKIERQFGIPVVNKRISVTPIAMIGASACKTPSDF 95 Query: 126 EVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRTENDPIGLITIDALYSPIK---- 181 + V + G ++ E+ P L + + S + Sbjct: 96 VTIAKTLDRAANTVGVNFIGGYSALVSKGMTSSERLLIESIPEALAVTERVCSSVNVGST 155 Query: 182 KVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINFEEPKKEV 241 K +++ + + D T + D S+ V + + + + Sbjct: 156 KTGINMDAVKLLGQIMLDTAEYTKEKD-SLGCAKLVIFCNAPDDNPFMAGAFHGVTEADA 214 Query: 242 KEDINVKSLPFNPALLKKVEELELSVRSTNCLRGE-NIVYMGDLIQRTEADMLRMANFGR 300 ++ V L+ V + + I +G L+ + ML + FG Sbjct: 215 IINVGVSGPGVVKTALESVRGEDFGTLCETIKKTAFKITRVGQLVAMEASKMLNIP-FGI 273 Query: 301 KSL---------VEIKGVLGTMGLF 316 L + +L +GL Sbjct: 274 VDLSLAPTPAVGDSVAEILQEIGLE 298 >gi|222529563|ref|YP_002573445.1| hypothetical protein Athe_1576 [Caldicellulosiruptor bescii DSM 6725] gi|222456410|gb|ACM60672.1| conserved hypothetical protein [Caldicellulosiruptor bescii DSM 6725] Length = 538 Score = 36.1 bits (82), Expect = 8.7, Method: Composition-based stats. Identities = 25/166 (15%), Positives = 60/166 (36%), Gaps = 21/166 (12%) Query: 175 ALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGEDSVALASRILQDQLGMFINF 234 +L+ + S+ S R GQ L I+T+G + + S+ + Q + I Sbjct: 166 SLFLTVAFPSWLFNSIRVGQRLKVVLTEYDIETEGFVDAKSSLFYVNDNGQSVFDVKICV 225 Query: 235 EEPKKEVKEDINVKSLPFNPALLKKVEELELSVRSTNCLRGENIVYMGDLIQRTEADMLR 294 + + + + + +++ + E I+ M +++ ++E + R Sbjct: 226 DNEGRSLPSGAKAFCVITSKNPYQEIRSV-----------NEGILKMDEIVIKSEVE-GR 273 Query: 295 MANFGRKSLVEIK--GVLGTMGLFLGMNLPDWPPESIEELAKKYED 338 + K IK +L ++ E I+ L + ++ Sbjct: 274 IKKIFVKQYDRIKKGDILIEF---FDQDI----KEQIDGLKDQIDE 312 >gi|195338303|ref|XP_002035764.1| GM15286 [Drosophila sechellia] gi|194129644|gb|EDW51687.1| GM15286 [Drosophila sechellia] Length = 275 Score = 35.7 bits (81), Expect = 8.9, Method: Composition-based stats. Identities = 30/176 (17%), Positives = 62/176 (35%), Gaps = 34/176 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + + ++ + E ++ N+LRRV ++ AI VQ++ + Sbjct: 9 VQITELTDDNVKFVLEDTE----LSVANSLRRVFIAETPTLAIDWVQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVTIFKRGPGV----VTAGDI---- 119 H I I + +D+ + + + I L + T+ + VT D+ Sbjct: 65 AHRIGLIPLISDDVVERLQYTRDCICLDFCPECSVEFTLDVKCSEEQTRHVTTADLKSSN 124 Query: 120 ------------QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + N+ N + +I L +++ KG G AK + T Sbjct: 125 AKVLPVTSRHQGEEDNEYGESNDEILIIKLRKGQELKLRAYAKKGFGKEHAKWNPT 180 >gi|195579088|ref|XP_002079394.1| GD23930 [Drosophila simulans] gi|194191403|gb|EDX04979.1| GD23930 [Drosophila simulans] Length = 275 Score = 35.7 bits (81), Expect = 9.0, Method: Composition-based stats. Identities = 30/176 (17%), Positives = 62/176 (35%), Gaps = 34/176 (19%) Query: 18 IVLGQEEENRTLMIAEPLPRGFAHTLGNALRRVLMSSLRGAAITAVQIDG---------V 68 + + + ++ + E ++ N+LRRV ++ AI VQ++ + Sbjct: 9 VQITELTDDNVKFVLEDTE----LSVANSLRRVFIAETPTLAIDWVQLEANSTVLSDEFL 64 Query: 69 LHEISSIKGVHEDLTDIILNIKG-INLKMSGDSHKRVTIFKRGPGV----VTAGDI---- 119 H I I + +D+ + + + I L + T+ + VT D+ Sbjct: 65 AHRIGLIPLISDDVVERLQYTRDCICLDFCPECSVEFTLDVKCSEEQTRHVTTADLKSSN 124 Query: 120 ------------QTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHGYVPAKHHRT 163 + N+ N + +I L +++ KG G AK + T Sbjct: 125 AKVLPVTSRNQGEEDNEYGESNDEILIIKLRKGQELKLRAYAKKGFGKEHAKWNPT 180 >gi|156097458|ref|XP_001614762.1| DNA-directed RNA polymerase II [Plasmodium vivax SaI-1] gi|148803636|gb|EDL45035.1| DNA-directed RNA polymerase II, putative [Plasmodium vivax] Length = 333 Score = 35.7 bits (81), Expect = 9.0, Method: Composition-based stats. Identities = 28/146 (19%), Positives = 50/146 (34%), Gaps = 28/146 (19%) Query: 43 LGNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIK----GVHEDLTDIILNI 89 + NALRR+++S + AI V + + + H + I V Sbjct: 35 MANALRRIMLSEIPTLAIDVVNVYENTSPFHDEFLAHRLGLIPIDSTNVKNFEFREKCKC 94 Query: 90 KGINLKMSGDSHKRVTIFKRGPGVVTAGDIQT---VNDIEVLNP------------DHVI 134 K K + +V +T DI++ ++ + P I Sbjct: 95 KETCSKCTIQYLIQVKCNNVSKIEITHHDIESVEHEPNVPMPVPLEDRNNQMAESNAIPI 154 Query: 135 CNLDVDAVVRMELTVSKGHGYVPAKH 160 L + + M+L +KG G + AK Sbjct: 155 VTLSKNQTLHMKLIATKGIGKMHAKW 180 >gi|167044152|gb|ABZ08834.1| putative RNA polymerase Rpb3/RpoA insert domain protein [uncultured marine crenarchaeote HF4000_APKG5E24] Length = 200 Score = 35.7 bits (81), Expect = 9.7, Method: Composition-based stats. Identities = 29/183 (15%), Positives = 60/183 (32%), Gaps = 40/183 (21%) Query: 44 GNALRRVLMSSLRGAAITAVQI---------DGVLHEISSIKGVHEDLTDIILNIKGINL 94 NALRR+ ++ + AI V I +G+ + I + +L + + L Sbjct: 26 ANALRRICLNGVPIFAIDTVDIIENSSVIPDEGLALTLGMIP-LKTELNGFDESNSRVIL 84 Query: 95 KMSGDSHKRVTIFKRGPGVVTAGDIQTVNDIEVLNPDHVICNLDVDAVVRMELTVSKGHG 154 + ++ + I A ++ ++ I +L +++E G G Sbjct: 85 VLDSEAAETTKIVTS------AELESKDQVVKPISKQIPIVHLAPGQRIKLEAYARLGRG 138 Query: 155 YVPAKHHRTENDPIGLITIDALYSPIKKVSYTVESAREGQVLDYDKLSMTIDTDGSITGE 214 AK + A S + E +T++T GS+ + Sbjct: 139 TEHAKWNS------------ANISVLTNADKEGEH------------ILTVETTGSLEPK 174 Query: 215 DSV 217 + Sbjct: 175 QII 177 Database: nr Posted date: May 13, 2011 4:10 AM Number of letters in database: 999,999,932 Number of sequences in database: 2,987,209 Database: /data/usr2/db/fasta/nr.01 Posted date: May 13, 2011 4:17 AM Number of letters in database: 999,998,956 Number of sequences in database: 2,896,973 Database: /data/usr2/db/fasta/nr.02 Posted date: May 13, 2011 4:23 AM Number of letters in database: 999,999,979 Number of sequences in database: 2,907,862 Database: /data/usr2/db/fasta/nr.03 Posted date: May 13, 2011 4:29 AM Number of letters in database: 999,999,513 Number of sequences in database: 2,932,190 Database: /data/usr2/db/fasta/nr.04 Posted date: May 13, 2011 4:33 AM Number of letters in database: 792,586,372 Number of sequences in database: 2,260,650 Lambda K H 0.312 0.142 0.404 Lambda K H 0.267 0.0436 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 3,247,929,520 Number of Sequences: 13984884 Number of extensions: 159309041 Number of successful extensions: 441833 Number of sequences better than 10.0: 3788 Number of HSP's better than 10.0 without gapping: 3339 Number of HSP's successfully gapped in prelim test: 449 Number of HSP's that attempted gapping in prelim test: 432508 Number of HSP's gapped (non-prelim): 4086 length of query: 340 length of database: 4,792,584,752 effective HSP length: 139 effective length of query: 201 effective length of database: 2,848,685,876 effective search space: 572585861076 effective search space used: 572585861076 T: 11 A: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.3 bits) S2: 82 (36.1 bits)